├── .gitignore ├── LICENSE ├── README.md ├── refDB └── FANTOM5 │ ├── 10090_HID.csv.zip │ ├── 10090_map.csv │ ├── 10090_symbol.csv.zip │ ├── 9606_HID.csv.zip │ ├── 9606_map.csv │ ├── 9606_symbol.csv.zip │ ├── hgmm_samples_oto.txt │ ├── homologene.data │ ├── human_samples_oto.txt │ └── mouse_samples_oto.txt ├── requirements.txt ├── scMatch.py ├── toTerms.py └── visAnnos.py /.gitignore: -------------------------------------------------------------------------------- 1 | # Byte-compiled / optimized / DLL files 2 | __pycache__/ 3 | *.py[cod] 4 | *$py.class 5 | 6 | # C extensions 7 | *.so 8 | 9 | # Distribution / packaging 10 | .Python 11 | build/ 12 | develop-eggs/ 13 | dist/ 14 | downloads/ 15 | eggs/ 16 | .eggs/ 17 | lib/ 18 | lib64/ 19 | parts/ 20 | sdist/ 21 | var/ 22 | wheels/ 23 | *.egg-info/ 24 | .installed.cfg 25 | *.egg 26 | MANIFEST 27 | 28 | # PyInstaller 29 | # Usually these files are written by a python script from a template 30 | # before PyInstaller builds the exe, so as to inject date/other infos into it. 31 | *.manifest 32 | *.spec 33 | 34 | # Installer logs 35 | pip-log.txt 36 | pip-delete-this-directory.txt 37 | 38 | # Unit test / coverage reports 39 | htmlcov/ 40 | .tox/ 41 | .coverage 42 | .coverage.* 43 | .cache 44 | nosetests.xml 45 | coverage.xml 46 | *.cover 47 | .hypothesis/ 48 | .pytest_cache/ 49 | 50 | # Translations 51 | *.mo 52 | *.pot 53 | 54 | # Django stuff: 55 | *.log 56 | local_settings.py 57 | db.sqlite3 58 | 59 | # Flask stuff: 60 | instance/ 61 | .webassets-cache 62 | 63 | # Scrapy stuff: 64 | .scrapy 65 | 66 | # Sphinx documentation 67 | docs/_build/ 68 | 69 | # PyBuilder 70 | target/ 71 | 72 | # Jupyter Notebook 73 | .ipynb_checkpoints 74 | 75 | # pyenv 76 | .python-version 77 | 78 | # celery beat schedule file 79 | celerybeat-schedule 80 | 81 | # SageMath parsed files 82 | *.sage.py 83 | 84 | # Environments 85 | .env 86 | .venv 87 | env/ 88 | venv/ 89 | ENV/ 90 | env.bak/ 91 | venv.bak/ 92 | 93 | # Spyder project settings 94 | .spyderproject 95 | .spyproject 96 | 97 | # Rope project settings 98 | .ropeproject 99 | 100 | # mkdocs documentation 101 | /site 102 | 103 | # mypy 104 | .mypy_cache/ 105 | -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- 1 | MIT License 2 | 3 | Copyright (c) 2018 asrhou 4 | 5 | Permission is hereby granted, free of charge, to any person obtaining a copy 6 | of this software and associated documentation files (the "Software"), to deal 7 | in the Software without restriction, including without limitation the rights 8 | to use, copy, modify, merge, publish, distribute, sublicense, and/or sell 9 | copies of the Software, and to permit persons to whom the Software is 10 | furnished to do so, subject to the following conditions: 11 | 12 | The above copyright notice and this permission notice shall be included in all 13 | copies or substantial portions of the Software. 14 | 15 | THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR 16 | IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, 17 | FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE 18 | AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER 19 | LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, 20 | OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE 21 | SOFTWARE. 22 | -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 1 | # scMatch: a single-cell gene expression profile annotation tool using reference datasets 2 | 3 | Single-cell RNA sequencing (scRNA-seq) measures gene expression at the resolution of individual cells. Massively multiplexed single-cell profiling has enabled large-scale transcriptional analyses of thousands of cells in complex tissues. In most cases, the true identity of individual cells is unknown and needs to be inferred from the transcriptomic data. Existing methods typically cluster (group) cells based on similarities of their gene expression profiles and assign the same identity to all cells within each cluster using the averaged expression levels. However, scRNA-seq experiments typically produce low-coverage sequencing data for each cell, which hinders the clustering process. We introduce scMatch, which directly annotates single cells by identifying their closest match in large reference datasets. We used this strategy to annotate various single-cell datasets and evaluated the impacts of sequencing depth, similarity metric and reference datasets. We found that scMatch can rapidly and robustly annotate single cells with comparable accuracy to another recent cell annotation tool (SingleR), but that it is quicker and can handle considerably larger reference datasets. We demonstrate how scMatch can handle large customized reference gene expression profiles that combine data from multiple sources, thus empowering researchers to identify cell populations in any complex tissue with the desired precision. 4 | 5 | scMatch is maintained by Rui Hou [rui.hou@research.uwa.edu.au] 6 | 7 | ## Download and Installation 8 | ```bat 9 | git clone https://github.com/asrhou/scMatch.git 10 | ``` 11 | A truncated FANTOM5 reference dataset can be downloaded from https://github.com/asrhou/scMatch/tree/master/refDB/FANTOM5. The compressed files need to be decompressed before being used as the reference database. We also merged it with reference datasets from [SingleR](https://www.biorxiv.org/content/early/2018/03/22/284604), which can be downloaded from https://figshare.com/s/efd2969ce20fae5c118f. 12 | 13 | Carlos Biagi Jr [biagi@usp.br] is maintaining a scMatch Docker image of scMatch in https://hub.docker.com/r/biagii/scmatch and https://github.com/cbiagii/scmatch. The Docker image has all required packages installed and contains both reference datasets mentioned above. This Docker image can greatly simplify the deployment of scMatch! 14 | 15 | This tool provides command line utilities only for now. 16 | 17 | ## Command Line Utilities 18 | 19 | This tool can annotate the given transcriptome data with sample names or ontology terms. It can analyze data from multiple platforms. The required user inputs are a raw count matrix file in CSV format, or an mtx file and two tsv files generated by CellRanger. 20 | 21 | ### scMatch: Annotate the given transcriptome data using human and/or mouse expression data from given reference dataset. 22 | 23 | ``` 24 | scMatch.py [-h] [--refType REFTYPE] [--testType TESTTYPE] --refDS REFDS 25 | [--dFormat DFORMAT] --testDS TESTDS 26 | [--testMethod TESTMETHOD] [--testGenes TESTGENES] 27 | [--keepZeros KEEPZEROS] [--coreNum CORENUM] 28 | 29 | optional arguments: 30 | -h, --help show this help message and exit 31 | --refType REFTYPE human (default) | mouse | both 32 | --testType TESTTYPE human (default) | mouse | rat | chimpanzee |zebrafish 33 | --refDS REFDS path to the folder of reference dataset(s) 34 | --dFormat DFORMAT 10x (default) | csv 35 | --testDS TESTDS path to the folder of test dataset if dtype is 10x, 36 | otherwise, the path to the file 37 | --testMethod TESTMETHOD 38 | s[pearman] (default) | p[earson] | both 39 | --testGenes TESTGENES 40 | optional, path to the csv file whose first row is the 41 | genes used to calculate the correlation coefficient 42 | --keepZeros KEEPZEROS 43 | y[es] (default) | n[o] 44 | --coreNum CORENUM number of the cores to use, default=1 45 | 46 | ``` 47 | 48 | The raw output, generated by scMatch is an excel file showing the correlation coefficient of each reference sample with test transcriptome. 49 | 50 | To annotate a scRNA-seq dataset 'GSE81861_Cell_Line_COUNT.csv' from [Li *et al.*, (Nature Genetics, 2017)](https://www.nature.com/articles/ng.3818), which were sequenced by SMARTer Ultra-Low RNA Kit and can be found at [NCBI GEO:GSE81861](https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE81861), use the following code 51 | ```bat 52 | python scMatch.py --refDS refDB/FANTOM5 --dFormat csv --testDS GSE81861_Cell_Line_COUNT.csv 53 | ``` 54 | A snippet of the output for a test transcriptome looks like this: 55 | 56 | | sample name | Spearman correlation coefficient | 57 | | --- | --- | 58 | |lung adenocarcinoma cell line:A549.CNhs11275.10499-107C4 | 0.583425488 | 59 | |bile duct carcinoma cell line:TFK-1.CNhs11265.10496-107C1 | 0.551511709 | 60 | |hepatoma cell line:Li-7.CNhs11271.10484-107A7 | 0.545313045 | 61 | 62 | *Note: You have to change the row names of 'GSE81861_Cell_Line_COUNT.csv' to gene symbols before you run scMatch.* 63 | 64 | ### toTerms: Transfer the original sample name annotation vectors to the vectors of ontology terms. 65 | 66 | ``` 67 | toTerms.py [-h] --splF SPLF --refDS REFDS [--coreNum CORENUM] 68 | 69 | optional arguments: 70 | -h, --help show this help message and exit 71 | --splF SPLF path to the original sample annotation folder which 72 | contains original sample annotation data 73 | --refDS REFDS path to the folder of reference dataset(s) 74 | --coreNum CORENUM number of the cores to use, default is 1 75 | ``` 76 | 77 | The output of toTerms includes an excel file showing the averaged correlation coefficient of each ontology terms with test transcriptome and a csv file showing the most related ontology term for each test cell. 78 | 79 | To transfer the annotation results of 'GSE81861_Cell_Line_COUNT.csv' to the vectors of ontology terms, use the following command 80 | ```bat 81 | python toTerms.py --splF GSE81861_Cell_Line_COUNT/annotation_result_keep_all_genes --refDS FANTOM5 82 | ``` 83 | A snippet of the output for a test transcriptome looks like this: 84 | 85 | | Ont Term | Avg Score | 86 | | --- | --- | 87 | | DOID:3910 ! lung adenocarcinoma | 0.54626792 | 88 | | DOID:4897 ! bile duct carcinoma | 0.538693164 | 89 | | DOID:4556 ! lung large cell carcinoma | 0.532440558 | 90 | 91 | ### visAnnos.py: Visualise the annotation results from scMatch.py and toTerms.py. 92 | 93 | ``` 94 | visAnnos.py [-h] --testDS TESTDS [--dFormat DFORMAT] --annoFile 95 | ANNOFILE [--visMethod VISMETHOD] 96 | 97 | optional arguments: 98 | -h, --help show this help message and exit 99 | --testDS TESTDS path to the folder of test dataset if dtype is 10x, 100 | otherwise, the path to the file 101 | --dFormat DFORMAT 10x (default) | csv 102 | --annoFile ANNOFILE path to the annotation file generated by scMatch 103 | --visMethod VISMETHOD 104 | p[ca] (default) | t[sne] | u[map] 105 | ``` 106 | 107 | If users have installed [seaborn](https://seaborn.pydata.org/), [scikit-learn](https://scikit-learn.org/stable/), [umap](https://github.com/lmcinnes/umap) and [plotly](https://plot.ly/python/), then visAnnos can arrange single cells in a 2D space based on the output of PCA, tSNE, or UMAP and generated an interactive plot using plotly in an html file. The cells are colored based on the annotations in the file like: 'human_Spearman_top_ann.csv' from scMatch.py and 'human_Spearman_Avg_top_ann.csv' from toTerms.py. 108 | 109 | To visualise the annotation results of 'GSE81861_Cell_Line_COUNT.csv' through UMAP, use the following commands 110 | ```bat 111 | python visAnnos.py --dFormat csv --testDS GSE81861_Cell_Line_COUNT.csv --annoFile GSE81861_Cell_Line_COUNT/annotation_result_keep_all_genes/human_Spearman_top_ann.csv --visMethod u 112 | ``` 113 | or 114 | ```bat 115 | python visAnnos.py --dFormat csv --testDS GSE81861_Cell_Line_COUNT.csv --annoFile GSE81861_Cell_Line_COUNT/annotation_result_keep_all_genes/human_Spearman_Avg_top_ann.csv --visMethod u 116 | ``` 117 | -------------------------------------------------------------------------------- /refDB/FANTOM5/10090_HID.csv.zip: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/forrest-lab/scMatch/e6b9663cc77655d7aa4e18d99df1423302a1b49a/refDB/FANTOM5/10090_HID.csv.zip -------------------------------------------------------------------------------- /refDB/FANTOM5/10090_map.csv: -------------------------------------------------------------------------------- 1 | sample,cell type 2 | "Atoh1+ Inner ear hair cells - organ of corti, pool1.CNhs12533.12158-128G7",Atoh1+ Inner ear hair cell 3 | "Mouse CD19+ B Cells, donor1.CNhs13531.11856-125A2",CD19+ B cell 4 | "Mouse CD4+ T Cells, donor1.CNhs13509.11854-124I9",CD4+ T cell 5 | "CD4+CD25+ regulatory T cells, PMA and ionomycin stimulation, 02hr, pool1 (BalbcA).CNhs14160.11946-126B2",CD4+CD25+ regulatory T cell 6 | "CD4+CD25+ regulatory T cells, PMA and ionomycin stimulation, 02hr, pool1 (C57BL 6J).CNhs14142.11945-126B1",CD4+CD25+ regulatory T cell 7 | "CD4+CD25+ regulatory T cells, antiCD3 CD28 stimulation, 06hr, pool1 (BalbcA).CNhs14158.11943-126A8",CD4+CD25+ regulatory T cell 8 | "CD4+CD25+ regulatory T cells, antiCD3 CD28 stimulation, 06hr, pool1 (C57BL 6J).CNhs14159.11944-126A9",CD4+CD25+ regulatory T cell 9 | "CD4+CD25+ regulatory T cells, pool1 (C57BL_6J).CNhs13913.11814-124E5",CD4+CD25+ regulatory T cell 10 | "CD4+CD25+ regulatory T cells, pool2 (Balb_cAJcl).CNhs13221.11818-124E9",CD4+CD25+ regulatory T cell 11 | "CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool1 (C57BL_6J).CNhs13219.11816-124E7",CD4+CD25-CD44- naive conventional T cell 12 | "CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool2 (Balb_cAJcl).CNhs13226.11820-124F2",CD4+CD25-CD44- naive conventional T cell 13 | "CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool1 (C57BL_6J).CNhs13218.11815-124E6",CD4+CD25-CD44- naive conventional T cell 14 | "CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool2 (Balb_cAJcl).CNhs13225.11819-124F1",CD4+CD25-CD44- naive conventional T cell 15 | "CD4+CD25-CD44- naive conventional T cells, pool1 (C57BL_6J).CNhs13217.11813-124E4",CD4+CD25-CD44- naive conventional T cell 16 | "CD4+CD25-CD44- naive conventional T cells, pool2 (Balb_cAJcl).CNhs13220.11817-124E8",CD4+CD25-CD44- naive conventional T cell 17 | "CD41+ megakaryocyte control, donor1.CNhs13212.11775-124A2",CD41+ megakaryocyte 18 | "CD41+ megakaryocyte control, donor2.CNhs13214.11777-124A4",CD41+ megakaryocyte 19 | "CD41+ megakaryocyte control, donor3.CNhs13201.11779-124A6",CD41+ megakaryocyte 20 | "CD41+ megakaryocyte cancer, donor1.CNhs13079.11774-124A1",CD41+ megakaryocytic leukemia 21 | "CD41+ megakaryocyte cancer, donor2.CNhs13213.11776-124A3",CD41+ megakaryocytic leukemia 22 | "CD41+ megakaryocyte cancer, donor3.CNhs13506.11778-124A5",CD41+ megakaryocytic leukemia 23 | "Mouse CD8+ T Cells, donor1.CNhs13511.11855-125A1",CD8+ T cell 24 | "EBF KO HPCs induced to T cell, 00hr00min, biol_rep1.CNhs11058.12972-138H2",EBF KO Hematopoietic progenitor cell 25 | "EBF KO HPCs induced to T cell, 00hr00min, biol_rep2.CNhs12980.12988-138I9",EBF KO Hematopoietic progenitor cell 26 | "EBF KO HPCs induced to T cell, 00hr00min, biol_rep3.CNhs13687.13004-139B7",EBF KO Hematopoietic progenitor cell 27 | "GP2+ M cell, pool1.CNhs13228.11845-124H9",GP2+ M cell 28 | "GP2+ M cell, pool2.CNhs13231.11846-124I1",GP2+ M cell 29 | "GP2+ M cell, pool3.CNhs13240.11847-124I2",GP2+ M cell 30 | "Ileum epithelium, pool1.CNhs13199.10252-104B9",Ileum epithelium 31 | "Ileum epithelium, pool2.CNhs13232.10253-104C1",Ileum epithelium 32 | "Ileum epithelium, treated with RANKL, day03, pool3.CNhs13234.10260-104C8",Ileum epithelium 33 | "Lgr5 positive intestinal stem cells, pool1.CNhs12555.12228-129F5",Lgr5 positive intestinal stem cell 34 | "Lgr5 positive intestinal stem cells, pool2.CNhs12556.12229-129F6",Lgr5 positive intestinal stem cell 35 | "Lgr5 positive intestinal stem cells, pool3.CNhs12557.12230-129F7",Lgr5 positive intestinal stem cell 36 | "MC1+Gr1+ myeloid-derived suppressor cells cancer, donor1 (10,11,12 3LL).CNhs12539.12159-128G8",MC1+Gr1+ myeloid-derived suppressor cell 37 | "MC1+Gr1+ myeloid-derived suppressor cells cancer, donor2 (0127 3LL).CNhs12198.12161-128H1",MC1+Gr1+ myeloid-derived suppressor cell 38 | "MC1+Gr1+ myeloid-derived suppressor cells cancer, donor3 (0128 3LL).CNhs12542.12163-128H3",MC1+Gr1+ myeloid-derived suppressor cell 39 | "MC1+Gr1+ myeloid-derived suppressor cells control, donor1 (4,5,6PBS).CNhs12540.12160-128G9",MC1+Gr1+ myeloid-derived suppressor cell 40 | "MC1+Gr1+ myeloid-derived suppressor cells control, donor2 (0127 PBS).CNhs12541.12162-128H2",MC1+Gr1+ myeloid-derived suppressor cell 41 | "MC1+Gr1+ myeloid-derived suppressor cells control, donor3 (0128 PBS).CNhs12543.12164-128H4",MC1+Gr1+ myeloid-derived suppressor cell 42 | "ST2 (Mesenchymal stem cells) cells, medium change (without induction), 00hr, biol_rep1 (000hC4).CNhs11939.12338-130I7",ST2 Mesenchymal stem cell line 43 | "ST2 (Mesenchymal stem cells) cells, medium change (without induction), 00hr, biol_rep2 (000hC5).CNhs13275.12460-132E3",ST2 Mesenchymal stem cell line 44 | "ST2 (Mesenchymal stem cells) cells, medium change (without induction), 00hr, biol_rep3 (000hC6).CNhs13324.12582-133I8",ST2 Mesenchymal stem cell line 45 | "Sox2+ Supporting cells - organ of corti, pool1.CNhs12532.12157-128G6",Sox2+ Supporting cell - organ of corti 46 | "ST2 (Mesenchymal stem cells) cells, differentiation to adipocytes, day06, biol_rep1 (144hA1).CNhs13129.12322-130G9",adipocyte 47 | "ST2 (Mesenchymal stem cells) cells, differentiation to adipocytes, day06, biol_rep2 (144hA2).CNhs13258.12444-132C5",adipocyte 48 | "ST2 (Mesenchymal stem cells) cells, differentiation to adipocytes, day06, biol_rep3 (144hA3).CNhs13307.12566-133H1",adipocyte 49 | "adrenal gland, adult.CNhs10508.49-24D7",adrenal gland 50 | "adrenal gland, embryo E14.CNhs11038.406-44C5",adrenal gland 51 | "adrenal gland, embryo E16.CNhs11004.1254-43D6",adrenal gland 52 | "adrenal gland, embryo E17.CNhs11043.1263-45I1",adrenal gland 53 | "adrenal gland, embryo E18.CNhs11026.1262-18F5",adrenal gland 54 | "adrenal gland, neonate N00.CNhs11191.1311-23C1",adrenal gland 55 | "adrenal gland, neonate N25.CNhs11223.1377-27I3",adrenal gland 56 | "amnion, adult pregnant day17.5.CNhs10488.583-22A8",amnion 57 | "aorta, adult.CNhs10498.46-23H1",aorta 58 | "Mouse Aortic Smooth Muscle cells - differentiated, biol_rep1.CNhs11055.11484-119D8",aortic smooth muscle cell 59 | "Mouse Aortic Smooth Muscle cells - differentiated, biol_rep2.CNhs11056.11485-119D9",aortic smooth muscle cell 60 | "Mouse Aortic Smooth Muscle cells, donor1.CNhs11297.11299-117B3",aortic smooth muscle cell 61 | "Astrocytes, donor1.CNhs11915.11710-123B9",astrocyte 62 | "Mouse Astrocytes - cerebellar, donor1.CNhs13077.11708-123B7",astrocyte 63 | "Mouse Astrocytes - cerebellar, donor2.CNhs12076.11550-120C2",astrocyte 64 | "Mouse Astrocytes - hippocampus, donor1.CNhs12129.11709-123B8",astrocyte 65 | "Mouse Astrocytes - hippocampus, donor2.CNhs12077.11551-120C3",astrocyte 66 | "Mouse Astrocytes, donor2.CNhs12078.11552-120C4",astrocyte 67 | "Mouse Astrocytes, donor3.CNhs12107.11633-122C4",astrocyte 68 | "accessory axillary lymph node, adult.CNhs10475.1063-29H9",axillary lymph node 69 | "bone (os femoris), adult.CNhs10483.56-12G2",bone 70 | "bone (os femoris), neonate N02.CNhs11227.1985-43F5",bone 71 | "bone (os femoris), neonate N16.CNhs11225.1525-43A6",bone 72 | "bone (os femoris), neonate N20.CNhs11195.1350-25C3",bone 73 | "macrophage, bone marrow derived, pool1.CNhs11457.3560-170A1",bone marrow macrophage 74 | "macrophage, bone marrow derived, pool2.CNhs11532.3632-171A1",bone marrow macrophage 75 | "macrophage, bone marrow derived, pool3.CNhs11632.3704-172A1",bone marrow macrophage 76 | "macrophage, bone marrow derived.CNhs14136.2171-50H8",bone marrow macrophage 77 | "stem cell (cKit+ Sca1- lineage-) KSL, biol_rep1.CNhs12534.12121-128C6",cKit+ Sca1- lineage- (KSL stem cell) 78 | "stem cell (cKit+ Sca1- lineage-) KSL, biol_rep2.CNhs12535.12124-128C9",cKit+ Sca1- lineage- (KSL stem cell) 79 | "stem cell (cKit+ Sca1- lineage-) KSL, biol_rep3.CNhs12536.12127-128D3",cKit+ Sca1- lineage- (KSL stem cell) 80 | "Mouse Cardiac Myocytes, donor1.CNhs12355.11711-123C1",cardiac myocyte 81 | "Mouse Cardiac Myocytes, donor2.CNhs12356.11729-123E1",cardiac myocyte 82 | "Mouse Cardiac Myocytes, donor3.CNhs12353.11634-122C5",cardiac myocyte 83 | "cecum, adult.CNhs10467.37-13H4",cecum 84 | "Mouse Granule cells, donor1.CNhs12131.11713-123C3",cerebellar granule cell 85 | "Mouse Granule cells, donor2.CNhs12357.11731-123E3",cerebellar granule cell 86 | "Mouse Granule cells, donor3.CNhs12108.11636-122C7",cerebellar granule cell 87 | "cerebellar granule cells, embryo E13, biol_rep1 (E13R1).CNhs14143.13532-145G4",cerebellar granule cell 88 | "cerebellar granule cells, embryo E13, biol_rep2 (E13R2).CNhs14144.13533-145G5",cerebellar granule cell 89 | "cerebellar granule cells, embryo E13, biol_rep3 (E13R3).CNhs14146.13534-145G6",cerebellar granule cell 90 | "cerebellar granule cells, embryo E15, biol_rep1 (E15R1).CNhs14162.13535-145G7",cerebellar granule cell 91 | "cerebellar granule cells, embryo E15, biol_rep2 (E15R2).CNhs14163.13536-145G8",cerebellar granule cell 92 | "cerebellar granule cells, embryo E15, biol_rep3 (E15R3).CNhs14164.13537-145G9",cerebellar granule cell 93 | "cerebellar granule cells, embryo E18, biol_rep1 (E18R1).CNhs14165.13538-145H1",cerebellar granule cell 94 | "cerebellar granule cells, embryo E18, biol_rep2 (E18R2).CNhs14166.13539-145H2",cerebellar granule cell 95 | "cerebellar granule cells, embryo E18, biol_rep3 (E13R3).CNhs14167.13540-145H3",cerebellar granule cell 96 | "cerebellum, adult.CNhs10494.15-8B2",cerebellum 97 | "cerebellum, embryo E11, biol_rep1 (E11R1).CNhs12956.10114-102E6",cerebellum 98 | "cerebellum, embryo E11, biol_rep2 (E11R2).CNhs13002.10126-102F9",cerebellum 99 | "cerebellum, embryo E11, biol_rep3 (E11R3).CNhs13014.10138-102H3",cerebellum 100 | "cerebellum, embryo E12, biol_rep1 (E12R1).CNhs12957.10115-102E7",cerebellum 101 | "cerebellum, embryo E12, biol_rep2 (E12R2).CNhs13003.10127-102G1",cerebellum 102 | "cerebellum, embryo E12, biol_rep3 (E12R3).CNhs13015.10139-102H4",cerebellum 103 | "cerebellum, embryo E13, biol_rep1 (E13R1).CNhs12958.10116-102E8",cerebellum 104 | "cerebellum, embryo E13, biol_rep2 (E13R2).CNhs13004.10128-102G2",cerebellum 105 | "cerebellum, embryo E13, biol_rep3 (E13R3).CNhs13016.10140-102H5",cerebellum 106 | "cerebellum, embryo E14, biol_rep1 (E14R1).CNhs12960.10117-102E9",cerebellum 107 | "cerebellum, embryo E14, biol_rep2 (E14R2).CNhs13005.10129-102G3",cerebellum 108 | "cerebellum, embryo E14, biol_rep3 (E14R3).CNhs13017.10141-102H6",cerebellum 109 | "cerebellum, embryo E15, biol_rep1 (E15R1).CNhs12961.10118-102F1",cerebellum 110 | "cerebellum, embryo E15, biol_rep2 (E15R2).CNhs13006.10130-102G4",cerebellum 111 | "cerebellum, embryo E15, biol_rep3 (E15R3).CNhs13018.10142-102H7",cerebellum 112 | "cerebellum, embryo E16, biol_rep1 (E16R1).CNhs13000.10119-102F2",cerebellum 113 | "cerebellum, embryo E16, biol_rep2 (E16R2).CNhs13007.10131-102G5",cerebellum 114 | "cerebellum, embryo E16, biol_rep3 (E16R3).CNhs13019.10143-102H8",cerebellum 115 | "cerebellum, embryo E17, biol_rep1 (E17R1).CNhs12818.10120-102F3",cerebellum 116 | "cerebellum, embryo E17, biol_rep2 (E17R2).CNhs13008.10132-102G6",cerebellum 117 | "cerebellum, embryo E17, biol_rep3 (E17R3).CNhs13020.10144-102H9",cerebellum 118 | "cerebellum, embryo E18, biol_rep1 (E18R1).CNhs12962.10121-102F4",cerebellum 119 | "cerebellum, embryo E18, biol_rep2 (E18R2).CNhs13009.10133-102G7",cerebellum 120 | "cerebellum, embryo E18, biol_rep3 (E18R3).CNhs13021.10145-102I1",cerebellum 121 | "cerebellum, neonate N00, biol_rep1 (P0R1).CNhs12963.10122-102F5",cerebellum 122 | "cerebellum, neonate N00, biol_rep2 (P0R2).CNhs13010.10134-102G8",cerebellum 123 | "cerebellum, neonate N00, biol_rep3 (P0R3).CNhs13022.10146-102I2",cerebellum 124 | "cerebellum, neonate N03, biol_rep1 (P3R1).CNhs13001.10123-102F6",cerebellum 125 | "cerebellum, neonate N03, biol_rep2 (P3R2).CNhs13011.10135-102G9",cerebellum 126 | "cerebellum, neonate N03, biol_rep3 (P3R3).CNhs13024.10147-102I3",cerebellum 127 | "cerebellum, neonate N06, biol_rep1 (P6R1).CNhs12819.10124-102F7",cerebellum 128 | "cerebellum, neonate N06, biol_rep2 (P6R2).CNhs13012.10136-102H1",cerebellum 129 | "cerebellum, neonate N06, biol_rep3 (P6R3).CNhs13025.10148-102I4",cerebellum 130 | "cerebellum, neonate N09, biol_rep1 (P9R1).CNhs12820.10125-102F8",cerebellum 131 | "cerebellum, neonate N09, biol_rep2 (P9R2).CNhs13013.10137-102H2",cerebellum 132 | "cerebellum, neonate N09, biol_rep3 (P9R3).CNhs13026.10149-102I5",cerebellum 133 | "cerebellum, neonate N30.CNhs11135.1395-42I2",cerebellum 134 | "colon, adult.CNhs10468.36-18H7",colon 135 | "common myeloid progenitor CMP, biol_rep1.CNhs12550.12122-128C7",common myeloid progenitor 136 | "common myeloid progenitor CMP, biol_rep2.CNhs12203.12125-128D1",common myeloid progenitor 137 | "common myeloid progenitor CMP, biol_rep3.CNhs12551.12128-128D4",common myeloid progenitor 138 | "corpora quadrigemina, adult.CNhs10501.16-22A4",corpora quadrigemina 139 | "corpus striatum, adult.CNhs10487.19-21D8",corpus striatum 140 | "corpus striatum, neonate N00.CNhs11226.630-43F1",corpus striatum 141 | "cortex, adult.CNhs10473.12-14D5",cortex 142 | "cortex, neonate N30.CNhs11107.1392-42F2",cortex 143 | "diencephalon, adult.CNhs10482.20-12F2",diencephalon 144 | "diencephalon, neonate N30.CNhs11201.1388-42B2",diencephalon 145 | "ES-46C embryonic stem cells, neuronal differentiation, day00, biol_rep1.CNhs14104.14357-155I1",embryonic stem cell 146 | "ES-46C embryonic stem cells, neuronal differentiation, day00, biol_rep2.CNhs14109.14362-155I6",embryonic stem cell 147 | "ES-OS25 embryonic stem cells, DMSO control, biol_rep1.CNhs14085.14339-155G1",embryonic stem cell 148 | "ES-OS25 embryonic stem cells, DMSO control, biol_rep2.CNhs14086.14340-155G2",embryonic stem cell 149 | "ES-OS25 embryonic stem cells, DMSO control, biol_rep3.CNhs14087.14341-155G3",embryonic stem cell 150 | "ES-OS25 embryonic stem cells, untreated control, biol_rep1.CNhs14091.14345-155G7",embryonic stem cell 151 | "ES-OS25 embryonic stem cells, untreated control, biol_rep2.CNhs14092.14346-155G8",embryonic stem cell 152 | "ES-OS25 embryonic stem cells, untreated control, biol_rep3.CNhs14093.14347-155G9",embryonic stem cell 153 | "ES-OS25 embryonic stem cells, untreated siRNA control, biol_rep1.CNhs14114.14367-156A2",embryonic stem cell 154 | "ES-OS25 embryonic stem cells, untreated siRNA control, biol_rep2.CNhs14115.14368-156A3",embryonic stem cell 155 | "neurospheres - enteric neuron derived, biol_rep1.CNhs13087.11810-124E1",enteric neuron 156 | "neurospheres - enteric neuron derived, biol_rep2.CNhs13088.11811-124E2",enteric neuron 157 | "neurospheres - enteric neuron derived, biol_rep3.CNhs13089.11812-124E3",enteric neuron 158 | "CD326+ enterocyte isolated from mice, treated with RANKL, day03, pool1.CNhs13242.11850-124I5",enterocyte 159 | "CD326+ enterocyte isolated from mice, treated with RANKL, day03, pool2.CNhs13233.11851-124I6",enterocyte 160 | "CD326+ enterocyte, pool1.CNhs13542.11848-124I3",enterocyte 161 | "CD326+ enterocyte, pool2.CNhs13197.11849-124I4",enterocyte 162 | "CD326++ enterocyte isolated from mice, treated with RANKL, day03, pool1.CNhs13236.11852-124I7",enterocyte 163 | "CD326++ enterocyte isolated from mice, treated with RANKL, day03, pool2.CNhs13210.11853-124I8",enterocyte 164 | "epididymis and seminiferous tubule, neonate N00.CNhs11218.1310-23B1",epididymis 165 | "epididymis and seminiferous tubule, neonate N30.CNhs11199.1387-42A2",epididymis 166 | "epididymis, adult.CNhs10490.58-23B2",epididymis 167 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep1.CNhs12449.13063-139I3",erythroblastic leukemia cell line 168 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep2.CNhs12668.13129-140G6",erythroblastic leukemia cell line 169 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep3, tech_rep1.CNhs12770.13195-141E9",erythroblastic leukemia cell line 170 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep3, tech_rep2.CNhs14547.13195-141E9",erythroblastic leukemia cell line 171 | "J2E erythroblastic leukemia response to erythropoietin, 00hr15min, biol_rep1.CNhs12644.13064-139I4",erythroblastic leukemia cell line 172 | "J2E erythroblastic leukemia response to erythropoietin, 00hr15min, biol_rep2.CNhs12669.13130-140G7",erythroblastic leukemia cell line 173 | "J2E erythroblastic leukemia response to erythropoietin, 00hr15min, biol_rep3.CNhs12771.13196-141F1",erythroblastic leukemia cell line 174 | "J2E erythroblastic leukemia response to erythropoietin, 00hr30min, biol_rep1.CNhs12645.13065-139I5",erythroblastic leukemia cell line 175 | "J2E erythroblastic leukemia response to erythropoietin, 00hr30min, biol_rep3.CNhs12772.13197-141F2",erythroblastic leukemia cell line 176 | "J2E erythroblastic leukemia response to erythropoietin, 00hr45min, biol_rep1.CNhs12646.13066-139I6",erythroblastic leukemia cell line 177 | "J2E erythroblastic leukemia response to erythropoietin, 00hr45min, biol_rep2.CNhs12671.13132-140G9",erythroblastic leukemia cell line 178 | "J2E erythroblastic leukemia response to erythropoietin, 00hr45min, biol_rep3.CNhs12773.13198-141F3",erythroblastic leukemia cell line 179 | "J2E erythroblastic leukemia response to erythropoietin, 01hr00min, biol_rep1.CNhs12647.13067-139I7",erythroblastic leukemia cell line 180 | "J2E erythroblastic leukemia response to erythropoietin, 01hr00min, biol_rep2.CNhs12672.13133-140H1",erythroblastic leukemia cell line 181 | "J2E erythroblastic leukemia response to erythropoietin, 01hr00min, biol_rep3.CNhs12774.13199-141F4",erythroblastic leukemia cell line 182 | "J2E erythroblastic leukemia response to erythropoietin, 01hr20min, biol_rep1.CNhs12648.13068-139I8",erythroblastic leukemia cell line 183 | "J2E erythroblastic leukemia response to erythropoietin, 01hr20min, biol_rep2.CNhs12673.13134-140H2",erythroblastic leukemia cell line 184 | "J2E erythroblastic leukemia response to erythropoietin, 01hr20min, biol_rep3.CNhs12775.13200-141F5",erythroblastic leukemia cell line 185 | "J2E erythroblastic leukemia response to erythropoietin, 01hr40min, biol_rep1.CNhs12649.13069-139I9",erythroblastic leukemia cell line 186 | "J2E erythroblastic leukemia response to erythropoietin, 01hr40min, biol_rep2.CNhs12674.13135-140H3",erythroblastic leukemia cell line 187 | "J2E erythroblastic leukemia response to erythropoietin, 01hr40min, biol_rep3.CNhs12776.13201-141F6",erythroblastic leukemia cell line 188 | "J2E erythroblastic leukemia response to erythropoietin, 02hr00min, biol_rep1.CNhs12650.13070-140A1",erythroblastic leukemia cell line 189 | "J2E erythroblastic leukemia response to erythropoietin, 02hr00min, biol_rep2.CNhs12675.13136-140H4",erythroblastic leukemia cell line 190 | "J2E erythroblastic leukemia response to erythropoietin, 02hr00min, biol_rep3, tech_rep2.CNhs14548.13202-141F7",erythroblastic leukemia cell line 191 | "J2E erythroblastic leukemia response to erythropoietin, 02hr30min, biol_rep1.CNhs12651.13071-140A2",erythroblastic leukemia cell line 192 | "J2E erythroblastic leukemia response to erythropoietin, 02hr30min, biol_rep2.CNhs12676.13137-140H5",erythroblastic leukemia cell line 193 | "J2E erythroblastic leukemia response to erythropoietin, 02hr30min, biol_rep3.CNhs12778.13203-141F8",erythroblastic leukemia cell line 194 | "J2E erythroblastic leukemia response to erythropoietin, 03hr00min, biol_rep1.CNhs12450.13072-140A3",erythroblastic leukemia cell line 195 | "J2E erythroblastic leukemia response to erythropoietin, 03hr00min, biol_rep2.CNhs12677.13138-140H6",erythroblastic leukemia cell line 196 | "J2E erythroblastic leukemia response to erythropoietin, 03hr00min, biol_rep3.CNhs12779.13204-141F9",erythroblastic leukemia cell line 197 | "J2E erythroblastic leukemia response to erythropoietin, 03hr30min, biol_rep1.CNhs12451.13073-140A4",erythroblastic leukemia cell line 198 | "J2E erythroblastic leukemia response to erythropoietin, 03hr30min, biol_rep2.CNhs12678.13139-140H7",erythroblastic leukemia cell line 199 | "J2E erythroblastic leukemia response to erythropoietin, 03hr30min, biol_rep3.CNhs12780.13205-141G1",erythroblastic leukemia cell line 200 | "J2E erythroblastic leukemia response to erythropoietin, 04hr, biol_rep1.CNhs12452.13074-140A5",erythroblastic leukemia cell line 201 | "J2E erythroblastic leukemia response to erythropoietin, 04hr, biol_rep2.CNhs12679.13140-140H8",erythroblastic leukemia cell line 202 | "J2E erythroblastic leukemia response to erythropoietin, 04hr, biol_rep3.CNhs12781.13206-141G2",erythroblastic leukemia cell line 203 | "J2E erythroblastic leukemia response to erythropoietin, 06hr, biol_rep1.CNhs12453.13075-140A6",erythroblastic leukemia cell line 204 | "J2E erythroblastic leukemia response to erythropoietin, 06hr, biol_rep2.CNhs12680.13141-140H9",erythroblastic leukemia cell line 205 | "J2E erythroblastic leukemia response to erythropoietin, 06hr, biol_rep3.CNhs12782.13207-141G3",erythroblastic leukemia cell line 206 | "J2E erythroblastic leukemia response to erythropoietin, 12hr, biol_rep1.CNhs12454.13076-140A7",erythroblastic leukemia cell line 207 | "J2E erythroblastic leukemia response to erythropoietin, 12hr, biol_rep2, tech_rep2.CNhs14546.13142-140I1",erythroblastic leukemia cell line 208 | "J2E erythroblastic leukemia response to erythropoietin, 12hr, biol_rep3.CNhs12783.13208-141G4",erythroblastic leukemia cell line 209 | "J2E erythroblastic leukemia response to erythropoietin, 24hr, biol_rep1.CNhs12455.13077-140A8",erythroblastic leukemia cell line 210 | "J2E erythroblastic leukemia response to erythropoietin, 24hr, biol_rep2.CNhs12682.13143-140I2",erythroblastic leukemia cell line 211 | "J2E erythroblastic leukemia response to erythropoietin, 24hr, biol_rep3.CNhs12784.13209-141G5",erythroblastic leukemia cell line 212 | "J2E erythroblastic leukemia response to erythropoietin, 48hr, biol_rep1.CNhs12456.13078-140A9",erythroblastic leukemia cell line 213 | "J2E erythroblastic leukemia response to erythropoietin, 48hr, biol_rep2.CNhs12683.13144-140I3",erythroblastic leukemia cell line 214 | "J2E erythroblastic leukemia response to erythropoietin, 48hr, biol_rep3.CNhs12785.13210-141G6",erythroblastic leukemia cell line 215 | "eyeball, adult.CNhs10484.31-12G4",eyeball 216 | "eyeball, embryo E12.CNhs11016.345-16C6",eyeball 217 | "eyeball, embryo E14.CNhs10521.399-16E2",eyeball 218 | "eyeball, embryo E15.CNhs10593.426-16C9",eyeball 219 | "eyeball, embryo E17.CNhs11023.1261-18D4",eyeball 220 | "eyeball, neonate N00.CNhs11207.633-15C6",eyeball 221 | "eyeball, neonate N01.CNhs11140.1532-43E7",eyeball 222 | "eyeball, neonate N02.CNhs11205.1551-44G8",eyeball 223 | "eyeball, neonate N16.CNhs11188.777-19A2",eyeball 224 | mouse fibroblast cell line: CRL-1658 NIH/3T3.CNhs11093.1830-49C7,fibroblast cell line 225 | "Follicle Associated Epithelium, pool2.CNhs13211.10262-104D1",follicle associated epithelium 226 | "Follicle Associated Epithelium, pool3.CNhs13200.10263-104D2",follicle associated epithelium 227 | "forelimb, embryo E11.CNhs10596.335-25E2",forelimb 228 | "forelimb, embryo E12.CNhs10600.359-14H2",forelimb 229 | "forelimb, embryo E13.CNhs10589.384-1E2",forelimb 230 | "forelimb, embryo E14.CNhs10577.413-26A8",forelimb 231 | "forelimb, embryo E15.CNhs11007.437-20E7",forelimb 232 | "forelimb, embryo E17.CNhs10598.1517-43C4",forelimb 233 | "forelimb, embryo E18.CNhs11008.1520-43B5",forelimb 234 | "gonad, embryo E13.CNhs11044.1564-45I6","gonad, embryo E13" 235 | "granulocyte macrophage progenitor GMP, biol_rep1.CNhs12206.12123-128C8",granulocyte macrophage progenitor 236 | "granulocyte macrophage progenitor GMP, biol_rep2.CNhs12202.12126-128D2",granulocyte macrophage progenitor 237 | "granulocyte macrophage progenitor GMP, biol_rep3.CNhs11928.12129-128D5",granulocyte macrophage progenitor 238 | "heart, embryo E11.CNhs10586.331-24E9",heart 239 | "heart, embryo E12.CNhs11015.353-12F5",heart 240 | "heart, embryo E13.CNhs11013.376-3I9",heart 241 | "heart, embryo E14.CNhs10597.403-26D4",heart 242 | "heart, embryo E15.CNhs11017.431-16C8",heart 243 | "heart, embryo E16.CNhs11021.457-17C6",heart 244 | "heart, embryo E17.CNhs11025.479-18E5",heart 245 | "heart, embryo E18.CNhs11030.1283-20G3",heart 246 | "heart, neonate N00.CNhs11213.639-21E3",heart 247 | "heart, neonate N03.CNhs11221.1349-25I2",heart 248 | "heart, neonate N10.CNhs11118.749-24G1",heart 249 | "heart, neonate N16.CNhs11209.782-15G1",heart 250 | "heart, neonate N20.CNhs11127.821-26I6",heart 251 | "heart, neonate N25.CNhs11196.1351-25D3",heart 252 | "heart, neonate N30.CNhs11202.1390-42D2",heart 253 | "hematopoietic stem cell, aorta-gonad-mesonephros (AGM) region derived, embryo E10.5.CNhs14374.11949-126B5","hematopoietic stem cell, aorta-gonad-mesonephros (AGM) region derived" 254 | "hematopoietic stem cell,aorta-gonad-mesonephros (AGM) region derived, embryo E11.5.CNhs14151.11951-126B7","hematopoietic stem cell, aorta-gonad-mesonephros (AGM) region derived" 255 | "hematopoietic stem cell, bone marrow derived, adult 2years.CNhs14157.11958-126C5","hematopoietic stem cell, fetal liver derived" 256 | "hematopoietic stem cell, bone marrow derived, embryo E19.5.CNhs14375.11956-126C3","hematopoietic stem cell, fetal liver derived" 257 | "hematopoietic stem cell, bone marrow derived, newborn 2-3months.CNhs14156.11957-126C4","hematopoietic stem cell, fetal liver derived" 258 | "hematopoietic stem cell, fetal liver derived, embryo E12.5.CNhs14153.11953-126B9","hematopoietic stem cell, fetal liver derived" 259 | "hematopoietic stem cell, fetal liver derived, embryo E14.5.CNhs14154.11954-126C1","hematopoietic stem cell, fetal liver derived" 260 | "hematopoietic stem cell, fetal liver derived, embryo E19.5.CNhs14155.11955-126C2","hematopoietic stem cell, fetal liver derived" 261 | "hematopoietic stem cell, placenta derived, embryo E10.5.CNhs14150.11950-126B6","hematopoietic stem cell, placenta derived" 262 | "hematopoietic stem cell, placenta derived, embryo E11.5.CNhs14152.11952-126B8","hematopoietic stem cell, placenta derived" 263 | "Pre-hematopoietic stem cell, aorta-gonad-mesonephros (AGM) region derived, embryo E9.5.CNhs14149.11948-126B4","hematopoietic stem cell,aorta-gonad-mesonephros (AGM) region derived" 264 | "Mouse hepatic Stellate Cells (lipocyte), donor1.CNhs13196.11825-124F7",hepatic stellate cell 265 | "hepatic stellate cells, partial hepatectomy, 01week, biol_rep1.CNhs14517.13622-146H4",hepatic stellate cell 266 | "hepatic stellate cells, partial hepatectomy, 02hr, biol_rep1.CNhs14393.13613-146G4",hepatic stellate cell 267 | "hepatic stellate cells, partial hepatectomy, 30hr, biol_rep1.CNhs14511.13616-146G7",hepatic stellate cell 268 | "hepatic stellate cells, partial hepatectomy, 30hr, biol_rep2.CNhs14512.13617-146G8",hepatic stellate cell 269 | "hepatic stellate cells, partial hepatectomy, 30hr, biol_rep3.CNhs14513.13618-146G9",hepatic stellate cell 270 | "hepatic stellate cells, partial hepatectomy, 48hr, biol_rep1.CNhs14514.13619-146H1",hepatic stellate cell 271 | "hepatic stellate cells, partial hepatectomy, 48hr, biol_rep2.CNhs14515.13620-146H2",hepatic stellate cell 272 | "hepatic stellate cells, partial hepatectomy, 48hr, biol_rep3.CNhs14516.13621-146H3",hepatic stellate cell 273 | "hepatic stellate cells, sham operation, biol_rep1.CNhs14390.13610-146G1",hepatic stellate cell 274 | "hepatic stellate cells, sham operation, biol_rep2.CNhs14391.13611-146G2",hepatic stellate cell 275 | "hepatic stellate cells, sham operation, biol_rep3.CNhs14392.13612-146G3",hepatic stellate cell 276 | "Mouse hepatocyte, donor1.CNhs13078.11714-123C4",hepatocyte 277 | "Mouse hepatocyte, donor3.CNhs12615.11637-122C8",hepatocyte 278 | "Mouse hepatocyte, donor5.CNhs14553.11821-124F3",hepatocyte 279 | "Mouse hepatocyte, donor6.CNhs13090.11822-124F4",hepatocyte 280 | "Mouse hepatocyte, donor7.CNhs14554.11823-124F5",hepatocyte 281 | "Mouse hepatocyte, donor8.CNhs13091.11824-124F6",hepatocyte 282 | "hepatocytes, partial hepatectomy, 02hr, biol_rep1.CNhs14450.13583-146D1",hepatocyte 283 | "hepatocytes, partial hepatectomy, 02hr, biol_rep2.CNhs14451.13584-146D2",hepatocyte 284 | "hepatocytes, partial hepatectomy, 02hr, biol_rep3.CNhs14452.13585-146D3",hepatocyte 285 | "hepatocytes, partial hepatectomy, 30hr, biol_rep1.CNhs14453.13586-146D4",hepatocyte 286 | "hepatocytes, partial hepatectomy, 30hr, biol_rep2.CNhs14454.13587-146D5",hepatocyte 287 | "hepatocytes, partial hepatectomy, 30hr, biol_rep3.CNhs14455.13588-146D6",hepatocyte 288 | "hepatocytes, partial hepatectomy, 48hr, biol_rep1.CNhs14456.13589-146D7",hepatocyte 289 | "hepatocytes, partial hepatectomy, 48hr, biol_rep2.CNhs14458.13590-146D8",hepatocyte 290 | "hepatocytes, partial hepatectomy, 48hr, biol_rep3.CNhs14459.13591-146D9",hepatocyte 291 | "hepatocytes, partial hepatectomy, week01, biol_rep1.CNhs14460.13592-146E1",hepatocyte 292 | "hepatocytes, partial hepatectomy, week01, biol_rep2.CNhs14461.13593-146E2",hepatocyte 293 | "hepatocytes, partial hepatectomy, week01, biol_rep3.CNhs14462.13594-146E3",hepatocyte 294 | "hepatocytes, sham operation, biol_rep1.CNhs14447.13580-146C7",hepatocyte 295 | "hepatocytes, sham operation, biol_rep2.CNhs14448.13581-146C8",hepatocyte 296 | "hepatocytes, sham operation, biol_rep3.CNhs14449.13582-146C9",hepatocyte 297 | "hippocampus, adult.CNhs10478.13-16E8",hippocampus 298 | "hippocampus, neonate N00.CNhs11228.627-43G1",hippocampus 299 | "Inner ear stem cells, 1st generation stem cells, pool1.CNhs11929.12215-129E1",inner ear stem cell 300 | "Inner ear stem cells, 4th generation stem cells, pool1.CNhs12544.12216-129E2",inner ear stem cell 301 | "Inner ear stem cells, differentiation, day03, pool1.CNhs12189.12217-129E3",inner ear stem cell 302 | "Inner ear stem cells, differentiation, day10, pool1.CNhs12190.12218-129E4",inner ear stem cell 303 | "intestinal mucosa, adult.CNhs10506.860-29I3",intestinal mucosa 304 | "intestine, adult.CNhs10496.178-9A3",intestine 305 | "intestine, embryo E12.CNhs11019.1251-16I5",intestine 306 | "intestine, embryo E13.CNhs11010.381-16D5",intestine 307 | "intestine, embryo E15.CNhs10602.976-16D8",intestine 308 | "intestine, embryo E16.CNhs10585.463-22H4",intestine 309 | "intestine, embryo E17.CNhs10582.482-18D3",intestine 310 | "intestine, embryo E18.CNhs10526.1289-20F7",intestine 311 | "intestine, neonate N00.CNhs11126.644-26D1",intestine 312 | "intestine, neonate N01.CNhs11192.1322-23E9",intestine 313 | "intestine, neonate N06.CNhs11102.688-20B8",intestine 314 | "intestine, neonate N07.CNhs11095.720-20F2",intestine 315 | "intestine, neonate N10.CNhs11098.755-23A5",intestine 316 | "intestine, neonate N20.CNhs11187.827-18D1",intestine 317 | "intestine, neonate N25.CNhs11121.1352-25E3",intestine 318 | "intestine, neonate N30.CNhs11131.1384-42G1",intestine 319 | "kidney, embryo E14.CNhs10606.411-4I9",kidney 320 | "kidney, embryo E15.CNhs10997.434-16F8",kidney 321 | "kidney, embryo E16.CNhs10584.464-22A5",kidney 322 | "kidney, embryo E17.CNhs11028.483-18I2",kidney 323 | "kidney, embryo E18.CNhs11001.1288-20C7",kidney 324 | "kidney, neonate N00.CNhs11214.646-21G7",kidney 325 | "kidney, neonate N10.CNhs11206.758-6D5",kidney 326 | "kidney, neonate N20.CNhs11113.832-19I1",kidney 327 | "kidney, neonate N25.CNhs11122.1353-25F3",kidney 328 | "kidney, neonate N30.CNhs11203.1385-42H1",kidney 329 | "Mouse Renal epithelial cells, donor1.CNhs14555.11727-123D8",kidney epithelial 330 | "liver, adult pregnant day01.CNhs10466.508-5B2",liver 331 | "liver, embryo E12.CNhs10601.355-15F8",liver 332 | "liver, embryo E13.CNhs10524.378-3H6",liver 333 | "liver, embryo E14.CNhs10594.409-16E1",liver 334 | "liver, embryo E15.CNhs10520.433-16D7",liver 335 | "liver, embryo E16.CNhs10523.462-17F5",liver 336 | "liver, embryo E17.CNhs10510.481-18A3",liver 337 | "liver, embryo E18.CNhs10579.499-43G4",liver 338 | "liver, neonate N00.CNhs11117.641-24F4",liver 339 | "liver, neonate N03.CNhs11123.1345-25G2",liver 340 | "liver, neonate N06.CNhs11101.684-20A8",liver 341 | "liver, neonate N07.CNhs11103.716-20H2",liver 342 | "liver, neonate N10.CNhs11115.751-24B9",liver 343 | "liver, neonate N20.CNhs11220.823-25A3",liver 344 | "liver, neonate N25.CNhs11198.1368-26H1",liver 345 | "liver, neonate N30.CNhs11106.1382-42D1",liver 346 | "Mouse hepatic Sinusoidal Endothelial Cells, donor1.CNhs13209.11830-124G3",liver sinusoidal endothelial cell 347 | "liver sinusoidal endothelial cells, partial hepatectomy, 01week, biol_rep1.CNhs14508.13607-146F7",liver sinusoidal endothelial cell 348 | "liver sinusoidal endothelial cells, partial hepatectomy, 01week, biol_rep2.CNhs14509.13608-146F8",liver sinusoidal endothelial cell 349 | "liver sinusoidal endothelial cells, partial hepatectomy, 01week, biol_rep3.CNhs14510.13609-146F9",liver sinusoidal endothelial cell 350 | "liver sinusoidal endothelial cells, partial hepatectomy, 02hr, biol_rep1.CNhs14504.13598-146E7",liver sinusoidal endothelial cell 351 | "liver sinusoidal endothelial cells, partial hepatectomy, 02hr, biol_rep2.CNhs14399.13599-146E8",liver sinusoidal endothelial cell 352 | "liver sinusoidal endothelial cells, partial hepatectomy, 02hr, biol_rep3.CNhs14400.13600-146E9",liver sinusoidal endothelial cell 353 | "liver sinusoidal endothelial cells, partial hepatectomy, 30hr, biol_rep1.CNhs14402.13601-146F1",liver sinusoidal endothelial cell 354 | "liver sinusoidal endothelial cells, partial hepatectomy, 30hr, biol_rep2.CNhs14403.13602-146F2",liver sinusoidal endothelial cell 355 | "liver sinusoidal endothelial cells, partial hepatectomy, 30hr, biol_rep3.CNhs14506.13603-146F3",liver sinusoidal endothelial cell 356 | "liver sinusoidal endothelial cells, partial hepatectomy, 48hr, biol_rep1.CNhs14404.13604-146F4",liver sinusoidal endothelial cell 357 | "liver sinusoidal endothelial cells, partial hepatectomy, 48hr, biol_rep2.CNhs14405.13605-146F5",liver sinusoidal endothelial cell 358 | "liver sinusoidal endothelial cells, partial hepatectomy, 48hr, biol_rep3.CNhs14507.13606-146F6",liver sinusoidal endothelial cell 359 | "liver sinusoidal endothelial cells, sham operation, biol_rep1.CNhs14503.13595-146E4",liver sinusoidal endothelial cell 360 | "liver sinusoidal endothelial cells, sham operation, biol_rep2.CNhs14502.13596-146E5",liver sinusoidal endothelial cell 361 | "liver sinusoidal endothelial cells, sham operation, biol_rep3.CNhs14398.13597-146E6",liver sinusoidal endothelial cell 362 | "lung, adult.CNhs10474.28-22B1",lung 363 | "lung, embryo E12.CNhs10522.354-16G2",lung 364 | "lung, embryo E14.CNhs10604.404-26F8",lung 365 | "lung, embryo E15.CNhs11020.432-17C5",lung 366 | "lung, embryo E16.CNhs10998.458-17B6",lung 367 | "lung, embryo E17.CNhs10605.480-44A6",lung 368 | "lung, embryo E18.CNhs10583.1287-20I6",lung 369 | "lung, neonate N00.CNhs11224.640-42C6",lung 370 | "lung, neonate N06.CNhs11212.683-20E5",lung 371 | "lung, neonate N07.CNhs11111.715-19A3",lung 372 | "lung, neonate N10.CNhs11219.750-23E6",lung 373 | "lung, neonate N20.CNhs11109.822-18A4",lung 374 | "lung, neonate N25.CNhs11119.1359-25C7",lung 375 | "lung, neonate N30.CNhs11133.1394-42H2",lung 376 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14347.3972-173I4",macrophage 377 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14348.3973-173A5",macrophage 378 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14349.3974-173B5",macrophage 379 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14350.3975-173C5",macrophage 380 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14351.3976-173D5",macrophage 381 | "macrophage, TB infection, non stimulated BMDM, without Mtb, 024hr, biol_rep4.CNhs14342.3967-173D4",macrophage 382 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11507.3607-170C6",macrophage 383 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11582.3679-171C6",macrophage 384 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11508.3608-170D6",macrophage 385 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11583.3680-171D6",macrophage 386 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11509.3609-170E6",macrophage 387 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11584.3681-171E6",macrophage 388 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11510.3610-170F6",macrophage 389 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11511.3611-170G6",macrophage 390 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11586.3683-171G6",macrophage 391 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 004hr, biol_rep3.CNhs11633.3705-172B1",macrophage 392 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 006hr, biol_rep3.CNhs11634.3706-172C1",macrophage 393 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 012hr, biol_rep3.CNhs11635.3707-172D1",macrophage 394 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 024hr, biol_rep1.CNhs11458.3561-170B1",macrophage 395 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 024hr, biol_rep2.CNhs11533.3633-171B1",macrophage 396 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 024hr, biol_rep3.CNhs11636.3708-172E1",macrophage 397 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 028hr, biol_rep1.CNhs11459.3562-170C1",macrophage 398 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 028hr, biol_rep2.CNhs11534.3634-171C1",macrophage 399 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 028hr, biol_rep3.CNhs11637.3709-172F1",macrophage 400 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 036hr, biol_rep1.CNhs11460.3563-170D1",macrophage 401 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 036hr, biol_rep2.CNhs11535.3635-171D1",macrophage 402 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 036hr, biol_rep3.CNhs14298.3710-172G1",macrophage 403 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 048hr, biol_rep1.CNhs11461.3564-170E1",macrophage 404 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 048hr, biol_rep2.CNhs11536.3636-171E1",macrophage 405 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 048hr, biol_rep3.CNhs14299.3711-172H1",macrophage 406 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 072hr, biol_rep1.CNhs11462.3565-170F1",macrophage 407 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 072hr, biol_rep2.CNhs11537.3637-171F1",macrophage 408 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 072hr, biol_rep3.CNhs14300.3712-172I1",macrophage 409 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 120hr, biol_rep1.CNhs11463.3566-170G1",macrophage 410 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 120hr, biol_rep2.CNhs11538.3638-171G1",macrophage 411 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 120hr, biol_rep3.CNhs14301.3713-172A2",macrophage 412 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11517.3617-170D7",macrophage - alternatively activated 413 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11617.3689-171D7",macrophage - alternatively activated 414 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14357.3982-173A6",macrophage - alternatively activated 415 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11518.3618-170E7",macrophage - alternatively activated 416 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11618.3690-171E7",macrophage - alternatively activated 417 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11519.3619-170F7",macrophage - alternatively activated 418 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11619.3691-171F7",macrophage - alternatively activated 419 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11520.3620-170G7",macrophage - alternatively activated 420 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11620.3692-171G7",macrophage - alternatively activated 421 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14360.3985-173D6",macrophage - alternatively activated 422 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11521.3621-170H7",macrophage - alternatively activated 423 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11621.3693-171H7",macrophage - alternatively activated 424 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14361.3986-173E6",macrophage - alternatively activated 425 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 002hr, biol_rep1.CNhs11474.3577-170I2",macrophage - alternatively activated 426 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 002hr, biol_rep2.CNhs11552.3649-171I2",macrophage - alternatively activated 427 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 002hr, biol_rep3.CNhs11644.3724-172C3",macrophage - alternatively activated 428 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 004hr, biol_rep1.CNhs11475.3578-170A3",macrophage - alternatively activated 429 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 004hr, biol_rep2.CNhs11553.3650-171A3",macrophage - alternatively activated 430 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 004hr, biol_rep3.CNhs11645.3725-172D3",macrophage - alternatively activated 431 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 006hr, biol_rep1.CNhs11476.3579-170B3",macrophage - alternatively activated 432 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 006hr, biol_rep2.CNhs11554.3651-171B3",macrophage - alternatively activated 433 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 006hr, biol_rep3.CNhs11646.3726-172E3",macrophage - alternatively activated 434 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 012hr, biol_rep2.CNhs11555.3652-171C3",macrophage - alternatively activated 435 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 012hr, biol_rep3.CNhs11647.3727-172F3",macrophage - alternatively activated 436 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 024hr, biol_rep1.CNhs11478.3581-170D3",macrophage - alternatively activated 437 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 024hr, biol_rep2.CNhs11556.3653-171D3",macrophage - alternatively activated 438 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 024hr, biol_rep3.CNhs11648.3728-172G3",macrophage - alternatively activated 439 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 028hr, biol_rep1.CNhs11479.3582-170E3",macrophage - alternatively activated 440 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 028hr, biol_rep2.CNhs11557.3654-171E3",macrophage - alternatively activated 441 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 028hr, biol_rep3.CNhs11649.3729-172H3",macrophage - alternatively activated 442 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 036hr, biol_rep1.CNhs11480.3583-170F3",macrophage - alternatively activated 443 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 036hr, biol_rep2.CNhs11558.3655-171F3",macrophage - alternatively activated 444 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 036hr, biol_rep3.CNhs14306.3730-172I3",macrophage - alternatively activated 445 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 048hr, biol_rep1.CNhs11481.3584-170G3",macrophage - alternatively activated 446 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 048hr, biol_rep2.CNhs11559.3656-171G3",macrophage - alternatively activated 447 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 048hr, biol_rep3.CNhs14307.3731-172A4",macrophage - alternatively activated 448 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 072hr, biol_rep1.CNhs11482.3585-170H3",macrophage - alternatively activated 449 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 072hr, biol_rep3.CNhs14308.3732-172B4",macrophage - alternatively activated 450 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 120hr, biol_rep1.CNhs11483.3586-170I3",macrophage - alternatively activated 451 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 120hr, biol_rep2.CNhs11561.3658-171I3",macrophage - alternatively activated 452 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 120hr, biol_rep3.CNhs14309.3733-172C4",macrophage - alternatively activated 453 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11527.3627-170E8",macrophage - alternatively activated 454 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11627.3699-171E8",macrophage - alternatively activated 455 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14367.3992-173B7",macrophage - alternatively activated 456 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11528.3628-170F8",macrophage - alternatively activated 457 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11628.3700-171F8",macrophage - alternatively activated 458 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14368.3993-173C7",macrophage - alternatively activated 459 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11529.3629-170G8",macrophage - alternatively activated 460 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11629.3701-171G8",macrophage - alternatively activated 461 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14369.3994-173D7",macrophage - alternatively activated 462 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11530.3630-170H8",macrophage - alternatively activated 463 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11630.3702-171H8",macrophage - alternatively activated 464 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14370.3995-173E7",macrophage - alternatively activated 465 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11531.3631-170I8",macrophage - alternatively activated 466 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11631.3703-171I8",macrophage - alternatively activated 467 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14371.3996-173F7",macrophage - alternatively activated 468 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 002hr, biol_rep1.CNhs11494.3597-170B5",macrophage - alternatively activated 469 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 002hr, biol_rep3.CNhs11655.3744-172E5",macrophage - alternatively activated 470 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 004hr, biol_rep1.CNhs11495.3598-170C5",macrophage - alternatively activated 471 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 004hr, biol_rep3.CNhs14259.3745-172F5",macrophage - alternatively activated 472 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 006hr, biol_rep1.CNhs11496.3599-170D5",macrophage - alternatively activated 473 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 006hr, biol_rep2.CNhs11574.3671-171D5",macrophage - alternatively activated 474 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 006hr, biol_rep3.CNhs14260.3746-172G5",macrophage - alternatively activated 475 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 012hr, biol_rep1.CNhs11497.3600-170E5",macrophage - alternatively activated 476 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 012hr, biol_rep2.CNhs11575.3672-171E5",macrophage - alternatively activated 477 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 012hr, biol_rep3.CNhs14261.3747-172H5",macrophage - alternatively activated 478 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep1.CNhs11498.3601-170F5",macrophage - alternatively activated 479 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep2.CNhs11576.3673-171F5",macrophage - alternatively activated 480 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep3.CNhs14262.3748-172I5",macrophage - alternatively activated 481 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep4.CNhs14346.3971-173H4",macrophage - alternatively activated 482 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 028hr, biol_rep1.CNhs11502.3602-170G5",macrophage - alternatively activated 483 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 028hr, biol_rep2.CNhs11577.3674-171G5",macrophage - alternatively activated 484 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 028hr, biol_rep3.CNhs14263.3749-172A6",macrophage - alternatively activated 485 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 036hr, biol_rep1.CNhs11503.3603-170H5",macrophage - alternatively activated 486 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 036hr, biol_rep3.CNhs14264.3750-172B6",macrophage - alternatively activated 487 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 048hr, biol_rep1.CNhs11504.3604-170I5",macrophage - alternatively activated 488 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 048hr, biol_rep2.CNhs11579.3676-171I5",macrophage - alternatively activated 489 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 048hr, biol_rep3.CNhs14265.3751-172C6",macrophage - alternatively activated 490 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 072hr, biol_rep1.CNhs11505.3605-170A6",macrophage - alternatively activated 491 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 072hr, biol_rep2.CNhs11580.3677-171A6",macrophage - alternatively activated 492 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 072hr, biol_rep3.CNhs14266.3752-172D6",macrophage - alternatively activated 493 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 120hr, biol_rep1.CNhs11506.3606-170B6",macrophage - alternatively activated 494 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 120hr, biol_rep2.CNhs11581.3678-171B6",macrophage - alternatively activated 495 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 120hr, biol_rep3.CNhs14267.3753-172E6",macrophage - alternatively activated 496 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11522.3622-170I7",macrophage - alternatively activated 497 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11622.3694-171I7",macrophage - alternatively activated 498 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14362.3987-173F6",macrophage - alternatively activated 499 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11523.3623-170A8",macrophage - alternatively activated 500 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11623.3695-171A8",macrophage - alternatively activated 501 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14363.3988-173G6",macrophage - alternatively activated 502 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11524.3624-170B8",macrophage - alternatively activated 503 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11624.3696-171B8",macrophage - alternatively activated 504 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14364.3989-173H6",macrophage - alternatively activated 505 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11525.3625-170C8",macrophage - alternatively activated 506 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11625.3697-171C8",macrophage - alternatively activated 507 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14365.3990-173I6",macrophage - alternatively activated 508 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11526.3626-170D8",macrophage - alternatively activated 509 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11626.3698-171D8",macrophage - alternatively activated 510 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14366.3991-173A7",macrophage - alternatively activated 511 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 002hr, biol_rep1.CNhs11484.3587-170A4",macrophage - alternatively activated 512 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 002hr, biol_rep2.CNhs11562.3659-171A4",macrophage - alternatively activated 513 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 002hr, biol_rep3.CNhs11650.3734-172D4",macrophage - alternatively activated 514 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 004hr, biol_rep1.CNhs11485.3588-170B4",macrophage - alternatively activated 515 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 004hr, biol_rep2.CNhs11563.3660-171B4",macrophage - alternatively activated 516 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 004hr, biol_rep3.CNhs11651.3735-172E4",macrophage - alternatively activated 517 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 006hr, biol_rep1.CNhs11486.3589-170C4",macrophage - alternatively activated 518 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 006hr, biol_rep2.CNhs11564.3661-171C4",macrophage - alternatively activated 519 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 006hr, biol_rep3.CNhs11652.3736-172F4",macrophage - alternatively activated 520 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 012hr, biol_rep1.CNhs11487.3590-170D4",macrophage - alternatively activated 521 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 012hr, biol_rep2.CNhs11565.3662-171D4",macrophage - alternatively activated 522 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 012hr, biol_rep3.CNhs11653.3737-172G4",macrophage - alternatively activated 523 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep1.CNhs11488.3591-170E4",macrophage - alternatively activated 524 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep2.CNhs11566.3663-171E4",macrophage - alternatively activated 525 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep3.CNhs11654.3738-172H4",macrophage - alternatively activated 526 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep4.CNhs14345.3970-173G4",macrophage - alternatively activated 527 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 028hr, biol_rep1.CNhs11489.3592-170F4",macrophage - alternatively activated 528 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 028hr, biol_rep2.CNhs11567.3664-171F4",macrophage - alternatively activated 529 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 028hr, biol_rep3.CNhs14254.3739-172I4",macrophage - alternatively activated 530 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 036hr, biol_rep1.CNhs11490.3593-170G4",macrophage - alternatively activated 531 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 036hr, biol_rep2.CNhs11568.3665-171G4",macrophage - alternatively activated 532 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 036hr, biol_rep3.CNhs14255.3740-172A5",macrophage - alternatively activated 533 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 048hr, biol_rep1.CNhs11491.3594-170H4",macrophage - alternatively activated 534 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 048hr, biol_rep2.CNhs11569.3666-171H4",macrophage - alternatively activated 535 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 048hr, biol_rep3.CNhs14256.3741-172B5",macrophage - alternatively activated 536 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 072hr, biol_rep1.CNhs11492.3595-170I4",macrophage - alternatively activated 537 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 072hr, biol_rep2.CNhs11570.3667-171I4",macrophage - alternatively activated 538 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 072hr, biol_rep3.CNhs14257.3742-172C5",macrophage - alternatively activated 539 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 120hr, biol_rep1.CNhs11493.3596-170A5",macrophage - alternatively activated 540 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 120hr, biol_rep2.CNhs11571.3668-171A5",macrophage - alternatively activated 541 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 120hr, biol_rep3.CNhs14258.3743-172D5",macrophage - alternatively activated 542 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11512.3612-170H6",macrophage - classically activated 543 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11587.3684-171H6",macrophage - classically activated 544 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14352.3977-173E5",macrophage - classically activated 545 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11513.3613-170I6",macrophage - classically activated 546 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11588.3685-171I6",macrophage - classically activated 547 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14353.3978-173F5",macrophage - classically activated 548 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11514.3614-170A7",macrophage - classically activated 549 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11614.3686-171A7",macrophage - classically activated 550 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14354.3979-173G5",macrophage - classically activated 551 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11515.3615-170B7",macrophage - classically activated 552 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11615.3687-171B7",macrophage - classically activated 553 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14355.3980-173H5",macrophage - classically activated 554 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11516.3616-170C7",macrophage - classically activated 555 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11616.3688-171C7",macrophage - classically activated 556 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14356.3981-173I5",macrophage - classically activated 557 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 002hr, biol_rep1.CNhs11464.3567-170H1",macrophage - classically activated 558 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 002hr, biol_rep2.CNhs11539.3639-171H1",macrophage - classically activated 559 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 002hr, biol_rep3.CNhs11638.3714-172B2",macrophage - classically activated 560 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 004hr, biol_rep1.CNhs11465.3568-170I1",macrophage - classically activated 561 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 004hr, biol_rep2.CNhs11540.3640-171I1",macrophage - classically activated 562 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 004hr, biol_rep3.CNhs11639.3715-172C2",macrophage - classically activated 563 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 006hr, biol_rep1.CNhs11466.3569-170A2",macrophage - classically activated 564 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 006hr, biol_rep2.CNhs11541.3641-171A2",macrophage - classically activated 565 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 006hr, biol_rep3.CNhs11640.3716-172D2",macrophage - classically activated 566 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 012hr, biol_rep1.CNhs11467.3570-170B2",macrophage - classically activated 567 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 012hr, biol_rep2.CNhs11542.3642-171B2",macrophage - classically activated 568 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 012hr, biol_rep3.CNhs11641.3717-172E2",macrophage - classically activated 569 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep1.CNhs11468.3571-170C2",macrophage - classically activated 570 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep2.CNhs11543.3643-171C2",macrophage - classically activated 571 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep3 .CNhs11642.3718-172F2",macrophage - classically activated 572 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep4.CNhs14343.3968-173E4",macrophage - classically activated 573 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 028hr, biol_rep1.CNhs11469.3572-170D2",macrophage - classically activated 574 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 028hr, biol_rep2.CNhs11547.3644-171D2",macrophage - classically activated 575 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 028hr, biol_rep3.CNhs11643.3719-172G2",macrophage - classically activated 576 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 036hr, biol_rep1.CNhs11470.3573-170E2",macrophage - classically activated 577 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 036hr, biol_rep2.CNhs11548.3645-171E2",macrophage - classically activated 578 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 036hr, biol_rep3.CNhs14302.3720-172H2",macrophage - classically activated 579 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 048hr, biol_rep1.CNhs11471.3574-170F2",macrophage - classically activated 580 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 048hr, biol_rep2.CNhs11549.3646-171F2",macrophage - classically activated 581 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 048hr, biol_rep3.CNhs14303.3721-172I2",macrophage - classically activated 582 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 072hr, biol_rep2.CNhs11550.3647-171G2",macrophage - classically activated 583 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 072hr, biol_rep3.CNhs14304.3722-172A3",macrophage - classically activated 584 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 120hr, biol_rep1.CNhs11473.3576-170H2",macrophage - classically activated 585 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 120hr, biol_rep2.CNhs11551.3648-171H2",macrophage - classically activated 586 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 120hr, biol_rep3.CNhs14305.3723-172B3",macrophage - classically activated 587 | "mammary gland, adult lactating day02.CNhs10480.595-22B6",mammary gland 588 | "mammary gland, adult pregnant day19.CNhs10476.588-5H2",mammary gland 589 | "medulla oblongata, adult.CNhs10477.17-12C2",medulla oblongata 590 | "medulla oblongata, neonate N30.CNhs11200.1396-42A3",medulla oblongata 591 | "Mouse Meningeal cells, donor1.CNhs12132.11716-123C6",meningeal cell 592 | "Mouse Meningeal cells, donor2.CNhs12358.11734-123E6",meningeal cell 593 | "Mouse Meningeal cells, donor3.CNhs12109.11639-122D1",meningeal cell 594 | "Mouse Mesenchymal stem cells - bone marrow derived, donor1.CNhs12628.11717-123C7",mesenchymal stem cell of the bone marrow 595 | "Mouse Mesenchymal stem cells - bone marrow derived, donor2.CNhs12633.11735-123E7",mesenchymal stem cell of the bone marrow 596 | "Mouse Mesenchymal stem cells - bone marrow derived, donor3.CNhs12616.11640-122D2",mesenchymal stem cell of the bone marrow 597 | "Mesoderm, embryo E8.5.CNhs14148.11947-126B3",mesoderm 598 | "Mouse Microglia, donor1.CNhs12629.11718-123C8",microglia 599 | "Mouse Microglia, donor2.CNhs12634.11736-123E8",microglia 600 | "natural helper cells, IL2 treated, day15, biol_rep1, tech_rep1.CNhs12576.12247-129H6",natural helper cell 601 | "natural helper cells, IL2 treated, day15, biol_rep1, tech_rep2.CNhs14330.12247-129H6",natural helper cell 602 | "natural helper cells, IL2 treated, day15, biol_rep1, tech_rep3.CNhs14378.12247-129H6",natural helper cell 603 | "natural helper cells, IL2 treated, day15, biol_rep2, tech_rep1.CNhs12508.12248-129H7",natural helper cell 604 | "natural helper cells, IL2 treated, day15, biol_rep2, tech_rep2.CNhs14334.12248-129H7",natural helper cell 605 | "natural helper cells, IL2 treated, day15, biol_rep2, tech_rep3.CNhs14388.12248-129H7",natural helper cell 606 | "natural helper cells, IL2 treated, day15, biol_rep3, tech_rep1.CNhs12509.12249-129H8",natural helper cell 607 | "natural helper cells, IL2 treated, day15, biol_rep3, tech_rep2.CNhs14335.12249-129H8",natural helper cell 608 | "natural helper cells, IL2 treated, day15, biol_rep3, tech_rep3.CNhs14389.12249-129H8",natural helper cell 609 | "natural helper cells, IL33 treated, 01hr, biol_rep1, tech_rep1.CNhs12579.12253-129I3",natural helper cell 610 | "natural helper cells, IL33 treated, 01hr, biol_rep1, tech_rep2.CNhs14332.12253-129I3",natural helper cell 611 | "natural helper cells, IL33 treated, 01hr, biol_rep1, tech_rep3.CNhs14383.12253-129I3",natural helper cell 612 | "natural helper cells, IL33 treated, 01hr, biol_rep2, tech_rep2.CNhs14338.12254-129I4",natural helper cell 613 | "natural helper cells, IL33 treated, 01hr, biol_rep2, tech_rep3.CNhs14384.12254-129I4",natural helper cell 614 | "natural helper cells, IL33 treated, 01hr, biol_rep3, tech_rep2.CNhs14339.12255-129I5",natural helper cell 615 | "natural helper cells, IL33 treated, 01hr, biol_rep3, tech_rep3.CNhs14380.12255-129I5",natural helper cell 616 | "natural helper cells, IL33 treated, day02, biol_rep1, tech_rep2.CNhs14336.12250-129H9",natural helper cell 617 | "natural helper cells, IL33 treated, day02, biol_rep1, tech_rep3.CNhs14386.12250-129H9",natural helper cell 618 | "natural helper cells, IL33 treated, day02, biol_rep2, tech_rep2.CNhs14337.12251-129I1",natural helper cell 619 | "natural helper cells, IL33 treated, day02, biol_rep2, tech_rep3.CNhs14385.12251-129I1",natural helper cell 620 | "natural helper cells, IL33 treated, day02, biol_rep3, tech_rep1.CNhs12578.12252-129I2",natural helper cell 621 | "natural helper cells, IL33 treated, day02, biol_rep3, tech_rep2.CNhs14331.12252-129I2",natural helper cell 622 | "natural helper cells, IL33 treated, day02, biol_rep3, tech_rep3.CNhs14379.12252-129I2",natural helper cell 623 | "natural helper cells, naive, biol_rep1, tech_rep2.CNhs14340.12256-129I6",natural helper cell 624 | "natural helper cells, naive, biol_rep1, tech_rep3.CNhs14381.12256-129I6",natural helper cell 625 | "natural helper cells, naive, biol_rep2, tech_rep1.CNhs12515.12257-129I7",natural helper cell 626 | "natural helper cells, naive, biol_rep2, tech_rep2.CNhs14341.12257-129I7",natural helper cell 627 | "natural helper cells, naive, biol_rep2, tech_rep3.CNhs14382.12257-129I7",natural helper cell 628 | "natural helper cells, naive, biol_rep3, tech_rep1.CNhs12580.12258-129I8",natural helper cell 629 | "natural helper cells, naive, biol_rep3, tech_rep2.CNhs14333.12258-129I8",natural helper cell 630 | "natural helper cells, naive, biol_rep3, tech_rep3.CNhs14387.12258-129I8",natural helper cell 631 | "Mouse Neurons - cortical, donor1.CNhs12025.11724-123D5",neuron - cortical 632 | "Mouse Neurons - cortical, donor2.CNhs11947.11742-123F5",neuron - cortical 633 | "Mouse Neurons - cortical, donor3.CNhs12112.11647-122D9",neuron - cortical 634 | "Mouse Neurons - dorsal spinal cord, donor2.CNhs12635.11738-123F1",neuron - dorsal spinal cord 635 | "Mouse Neurons - dorsal spinal cord, donor3.CNhs12618.11643-122D5",neuron - dorsal spinal cord 636 | "Mouse Neurons - hippocampal, donor1.CNhs12133.11721-123D2",neuron - hippocampal 637 | "Mouse Neurons - hippocampal, donor2.CNhs12359.11739-123F2",neuron - hippocampal 638 | "Mouse Neurons - hippocampal, donor3.CNhs12110.11644-122D6",neuron - hippocampal 639 | "Mouse Neurons - raphe, donor1.CNhs12631.11722-123D3",neuron - raphe 640 | "Mouse Neurons - raphe, donor2.CNhs12636.11740-123F3",neuron - raphe 641 | "Mouse Neurons - raphe, donor3.CNhs12619.11645-122D7",neuron - raphe 642 | "Mouse Neurons - striatal, donor1.CNhs12134.11723-123D4",neuron - striatal 643 | "Mouse Neurons - striatal, donor2.CNhs12360.11741-123F4",neuron - striatal 644 | "Mouse Neurons - striatal, donor3.CNhs12111.11646-122D8",neuron - striatal 645 | "Mouse Neurons - substantia nigra, donor4, tech_rep1.CNhs12612.11489-119E4",neuron - substantia nigra 646 | "Mouse Neurons - substantia nigra, donor4, tech_rep2.CNhs12821.11489-119E4",neuron - substantia nigra 647 | "Mouse Neurons - substantia nigra, donor5.CNhs12614.11490-119E5",neuron - substantia nigra 648 | "Mouse Neurons - substantia nigra, donor6.CNhs12643.11770-123I6",neuron - substantia nigra 649 | "Mouse Neurons - ventral spinal cord, donor1.CNhs12632.11725-123D6",neuron - ventral spinal cord 650 | "Mouse Neurons - ventral spinal cord, donor2.CNhs12638.11743-123F6",neuron - ventral spinal cord 651 | "Mouse Neurons - ventral spinal cord, donor3.CNhs12113.11648-122E1",neuron - ventral spinal cord 652 | "Neurons - substantia nigra, donor5, tech_rep2.CNhs12923.11490-119E5",neuron of substantia nigra 653 | "olfactory brain, adult.CNhs10489.18-22I9",olfactory brain 654 | "osteoclast, bone marrow derived.CNhs14137.2379-69A1",osteoclast 655 | "ST2 (Mesenchymal stem cells) cells, differentiation to osteocytes, day06, biol_rep1 (144hB1).CNhs11940.12337-130I6",osteocyte 656 | "ST2 (Mesenchymal stem cells) cells, differentiation to osteocytes, day06, biol_rep2 (144hB2).CNhs13274.12459-132E2",osteocyte 657 | "ST2 (Mesenchymal stem cells) cells, differentiation to osteocytes, day06, biol_rep3 (144hB3).CNhs13323.12581-133I7",osteocyte 658 | "ovary, adult.CNhs10507.91-2I7",ovary 659 | "ovary, embryo E18.CNhs11040.505-44H7",ovary 660 | "ovary, neonate N00.CNhs11217.1299-22I4",ovary 661 | "oviduct, adult pregnant day01.CNhs10500.988-6G6",oviduct 662 | "pancreas, adult.CNhs10486.34-16E4",pancreas 663 | "pancreas, embryo E14.CNhs11012.405-44F4",pancreas 664 | "pancreas, embryo E15.CNhs11042.1556-45F2",pancreas 665 | "pancreas, embryo E16.CNhs11003.460-26E5",pancreas 666 | "pancreas, embryo E17.CNhs10599.1558-45G3",pancreas 667 | "pancreas, embryo E18.CNhs10580.1535-43I7",pancreas 668 | "pancreas, neonate N00.CNhs11105.645-26G9",pancreas 669 | "pancreas, neonate N01.CNhs11138.1531-43D7",pancreas 670 | "pancreas, neonate N02.CNhs11139.1539-43D8",pancreas 671 | "pancreas, neonate N16.CNhs11136.787-43B6",pancreas 672 | "pancreas, neonate N25.CNhs11094.1555-45E2",pancreas 673 | "pancreas, neonate N30.CNhs11182.1548-44H5",pancreas 674 | "neurospheres - parasympathetic neuron derived, biol_rep1.CNhs13084.11807-124D7",parasympathetic neuron 675 | "neurospheres - parasympathetic neuron derived, biol_rep2.CNhs13085.11808-124D8",parasympathetic neuron 676 | "neurospheres - parasympathetic neuron derived, biol_rep3.CNhs13086.11809-124D9",parasympathetic neuron 677 | "pituitary gland, adult.CNhs10493.21-1G8",pituitary gland 678 | "pituitary gland, embryo E12.CNhs11018.346-16E6",pituitary gland 679 | "pituitary gland, embryo E13.CNhs11009.370-44C7",pituitary gland 680 | "pituitary gland, embryo E14.CNhs11037.398-44A5",pituitary gland 681 | "pituitary gland, embryo E15.CNhs10592.427-16B9",pituitary gland 682 | "pituitary gland, embryo E16.CNhs11036.449-43F6",pituitary gland 683 | "pituitary gland, embryo E17.CNhs11039.1265-44F5",pituitary gland 684 | "pituitary gland, neonate N00.CNhs11190.1308-22E9",pituitary gland 685 | "placenta, adult pregnant day10.CNhs10472.539-13I7",placenta 686 | "placenta, adult pregnant day17.CNhs10464.577-18G3",placenta 687 | "prostate, adult.CNhs10470.859-1F8",prostate 688 | "Mouse Schwann, donor1.CNhs12507.11728-123D9",schwann cell 689 | "Mouse Schwann, donor2.CNhs12573.11746-123F9",schwann cell 690 | "muscle (biceps femoris), neonate N30.CNhs11129.1389-42C2",skeletal muscle 691 | "skin, adult.CNhs10492.30-1C3",skin 692 | "skin, neonate N00.CNhs11124.650-25G4",skin 693 | "skin, neonate N03.CNhs11215.662-22H3",skin 694 | "skin, neonate N06.CNhs11097.693-20I5",skin 695 | "skin, neonate N10.CNhs11108.762-6C4",skin 696 | "small intestine, neonate N16.CNhs11114.790-21I1",small intestine 697 | "spinal cord, adult.CNhs10505.24-13C9",spinal cord 698 | "Neurons - spiral ganglion, pool1.CNhs14147.11959-126C6",spiral ganglion neuron 699 | "spleen, adult.CNhs10465.25-2G2",spleen 700 | "spleen, embryo E16.CNhs11035.461-43C1",spleen 701 | "spleen, embryo E18.CNhs11011.1271-21F2",spleen 702 | "spleen, neonate N10.CNhs11116.752-24D1",spleen 703 | "spleen, neonate N20.CNhs11112.824-19H1",spleen 704 | "spleen, neonate N25.CNhs11099.1354-25G3",spleen 705 | "stomach, adult.CNhs10503.33-1H6",stomach 706 | "stomach, embryo E12.CNhs10588.356-43E3",stomach 707 | "stomach, embryo E15.CNhs10603.1252-16G8",stomach 708 | "stomach, embryo E16.CNhs11022.459-17D4",stomach 709 | "stomach, embryo E17.CNhs11006.1035-18D5",stomach 710 | "stomach, embryo E18.CNhs10999.1286-20C6",stomach 711 | "stomach, neonate N03.CNhs11193.1340-24B8",stomach 712 | "stomach, neonate N07.CNhs11210.718-18A9",stomach 713 | "stomach, neonate N25.CNhs11104.1355-25E4",stomach 714 | "stomach, neonate N30.CNhs11134.1386-42I1",stomach 715 | "submandibular gland, adult.CNhs10469.59-29C1",submandibular gland 716 | "neurospheres - sympathetic neuron derived, biol_rep1.CNhs13081.11804-124D4",sympathetic neuron 717 | "neurospheres - sympathetic neuron derived, biol_rep2.CNhs13082.11805-124D5",sympathetic neuron 718 | "neurospheres - sympathetic neuron derived, biol_rep3.CNhs13083.11806-124D6",sympathetic neuron 719 | "testis, adult.CNhs10504.57-7G5",testis 720 | "testis, embryo E13.CNhs11031.389-23F5",testis 721 | "testis, embryo E15.CNhs11034.443-27C5",testis 722 | "testis, embryo E16.CNhs11033.470-26G5",testis 723 | "testis, embryo E17.CNhs11029.486-18I5",testis 724 | "testis, embryo E18.CNhs11027.503-18G5",testis 725 | "testis, neonate N00.CNhs11189.1300-22B7",testis 726 | "testis, neonate N07.CNhs11222.726-26I4",testis 727 | "testis, neonate N10.CNhs11204.763-44D9",testis 728 | "testis, neonate N20.CNhs11110.839-18H3",testis 729 | "testis, neonate N30.CNhs11130.1391-42E2",testis 730 | "thymus, adult.CNhs10471.38-12B5",thymus 731 | "thymus, embryo E14.CNhs11041.402-44I4",thymus 732 | "thymus, embryo E15.CNhs11005.430-45I2",thymus 733 | "thymus, embryo E16.CNhs11002.456-26C5",thymus 734 | "thymus, embryo E17.CNhs10581.478-18C1",thymus 735 | "thymus, embryo E18.CNhs10595.1273-19G4",thymus 736 | "thymus, neonate N02.CNhs11181.1541-43F8",thymus 737 | "thymus, neonate N03.CNhs11137.2104-43C7",thymus 738 | "thymus, neonate N06.CNhs11197.681-26C4",thymus 739 | "thymus, neonate N07.CNhs11211.713-19D3",thymus 740 | "thymus, neonate N10.CNhs11194.748-24E4",thymus 741 | "thymus, neonate N20.CNhs11186.820-7A2",thymus 742 | "thymus, neonate N25.CNhs11125.1362-25G7",thymus 743 | "thymus, neonate N30.CNhs11132.1393-42G2",thymus 744 | "tongue, adult.CNhs10499.32-1B4",tongue 745 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 000hr, biol_rep1.CNhs13739.13367-143G1",tracheal epithelial cell 746 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 000hr, biol_rep2.CNhs13740.13368-143G2",tracheal epithelial cell 747 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 000hr, biol_rep3.CNhs13741.13369-143G3",tracheal epithelial cell 748 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 004hr, biol_rep1.CNhs13742.13370-143G4",tracheal epithelial cell 749 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 004hr, biol_rep2.CNhs13743.13371-143G5",tracheal epithelial cell 750 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 004hr, biol_rep3.CNhs13744.13372-143G6",tracheal epithelial cell 751 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 008hr, biol_rep1.CNhs13745.13373-143G7",tracheal epithelial cell 752 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 008hr, biol_rep2.CNhs13746.13374-143G8",tracheal epithelial cell 753 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 008hr, biol_rep3.CNhs13747.13375-143G9",tracheal epithelial cell 754 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 012hr, biol_rep1.CNhs13696.13376-143H1",tracheal epithelial cell 755 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 012hr, biol_rep2.CNhs13748.13377-143H2",tracheal epithelial cell 756 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 012hr, biol_rep3.CNhs13749.13378-143H3",tracheal epithelial cell 757 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 016hr, biol_rep1.CNhs13750.13379-143H4",tracheal epithelial cell 758 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 016hr, biol_rep2.CNhs13751.13380-143H5",tracheal epithelial cell 759 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 016hr, biol_rep3.CNhs13752.13381-143H6",tracheal epithelial cell 760 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 020hr, biol_rep1.CNhs13697.13382-143H7",tracheal epithelial cell 761 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 020hr, biol_rep2.CNhs13753.13383-143H8",tracheal epithelial cell 762 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 020hr, biol_rep3.CNhs13754.13384-143H9",tracheal epithelial cell 763 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 024hr, biol_rep1.CNhs13755.13385-143I1",tracheal epithelial cell 764 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 024hr, biol_rep2.CNhs13756.13386-143I2",tracheal epithelial cell 765 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 024hr, biol_rep3.CNhs13757.13387-143I3",tracheal epithelial cell 766 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 030hr, biol_rep1.CNhs13758.13388-143I4",tracheal epithelial cell 767 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 030hr, biol_rep2.CNhs13759.13389-143I5",tracheal epithelial cell 768 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 030hr, biol_rep3.CNhs13760.13390-143I6",tracheal epithelial cell 769 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 036hr, biol_rep1.CNhs13762.13391-143I7",tracheal epithelial cell 770 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 036hr, biol_rep2.CNhs13763.13392-143I8",tracheal epithelial cell 771 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 036hr, biol_rep3.CNhs13764.13393-143I9",tracheal epithelial cell 772 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 042hr, biol_rep1.CNhs13765.13394-144A1",tracheal epithelial cell 773 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 042hr, biol_rep2.CNhs13766.13395-144A2",tracheal epithelial cell 774 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 042hr, biol_rep3.CNhs13767.13396-144A3",tracheal epithelial cell 775 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 048hr, biol_rep1.CNhs13768.13397-144A4",tracheal epithelial cell 776 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 048hr, biol_rep2.CNhs13769.13398-144A5",tracheal epithelial cell 777 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 048hr, biol_rep3.CNhs13770.13399-144A6",tracheal epithelial cell 778 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 054hr, biol_rep1.CNhs13771.13400-144A7",tracheal epithelial cell 779 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 054hr, biol_rep2.CNhs13772.13401-144A8",tracheal epithelial cell 780 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 054hr, biol_rep3.CNhs13773.13402-144A9",tracheal epithelial cell 781 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 060hr, biol_rep1.CNhs13774.13403-144B1",tracheal epithelial cell 782 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 060hr, biol_rep2.CNhs13775.13404-144B2",tracheal epithelial cell 783 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 060hr, biol_rep3.CNhs13776.13405-144B3",tracheal epithelial cell 784 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 066hr, biol_rep1.CNhs13777.13406-144B4",tracheal epithelial cell 785 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 066hr, biol_rep2.CNhs13778.13407-144B5",tracheal epithelial cell 786 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 066hr, biol_rep3.CNhs13779.13408-144B6",tracheal epithelial cell 787 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 072hr, biol_rep1.CNhs13780.13409-144B7",tracheal epithelial cell 788 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 072hr, biol_rep2.CNhs13781.13410-144B8",tracheal epithelial cell 789 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 072hr, biol_rep3.CNhs13782.13411-144B9",tracheal epithelial cell 790 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 084hr, biol_rep1.CNhs13783.13412-144C1",tracheal epithelial cell 791 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 084hr, biol_rep2.CNhs13784.13413-144C2",tracheal epithelial cell 792 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 084hr, biol_rep3.CNhs13786.13414-144C3",tracheal epithelial cell 793 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 096hr, biol_rep1.CNhs13787.13415-144C4",tracheal epithelial cell 794 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 096hr, biol_rep2.CNhs13788.13416-144C5",tracheal epithelial cell 795 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 096hr, biol_rep3.CNhs13789.13417-144C6",tracheal epithelial cell 796 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 120hr, biol_rep1.CNhs13790.13418-144C7",tracheal epithelial cell 797 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 120hr, biol_rep2.CNhs13791.13419-144C8",tracheal epithelial cell 798 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 120hr, biol_rep3.CNhs13792.13420-144C9",tracheal epithelial cell 799 | "urinary bladder, adult.CNhs10481.879-12E4",urinary bladder 800 | "uterus, adult pregnant day19.CNhs10497.590-15F5",uterus 801 | "uterus, adult.CNhs10509.92-27E5",uterus 802 | "vagina, adult.CNhs10502.89-27D5",vagina 803 | "vesicular gland, adult.CNhs10491.51-27F8",vesicular gland 804 | "visual cortex - Mecp knockout, neonate N15, donor1.CNhs13040.10244-104B1",visual cortex 805 | "visual cortex - Mecp knockout, neonate N15, donor2.CNhs13041.10245-104B2",visual cortex 806 | "visual cortex - Mecp knockout, neonate N15, donor3.CNhs13821.10350-105D8",visual cortex 807 | "visual cortex - Mecp knockout, neonate N30, donor1.CNhs13042.10246-104B3",visual cortex 808 | "visual cortex - Mecp knockout, neonate N30, donor2.CNhs13043.10247-104B4",visual cortex 809 | "visual cortex - Mecp knockout, neonate N30, donor3.CNhs13044.10248-104B5",visual cortex 810 | "visual cortex - Mecp knockout, neonate N60-70, donor1.CNhs13045.10249-104B6",visual cortex 811 | "visual cortex - Mecp knockout, neonate N60-70, donor2.CNhs13046.10250-104B7",visual cortex 812 | "visual cortex - Mecp knockout, neonate N60-70, donor3.CNhs13048.10251-104B8",visual cortex 813 | "visual cortex - wildtype, neonate N15, donor1.CNhs13031.10235-104A1",visual cortex 814 | "visual cortex - wildtype, neonate N15, donor2.CNhs13032.10236-104A2",visual cortex 815 | "visual cortex - wildtype, neonate N15, donor3.CNhs13033.10237-104A3",visual cortex 816 | "visual cortex - wildtype, neonate N15, donor5.CNhs13820.10349-105D7",visual cortex 817 | "visual cortex - wildtype, neonate N30, donor1.CNhs13034.10238-104A4",visual cortex 818 | "visual cortex - wildtype, neonate N30, donor2.CNhs13035.10239-104A5",visual cortex 819 | "visual cortex - wildtype, neonate N30, donor3.CNhs13036.10240-104A6",visual cortex 820 | "visual cortex - wildtype, neonate N60-70, donor1.CNhs13037.10241-104A7",visual cortex 821 | "visual cortex - wildtype, neonate N60-70, donor2.CNhs13038.10242-104A8",visual cortex 822 | "visual cortex - wildtype, neonate N60-70, donor3.CNhs13039.10243-104A9",visual cortex 823 | -------------------------------------------------------------------------------- /refDB/FANTOM5/10090_symbol.csv.zip: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/forrest-lab/scMatch/e6b9663cc77655d7aa4e18d99df1423302a1b49a/refDB/FANTOM5/10090_symbol.csv.zip -------------------------------------------------------------------------------- /refDB/FANTOM5/9606_HID.csv.zip: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/forrest-lab/scMatch/e6b9663cc77655d7aa4e18d99df1423302a1b49a/refDB/FANTOM5/9606_HID.csv.zip -------------------------------------------------------------------------------- /refDB/FANTOM5/9606_symbol.csv.zip: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/forrest-lab/scMatch/e6b9663cc77655d7aa4e18d99df1423302a1b49a/refDB/FANTOM5/9606_symbol.csv.zip -------------------------------------------------------------------------------- /refDB/FANTOM5/mouse_samples_oto.txt: -------------------------------------------------------------------------------- 1 | { 2 | "Aortic Smooth Muscle cell": [ 3 | "Mouse Aortic Smooth Muscle cells - differentiated, biol_rep1.CNhs11055.11484-119D8", 4 | "Mouse Aortic Smooth Muscle cells - differentiated, biol_rep2.CNhs11056.11485-119D9", 5 | "Mouse Aortic Smooth Muscle cells, donor1.CNhs11297.11299-117B3" 6 | ], 7 | "Astrocyte": [ 8 | "Mouse Astrocytes - cerebellar, donor1.CNhs13077.11708-123B7", 9 | "Mouse Astrocytes - cerebellar, donor2.CNhs12076.11550-120C2", 10 | "Mouse Astrocytes - hippocampus, donor1.CNhs12129.11709-123B8", 11 | "Mouse Astrocytes - hippocampus, donor2.CNhs12077.11551-120C3", 12 | "Mouse Astrocytes, donor2.CNhs12078.11552-120C4", 13 | "Mouse Astrocytes, donor3.CNhs12107.11633-122C4", 14 | "Astrocytes, donor1.CNhs11915.11710-123B9" 15 | ], 16 | "Atoh1+ Inner ear hair cell": [ 17 | "Atoh1+ Inner ear hair cells - organ of corti, pool1.CNhs12533.12158-128G7" 18 | ], 19 | "CD19+ B cell": [ 20 | "Mouse CD19+ B Cells, donor1.CNhs13531.11856-125A2" 21 | ], 22 | "CD4+ T cell": [ 23 | "Mouse CD4+ T Cells, donor1.CNhs13509.11854-124I9" 24 | ], 25 | "CD4+CD25+ regulatory T cell": [ 26 | "CD4+CD25+ regulatory T cells, pool2 (Balb_cAJcl).CNhs13221.11818-124E9", 27 | "CD4+CD25+ regulatory T cells, PMA and ionomycin stimulation, 02hr, pool1 (BalbcA).CNhs14160.11946-126B2", 28 | "CD4+CD25+ regulatory T cells, PMA and ionomycin stimulation, 02hr, pool1 (C57BL 6J).CNhs14142.11945-126B1", 29 | "CD4+CD25+ regulatory T cells, antiCD3 CD28 stimulation, 06hr, pool1 (BalbcA).CNhs14158.11943-126A8", 30 | "CD4+CD25+ regulatory T cells, antiCD3 CD28 stimulation, 06hr, pool1 (C57BL 6J).CNhs14159.11944-126A9", 31 | "CD4+CD25+ regulatory T cells, pool1 (C57BL_6J).CNhs13913.11814-124E5" 32 | ], 33 | "CD4+CD25-CD44- naive conventional T cell": [ 34 | "CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool1 (C57BL_6J).CNhs13219.11816-124E7", 35 | "CD4+CD25-CD44- naive conventional T cells, PMA and ionomycin stimulation, 02hr, pool2 (Balb_cAJcl).CNhs13226.11820-124F2", 36 | "CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool1 (C57BL_6J).CNhs13218.11815-124E6", 37 | "CD4+CD25-CD44- naive conventional T cells, antiCD3_CD28 stimulation, 06hr, pool2 (Balb_cAJcl).CNhs13225.11819-124F1", 38 | "CD4+CD25-CD44- naive conventional T cells, pool1 (C57BL_6J).CNhs13217.11813-124E4", 39 | "CD4+CD25-CD44- naive conventional T cells, pool2 (Balb_cAJcl).CNhs13220.11817-124E8" 40 | ], 41 | "CD41+ megakaryocyte": [ 42 | "CD41+ megakaryocyte cancer, donor1.CNhs13079.11774-124A1", 43 | "CD41+ megakaryocyte cancer, donor2.CNhs13213.11776-124A3", 44 | "CD41+ megakaryocyte cancer, donor3.CNhs13506.11778-124A5", 45 | "CD41+ megakaryocyte control, donor1.CNhs13212.11775-124A2", 46 | "CD41+ megakaryocyte control, donor2.CNhs13214.11777-124A4", 47 | "CD41+ megakaryocyte control, donor3.CNhs13201.11779-124A6" 48 | ], 49 | "CD8+ T cell": [ 50 | "Mouse CD8+ T Cells, donor1.CNhs13511.11855-125A1" 51 | ], 52 | "Cardiac myocyte": [ 53 | "Mouse Cardiac Myocytes, donor1.CNhs12355.11711-123C1", 54 | "Mouse Cardiac Myocytes, donor2.CNhs12356.11729-123E1", 55 | "Mouse Cardiac Myocytes, donor3.CNhs12353.11634-122C5" 56 | ], 57 | "EBF KO Hematopoietic progenitor cell": [ 58 | "EBF KO HPCs induced to T cell, 00hr00min, biol_rep1.CNhs11058.12972-138H2", 59 | "EBF KO HPCs induced to T cell, 00hr00min, biol_rep2.CNhs12980.12988-138I9", 60 | "EBF KO HPCs induced to T cell, 00hr00min, biol_rep3.CNhs13687.13004-139B7" 61 | ], 62 | "Follicle Associated Epithelium": [ 63 | "Follicle Associated Epithelium, pool2.CNhs13211.10262-104D1", 64 | "Follicle Associated Epithelium, pool3.CNhs13200.10263-104D2" 65 | ], 66 | "GP2+ M cell": [ 67 | "GP2+ M cell, pool1.CNhs13228.11845-124H9", 68 | "GP2+ M cell, pool2.CNhs13231.11846-124I1", 69 | "GP2+ M cell, pool3.CNhs13240.11847-124I2" 70 | ], 71 | "Granule cell": [ 72 | "Mouse Granule cells, donor1.CNhs12131.11713-123C3", 73 | "Mouse Granule cells, donor2.CNhs12357.11731-123E3", 74 | "Mouse Granule cells, donor3.CNhs12108.11636-122C7" 75 | ], 76 | "Ileum epithelium": [ 77 | "Ileum epithelium, pool1.CNhs13199.10252-104B9", 78 | "Ileum epithelium, pool2.CNhs13232.10253-104C1", 79 | "Ileum epithelium, treated with RANKL, day03, pool3.CNhs13234.10260-104C8" 80 | ], 81 | "Inner ear stem cell": [ 82 | "Inner ear stem cells, 1st generation stem cells, pool1.CNhs11929.12215-129E1", 83 | "Inner ear stem cells, 4th generation stem cells, pool1.CNhs12544.12216-129E2", 84 | "Inner ear stem cells, differentiation, day03, pool1.CNhs12189.12217-129E3", 85 | "Inner ear stem cells, differentiation, day10, pool1.CNhs12190.12218-129E4" 86 | ], 87 | "J2E erythroblastic cell line": [ 88 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep1.CNhs12449.13063-139I3", 89 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep2.CNhs12668.13129-140G6", 90 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep3, tech_rep1.CNhs12770.13195-141E9", 91 | "J2E erythroblastic leukemia response to erythropoietin, 24hr, biol_rep3.CNhs12784.13209-141G5", 92 | "J2E erythroblastic leukemia response to erythropoietin, 24hr, biol_rep2.CNhs12682.13143-140I2", 93 | "J2E erythroblastic leukemia response to erythropoietin, 01hr20min, biol_rep1.CNhs12648.13068-139I8", 94 | "J2E erythroblastic leukemia response to erythropoietin, 48hr, biol_rep2.CNhs12683.13144-140I3", 95 | "J2E erythroblastic leukemia response to erythropoietin, 02hr00min, biol_rep3, tech_rep2.CNhs14548.13202-141F7", 96 | "J2E erythroblastic leukemia response to erythropoietin, 04hr, biol_rep2.CNhs12679.13140-140H8", 97 | "J2E erythroblastic leukemia response to erythropoietin, 00hr15min, biol_rep2.CNhs12669.13130-140G7", 98 | "J2E erythroblastic leukemia response to erythropoietin, 12hr, biol_rep1.CNhs12454.13076-140A7", 99 | "J2E erythroblastic leukemia response to erythropoietin, 03hr30min, biol_rep2.CNhs12678.13139-140H7", 100 | "J2E erythroblastic leukemia response to erythropoietin, 01hr40min, biol_rep2.CNhs12674.13135-140H3", 101 | "J2E erythroblastic leukemia response to erythropoietin, 01hr20min, biol_rep2.CNhs12673.13134-140H2", 102 | "J2E erythroblastic leukemia response to erythropoietin, 06hr, biol_rep2.CNhs12680.13141-140H9", 103 | "J2E erythroblastic leukemia response to erythropoietin, 02hr00min, biol_rep1.CNhs12650.13070-140A1", 104 | "J2E erythroblastic leukemia response to erythropoietin, 03hr00min, biol_rep3.CNhs12779.13204-141F9", 105 | "J2E erythroblastic leukemia response to erythropoietin, 04hr, biol_rep1.CNhs12452.13074-140A5", 106 | "J2E erythroblastic leukemia response to erythropoietin, 24hr, biol_rep1.CNhs12455.13077-140A8", 107 | "J2E erythroblastic leukemia response to erythropoietin, 00hr45min, biol_rep3.CNhs12773.13198-141F3", 108 | "J2E erythroblastic leukemia response to erythropoietin, 48hr, biol_rep1.CNhs12456.13078-140A9", 109 | "J2E erythroblastic leukemia response to erythropoietin, 01hr00min, biol_rep2.CNhs12672.13133-140H1", 110 | "J2E erythroblastic leukemia response to erythropoietin, 06hr, biol_rep1.CNhs12453.13075-140A6", 111 | "J2E erythroblastic leukemia response to erythropoietin, 00hr30min, biol_rep3.CNhs12772.13197-141F2", 112 | "J2E erythroblastic leukemia response to erythropoietin, 03hr00min, biol_rep1.CNhs12450.13072-140A3", 113 | "J2E erythroblastic leukemia response to erythropoietin, 02hr30min, biol_rep2.CNhs12676.13137-140H5", 114 | "J2E erythroblastic leukemia response to erythropoietin, 00hr15min, biol_rep3.CNhs12771.13196-141F1", 115 | "J2E erythroblastic leukemia response to erythropoietin, 01hr00min, biol_rep3.CNhs12774.13199-141F4", 116 | "J2E erythroblastic leukemia response to erythropoietin, 02hr00min, biol_rep2.CNhs12675.13136-140H4", 117 | "J2E erythroblastic leukemia response to erythropoietin, 12hr, biol_rep2, tech_rep2.CNhs14546.13142-140I1", 118 | "J2E erythroblastic leukemia response to erythropoietin, 03hr30min, biol_rep1.CNhs12451.13073-140A4", 119 | "J2E erythroblastic leukemia response to erythropoietin, 01hr40min, biol_rep1.CNhs12649.13069-139I9", 120 | "J2E erythroblastic leukemia response to erythropoietin, 00hr15min, biol_rep1.CNhs12644.13064-139I4", 121 | "J2E erythroblastic leukemia response to erythropoietin, 01hr00min, biol_rep1.CNhs12647.13067-139I7", 122 | "J2E erythroblastic leukemia response to erythropoietin, 03hr00min, biol_rep2.CNhs12677.13138-140H6", 123 | "J2E erythroblastic leukemia response to erythropoietin, 00hr45min, biol_rep1.CNhs12646.13066-139I6", 124 | "J2E erythroblastic leukemia response to erythropoietin, 03hr30min, biol_rep3.CNhs12780.13205-141G1", 125 | "J2E erythroblastic leukemia response to erythropoietin, 06hr, biol_rep3.CNhs12782.13207-141G3", 126 | "J2E erythroblastic leukemia response to erythropoietin, 48hr, biol_rep3.CNhs12785.13210-141G6", 127 | "J2E erythroblastic leukemia response to erythropoietin, 02hr30min, biol_rep1.CNhs12651.13071-140A2", 128 | "J2E erythroblastic leukemia response to erythropoietin, 00hr45min, biol_rep2.CNhs12671.13132-140G9", 129 | "J2E erythroblastic leukemia response to erythropoietin, 00hr30min, biol_rep1.CNhs12645.13065-139I5", 130 | "J2E erythroblastic leukemia response to erythropoietin, 04hr, biol_rep3.CNhs12781.13206-141G2", 131 | "J2E erythroblastic leukemia response to erythropoietin, 12hr, biol_rep3.CNhs12783.13208-141G4", 132 | "J2E erythroblastic leukemia response to erythropoietin, 01hr20min, biol_rep3.CNhs12775.13200-141F5", 133 | "J2E erythroblastic leukemia response to erythropoietin, 02hr30min, biol_rep3.CNhs12778.13203-141F8", 134 | "J2E erythroblastic leukemia response to erythropoietin, 00hr00min, biol_rep3, tech_rep2.CNhs14547.13195-141E9", 135 | "J2E erythroblastic leukemia response to erythropoietin, 01hr40min, biol_rep3.CNhs12776.13201-141F6" 136 | ], 137 | "Lgr5 positive intestinal stem cell": [ 138 | "Lgr5 positive intestinal stem cells, pool1.CNhs12555.12228-129F5", 139 | "Lgr5 positive intestinal stem cells, pool2.CNhs12556.12229-129F6", 140 | "Lgr5 positive intestinal stem cells, pool3.CNhs12557.12230-129F7" 141 | ], 142 | "MC1+Gr1+ myeloid-derived suppressor cell": [ 143 | "MC1+Gr1+ myeloid-derived suppressor cells cancer, donor1 (10,11,12 3LL).CNhs12539.12159-128G8", 144 | "MC1+Gr1+ myeloid-derived suppressor cells cancer, donor2 (0127 3LL).CNhs12198.12161-128H1", 145 | "MC1+Gr1+ myeloid-derived suppressor cells cancer, donor3 (0128 3LL).CNhs12542.12163-128H3", 146 | "MC1+Gr1+ myeloid-derived suppressor cells control, donor1 (4,5,6PBS).CNhs12540.12160-128G9", 147 | "MC1+Gr1+ myeloid-derived suppressor cells control, donor2 (0127 PBS).CNhs12541.12162-128H2", 148 | "MC1+Gr1+ myeloid-derived suppressor cells control, donor3 (0128 PBS).CNhs12543.12164-128H4" 149 | ], 150 | "Meningeal cell": [ 151 | "Mouse Meningeal cells, donor1.CNhs12132.11716-123C6", 152 | "Mouse Meningeal cells, donor3.CNhs12109.11639-122D1", 153 | "Mouse Meningeal cells, donor2.CNhs12358.11734-123E6" 154 | ], 155 | "Mesenchymal stem cell - bone marrow derived": [ 156 | "Mouse Mesenchymal stem cells - bone marrow derived, donor1.CNhs12628.11717-123C7", 157 | "Mouse Mesenchymal stem cells - bone marrow derived, donor2.CNhs12633.11735-123E7", 158 | "Mouse Mesenchymal stem cells - bone marrow derived, donor3.CNhs12616.11640-122D2" 159 | ], 160 | "Mesoderm": [ 161 | "Mesoderm, embryo E8.5.CNhs14148.11947-126B3" 162 | ], 163 | "Microglia": [ 164 | "Mouse Microglia, donor1.CNhs12629.11718-123C8", 165 | "Mouse Microglia, donor2.CNhs12634.11736-123E8" 166 | ], 167 | "Neuron - cortical": [ 168 | "Mouse Neurons - cortical, donor1.CNhs12025.11724-123D5", 169 | "Mouse Neurons - cortical, donor2.CNhs11947.11742-123F5", 170 | "Mouse Neurons - cortical, donor3.CNhs12112.11647-122D9" 171 | ], 172 | "Neuron - dorsal spinal cord": [ 173 | "Mouse Neurons - dorsal spinal cord, donor2.CNhs12635.11738-123F1", 174 | "Mouse Neurons - dorsal spinal cord, donor3.CNhs12618.11643-122D5" 175 | ], 176 | "Neuron - hippocampal": [ 177 | "Mouse Neurons - hippocampal, donor1.CNhs12133.11721-123D2", 178 | "Mouse Neurons - hippocampal, donor2.CNhs12359.11739-123F2", 179 | "Mouse Neurons - hippocampal, donor3.CNhs12110.11644-122D6" 180 | ], 181 | "Neuron - raphe": [ 182 | "Mouse Neurons - raphe, donor1.CNhs12631.11722-123D3", 183 | "Mouse Neurons - raphe, donor2.CNhs12636.11740-123F3", 184 | "Mouse Neurons - raphe, donor3.CNhs12619.11645-122D7" 185 | ], 186 | "Neuron - spiral ganglion": [ 187 | "Neurons - spiral ganglion, pool1.CNhs14147.11959-126C6" 188 | ], 189 | "Neuron - striatal": [ 190 | "Mouse Neurons - striatal, donor1.CNhs12134.11723-123D4", 191 | "Mouse Neurons - striatal, donor2.CNhs12360.11741-123F4", 192 | "Mouse Neurons - striatal, donor3.CNhs12111.11646-122D8" 193 | ], 194 | "Neuron - substantia nigra": [ 195 | "Mouse Neurons - substantia nigra, donor4, tech_rep1.CNhs12612.11489-119E4", 196 | "Mouse Neurons - substantia nigra, donor5.CNhs12614.11490-119E5", 197 | "Mouse Neurons - substantia nigra, donor6.CNhs12643.11770-123I6", 198 | "Mouse Neurons - substantia nigra, donor4, tech_rep2.CNhs12821.11489-119E4", 199 | "Neurons - substantia nigra, donor5, tech_rep2.CNhs12923.11490-119E5" 200 | ], 201 | "Neuron - ventral spinal cord": [ 202 | "Mouse Neurons - ventral spinal cord, donor1.CNhs12632.11725-123D6", 203 | "Mouse Neurons - ventral spinal cord, donor2.CNhs12638.11743-123F6", 204 | "Mouse Neurons - ventral spinal cord, donor3.CNhs12113.11648-122E1" 205 | ], 206 | "Renal epithelial cell": [ 207 | "Mouse Renal epithelial cells, donor1.CNhs14555.11727-123D8" 208 | ], 209 | "ST2 Mesenchymal stem cell": [ 210 | "ST2 (Mesenchymal stem cells) cells, medium change (without induction), 00hr, biol_rep1 (000hC4).CNhs11939.12338-130I7", 211 | "ST2 (Mesenchymal stem cells) cells, medium change (without induction), 00hr, biol_rep2 (000hC5).CNhs13275.12460-132E3", 212 | "ST2 (Mesenchymal stem cells) cells, medium change (without induction), 00hr, biol_rep3 (000hC6).CNhs13324.12582-133I8" 213 | ], 214 | "Schwann cell": [ 215 | "Mouse Schwann, donor1.CNhs12507.11728-123D9", 216 | "Mouse Schwann, donor2.CNhs12573.11746-123F9" 217 | ], 218 | "Sox2+ Supporting cell - organ of corti": [ 219 | "Sox2+ Supporting cells - organ of corti, pool1.CNhs12532.12157-128G6" 220 | ], 221 | "Tracheal epithelial cell": [ 222 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 000hr, biol_rep1.CNhs13739.13367-143G1", 223 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 000hr, biol_rep2.CNhs13740.13368-143G2", 224 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 000hr, biol_rep3.CNhs13741.13369-143G3", 225 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 004hr, biol_rep1.CNhs13742.13370-143G4", 226 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 004hr, biol_rep2.CNhs13743.13371-143G5", 227 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 004hr, biol_rep3.CNhs13744.13372-143G6", 228 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 008hr, biol_rep1.CNhs13745.13373-143G7", 229 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 008hr, biol_rep2.CNhs13746.13374-143G8", 230 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 008hr, biol_rep3.CNhs13747.13375-143G9", 231 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 012hr, biol_rep1.CNhs13696.13376-143H1", 232 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 012hr, biol_rep2.CNhs13748.13377-143H2", 233 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 012hr, biol_rep3.CNhs13749.13378-143H3", 234 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 016hr, biol_rep1.CNhs13750.13379-143H4", 235 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 016hr, biol_rep2.CNhs13751.13380-143H5", 236 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 016hr, biol_rep3.CNhs13752.13381-143H6", 237 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 020hr, biol_rep1.CNhs13697.13382-143H7", 238 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 020hr, biol_rep2.CNhs13753.13383-143H8", 239 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 020hr, biol_rep3.CNhs13754.13384-143H9", 240 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 024hr, biol_rep1.CNhs13755.13385-143I1", 241 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 024hr, biol_rep2.CNhs13756.13386-143I2", 242 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 024hr, biol_rep3.CNhs13757.13387-143I3", 243 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 030hr, biol_rep1.CNhs13758.13388-143I4", 244 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 030hr, biol_rep2.CNhs13759.13389-143I5", 245 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 030hr, biol_rep3.CNhs13760.13390-143I6", 246 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 036hr, biol_rep1.CNhs13762.13391-143I7", 247 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 036hr, biol_rep2.CNhs13763.13392-143I8", 248 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 036hr, biol_rep3.CNhs13764.13393-143I9", 249 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 042hr, biol_rep1.CNhs13765.13394-144A1", 250 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 042hr, biol_rep2.CNhs13766.13395-144A2", 251 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 042hr, biol_rep3.CNhs13767.13396-144A3", 252 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 048hr, biol_rep1.CNhs13768.13397-144A4", 253 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 048hr, biol_rep2.CNhs13769.13398-144A5", 254 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 048hr, biol_rep3.CNhs13770.13399-144A6", 255 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 054hr, biol_rep1.CNhs13771.13400-144A7", 256 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 054hr, biol_rep2.CNhs13772.13401-144A8", 257 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 054hr, biol_rep3.CNhs13773.13402-144A9", 258 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 060hr, biol_rep1.CNhs13774.13403-144B1", 259 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 060hr, biol_rep2.CNhs13775.13404-144B2", 260 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 060hr, biol_rep3.CNhs13776.13405-144B3", 261 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 066hr, biol_rep1.CNhs13777.13406-144B4", 262 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 066hr, biol_rep2.CNhs13778.13407-144B5", 263 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 066hr, biol_rep3.CNhs13779.13408-144B6", 264 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 072hr, biol_rep1.CNhs13780.13409-144B7", 265 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 072hr, biol_rep2.CNhs13781.13410-144B8", 266 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 072hr, biol_rep3.CNhs13782.13411-144B9", 267 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 084hr, biol_rep1.CNhs13783.13412-144C1", 268 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 084hr, biol_rep2.CNhs13784.13413-144C2", 269 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 084hr, biol_rep3.CNhs13786.13414-144C3", 270 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 096hr, biol_rep1.CNhs13787.13415-144C4", 271 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 096hr, biol_rep2.CNhs13788.13416-144C5", 272 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 096hr, biol_rep3.CNhs13789.13417-144C6", 273 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 120hr, biol_rep1.CNhs13790.13418-144C7", 274 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 120hr, biol_rep2.CNhs13791.13419-144C8", 275 | "Tracheal epithelial cells, differentiation to ciliated epithelial cells, 120hr, biol_rep3.CNhs13792.13420-144C9" 276 | ], 277 | "adipocyte": [ 278 | "ST2 (Mesenchymal stem cells) cells, differentiation to adipocytes, day06, biol_rep1 (144hA1).CNhs13129.12322-130G9", 279 | "ST2 (Mesenchymal stem cells) cells, differentiation to adipocytes, day06, biol_rep2 (144hA2).CNhs13258.12444-132C5", 280 | "ST2 (Mesenchymal stem cells) cells, differentiation to adipocytes, day06, biol_rep3 (144hA3).CNhs13307.12566-133H1" 281 | ], 282 | "adrenal gland": [ 283 | "accessory axillary lymph node, adult.CNhs10475.1063-29H9", 284 | "adrenal gland, adult.CNhs10508.49-24D7", 285 | "adrenal gland, embryo E14.CNhs11038.406-44C5", 286 | "adrenal gland, embryo E16.CNhs11004.1254-43D6", 287 | "adrenal gland, embryo E17.CNhs11043.1263-45I1", 288 | "adrenal gland, embryo E18.CNhs11026.1262-18F5", 289 | "adrenal gland, neonate N00.CNhs11191.1311-23C1", 290 | "adrenal gland, neonate N25.CNhs11223.1377-27I3" 291 | ], 292 | "amnion": [ 293 | "amnion, adult pregnant day17.5.CNhs10488.583-22A8" 294 | ], 295 | "aorta": [ 296 | "aorta, adult.CNhs10498.46-23H1" 297 | ], 298 | "bone": [ 299 | "bone (os femoris), adult.CNhs10483.56-12G2", 300 | "bone (os femoris), neonate N02.CNhs11227.1985-43F5", 301 | "bone (os femoris), neonate N16.CNhs11225.1525-43A6", 302 | "bone (os femoris), neonate N20.CNhs11195.1350-25C3" 303 | ], 304 | "cKit+ Sca1- lineage- (KSL stem cell)": [ 305 | "stem cell (cKit+ Sca1- lineage-) KSL, biol_rep1.CNhs12534.12121-128C6", 306 | "stem cell (cKit+ Sca1- lineage-) KSL, biol_rep2.CNhs12535.12124-128C9", 307 | "stem cell (cKit+ Sca1- lineage-) KSL, biol_rep3.CNhs12536.12127-128D3" 308 | ], 309 | "cecum": [ 310 | "cecum, adult.CNhs10467.37-13H4" 311 | ], 312 | "cerebellar granule cell": [ 313 | "cerebellar granule cells, embryo E13, biol_rep1 (E13R1).CNhs14143.13532-145G4", 314 | "cerebellar granule cells, embryo E13, biol_rep2 (E13R2).CNhs14144.13533-145G5", 315 | "cerebellar granule cells, embryo E13, biol_rep3 (E13R3).CNhs14146.13534-145G6", 316 | "cerebellar granule cells, embryo E15, biol_rep1 (E15R1).CNhs14162.13535-145G7", 317 | "cerebellar granule cells, embryo E15, biol_rep2 (E15R2).CNhs14163.13536-145G8", 318 | "cerebellar granule cells, embryo E15, biol_rep3 (E15R3).CNhs14164.13537-145G9", 319 | "cerebellar granule cells, embryo E18, biol_rep1 (E18R1).CNhs14165.13538-145H1", 320 | "cerebellar granule cells, embryo E18, biol_rep2 (E18R2).CNhs14166.13539-145H2", 321 | "cerebellar granule cells, embryo E18, biol_rep3 (E13R3).CNhs14167.13540-145H3" 322 | ], 323 | "cerebellum": [ 324 | "cerebellum, adult.CNhs10494.15-8B2", 325 | "cerebellum, neonate N30.CNhs11135.1395-42I2", 326 | "cerebellum, embryo E11, biol_rep1 (E11R1).CNhs12956.10114-102E6", 327 | "cerebellum, embryo E11, biol_rep2 (E11R2).CNhs13002.10126-102F9", 328 | "cerebellum, embryo E11, biol_rep3 (E11R3).CNhs13014.10138-102H3", 329 | "cerebellum, embryo E12, biol_rep1 (E12R1).CNhs12957.10115-102E7", 330 | "cerebellum, embryo E12, biol_rep2 (E12R2).CNhs13003.10127-102G1", 331 | "cerebellum, embryo E12, biol_rep3 (E12R3).CNhs13015.10139-102H4", 332 | "cerebellum, embryo E13, biol_rep1 (E13R1).CNhs12958.10116-102E8", 333 | "cerebellum, embryo E13, biol_rep2 (E13R2).CNhs13004.10128-102G2", 334 | "cerebellum, embryo E13, biol_rep3 (E13R3).CNhs13016.10140-102H5", 335 | "cerebellum, embryo E14, biol_rep1 (E14R1).CNhs12960.10117-102E9", 336 | "cerebellum, embryo E14, biol_rep2 (E14R2).CNhs13005.10129-102G3", 337 | "cerebellum, embryo E14, biol_rep3 (E14R3).CNhs13017.10141-102H6", 338 | "cerebellum, embryo E15, biol_rep1 (E15R1).CNhs12961.10118-102F1", 339 | "cerebellum, embryo E15, biol_rep2 (E15R2).CNhs13006.10130-102G4", 340 | "cerebellum, embryo E15, biol_rep3 (E15R3).CNhs13018.10142-102H7", 341 | "cerebellum, embryo E16, biol_rep1 (E16R1).CNhs13000.10119-102F2", 342 | "cerebellum, embryo E16, biol_rep2 (E16R2).CNhs13007.10131-102G5", 343 | "cerebellum, embryo E16, biol_rep3 (E16R3).CNhs13019.10143-102H8", 344 | "cerebellum, embryo E17, biol_rep1 (E17R1).CNhs12818.10120-102F3", 345 | "cerebellum, embryo E17, biol_rep2 (E17R2).CNhs13008.10132-102G6", 346 | "cerebellum, embryo E17, biol_rep3 (E17R3).CNhs13020.10144-102H9", 347 | "cerebellum, embryo E18, biol_rep1 (E18R1).CNhs12962.10121-102F4", 348 | "cerebellum, embryo E18, biol_rep2 (E18R2).CNhs13009.10133-102G7", 349 | "cerebellum, embryo E18, biol_rep3 (E18R3).CNhs13021.10145-102I1", 350 | "cerebellum, neonate N00, biol_rep1 (P0R1).CNhs12963.10122-102F5", 351 | "cerebellum, neonate N00, biol_rep2 (P0R2).CNhs13010.10134-102G8", 352 | "cerebellum, neonate N00, biol_rep3 (P0R3).CNhs13022.10146-102I2", 353 | "cerebellum, neonate N03, biol_rep1 (P3R1).CNhs13001.10123-102F6", 354 | "cerebellum, neonate N03, biol_rep2 (P3R2).CNhs13011.10135-102G9", 355 | "cerebellum, neonate N03, biol_rep3 (P3R3).CNhs13024.10147-102I3", 356 | "cerebellum, neonate N06, biol_rep1 (P6R1).CNhs12819.10124-102F7", 357 | "cerebellum, neonate N06, biol_rep2 (P6R2).CNhs13012.10136-102H1", 358 | "cerebellum, neonate N06, biol_rep3 (P6R3).CNhs13025.10148-102I4", 359 | "cerebellum, neonate N09, biol_rep1 (P9R1).CNhs12820.10125-102F8", 360 | "cerebellum, neonate N09, biol_rep2 (P9R2).CNhs13013.10137-102H2", 361 | "cerebellum, neonate N09, biol_rep3 (P9R3).CNhs13026.10149-102I5" 362 | ], 363 | "colon": [ 364 | "colon, adult.CNhs10468.36-18H7" 365 | ], 366 | "common myeloid progenitor CMP": [ 367 | "common myeloid progenitor CMP, biol_rep1.CNhs12550.12122-128C7", 368 | "common myeloid progenitor CMP, biol_rep2.CNhs12203.12125-128D1", 369 | "common myeloid progenitor CMP, biol_rep3.CNhs12551.12128-128D4" 370 | ], 371 | "corpora quadrigemina": [ 372 | "corpora quadrigemina, adult.CNhs10501.16-22A4" 373 | ], 374 | "corpus striatum": [ 375 | "corpus striatum, adult.CNhs10487.19-21D8", 376 | "corpus striatum, neonate N00.CNhs11226.630-43F1" 377 | ], 378 | "cortex": [ 379 | "cortex, adult.CNhs10473.12-14D5", 380 | "cortex, neonate N30.CNhs11107.1392-42F2" 381 | ], 382 | "diencephalon": [ 383 | "diencephalon, adult.CNhs10482.20-12F2", 384 | "diencephalon, neonate N30.CNhs11201.1388-42B2" 385 | ], 386 | "embryonic stem cell": [ 387 | "ES-46C embryonic stem cells, neuronal differentiation, day00, biol_rep1.CNhs14104.14357-155I1", 388 | "ES-46C embryonic stem cells, neuronal differentiation, day00, biol_rep2.CNhs14109.14362-155I6", 389 | "ES-OS25 embryonic stem cells, DMSO control, biol_rep1.CNhs14085.14339-155G1", 390 | "ES-OS25 embryonic stem cells, DMSO control, biol_rep2.CNhs14086.14340-155G2", 391 | "ES-OS25 embryonic stem cells, DMSO control, biol_rep3.CNhs14087.14341-155G3", 392 | "ES-OS25 embryonic stem cells, untreated control, biol_rep1.CNhs14091.14345-155G7", 393 | "ES-OS25 embryonic stem cells, untreated control, biol_rep2.CNhs14092.14346-155G8", 394 | "ES-OS25 embryonic stem cells, untreated control, biol_rep3.CNhs14093.14347-155G9", 395 | "ES-OS25 embryonic stem cells, untreated siRNA control, biol_rep1.CNhs14114.14367-156A2", 396 | "ES-OS25 embryonic stem cells, untreated siRNA control, biol_rep2.CNhs14115.14368-156A3" 397 | ], 398 | "enterocyte": [ 399 | "CD326+ enterocyte isolated from mice, treated with RANKL, day03, pool1.CNhs13242.11850-124I5", 400 | "CD326+ enterocyte isolated from mice, treated with RANKL, day03, pool2.CNhs13233.11851-124I6", 401 | "CD326+ enterocyte, pool1.CNhs13542.11848-124I3", 402 | "CD326+ enterocyte, pool2.CNhs13197.11849-124I4", 403 | "CD326++ enterocyte isolated from mice, treated with RANKL, day03, pool1.CNhs13236.11852-124I7", 404 | "CD326++ enterocyte isolated from mice, treated with RANKL, day03, pool2.CNhs13210.11853-124I8" 405 | ], 406 | "epididymis": [ 407 | "epididymis and seminiferous tubule, neonate N00.CNhs11218.1310-23B1", 408 | "epididymis and seminiferous tubule, neonate N30.CNhs11199.1387-42A2", 409 | "epididymis, adult.CNhs10490.58-23B2" 410 | ], 411 | "eyeball": [ 412 | "eyeball, adult.CNhs10484.31-12G4", 413 | "eyeball, embryo E12.CNhs11016.345-16C6", 414 | "eyeball, embryo E14.CNhs10521.399-16E2", 415 | "eyeball, embryo E15.CNhs10593.426-16C9", 416 | "eyeball, embryo E17.CNhs11023.1261-18D4", 417 | "eyeball, neonate N00.CNhs11207.633-15C6", 418 | "eyeball, neonate N01.CNhs11140.1532-43E7", 419 | "eyeball, neonate N02.CNhs11205.1551-44G8", 420 | "eyeball, neonate N16.CNhs11188.777-19A2" 421 | ], 422 | "fibroblast": [ 423 | "mouse fibroblast cell line: CRL-1658 NIH/3T3.CNhs11093.1830-49C7" 424 | ], 425 | "forelimb": [ 426 | "forelimb, embryo E11.CNhs10596.335-25E2", 427 | "forelimb, embryo E12.CNhs10600.359-14H2", 428 | "forelimb, embryo E13.CNhs10589.384-1E2", 429 | "forelimb, embryo E14.CNhs10577.413-26A8", 430 | "forelimb, embryo E15.CNhs11007.437-20E7", 431 | "forelimb, embryo E17.CNhs10598.1517-43C4", 432 | "forelimb, embryo E18.CNhs11008.1520-43B5" 433 | ], 434 | "gonad, embryo E13": [ 435 | "gonad, embryo E13.CNhs11044.1564-45I6" 436 | ], 437 | "granulocyte macrophage progenitor GMP": [ 438 | "granulocyte macrophage progenitor GMP, biol_rep1.CNhs12206.12123-128C8", 439 | "granulocyte macrophage progenitor GMP, biol_rep2.CNhs12202.12126-128D2", 440 | "granulocyte macrophage progenitor GMP, biol_rep3.CNhs11928.12129-128D5" 441 | ], 442 | "heart": [ 443 | "heart, embryo E11.CNhs10586.331-24E9", 444 | "heart, embryo E12.CNhs11015.353-12F5", 445 | "heart, embryo E13.CNhs11013.376-3I9", 446 | "heart, embryo E14.CNhs10597.403-26D4", 447 | "heart, embryo E15.CNhs11017.431-16C8", 448 | "heart, embryo E16.CNhs11021.457-17C6", 449 | "heart, embryo E17.CNhs11025.479-18E5", 450 | "heart, embryo E18.CNhs11030.1283-20G3", 451 | "heart, neonate N00.CNhs11213.639-21E3", 452 | "heart, neonate N03.CNhs11221.1349-25I2", 453 | "heart, neonate N10.CNhs11118.749-24G1", 454 | "heart, neonate N16.CNhs11209.782-15G1", 455 | "heart, neonate N20.CNhs11127.821-26I6", 456 | "heart, neonate N25.CNhs11196.1351-25D3", 457 | "heart, neonate N30.CNhs11202.1390-42D2" 458 | ], 459 | "hematopoietic stem cell, fetal liver derived": [ 460 | "hematopoietic stem cell, bone marrow derived, adult 2years.CNhs14157.11958-126C5", 461 | "hematopoietic stem cell, bone marrow derived, embryo E19.5.CNhs14375.11956-126C3", 462 | "hematopoietic stem cell, bone marrow derived, newborn 2-3months.CNhs14156.11957-126C4", 463 | "hematopoietic stem cell, fetal liver derived, embryo E12.5.CNhs14153.11953-126B9", 464 | "hematopoietic stem cell, fetal liver derived, embryo E14.5.CNhs14154.11954-126C1", 465 | "hematopoietic stem cell, fetal liver derived, embryo E19.5.CNhs14155.11955-126C2" 466 | ], 467 | "hematopoietic stem cell, placenta derived": [ 468 | "hematopoietic stem cell, placenta derived, embryo E10.5.CNhs14150.11950-126B6", 469 | "hematopoietic stem cell, placenta derived, embryo E11.5.CNhs14152.11952-126B8" 470 | ], 471 | "hematopoietic stem cell,aorta-gonad-mesonephros (AGM) region derived": [ 472 | "Pre-hematopoietic stem cell, aorta-gonad-mesonephros (AGM) region derived, embryo E9.5.CNhs14149.11948-126B4", 473 | "hematopoietic stem cell, aorta-gonad-mesonephros (AGM) region derived, embryo E10.5.CNhs14374.11949-126B5", 474 | "hematopoietic stem cell,aorta-gonad-mesonephros (AGM) region derived, embryo E11.5.CNhs14151.11951-126B7" 475 | ], 476 | "hepatic stellate cell": [ 477 | "Mouse hepatic Stellate Cells (lipocyte), donor1.CNhs13196.11825-124F7", 478 | "hepatic stellate cells, partial hepatectomy, 01week, biol_rep1.CNhs14517.13622-146H4", 479 | "hepatic stellate cells, partial hepatectomy, 02hr, biol_rep1.CNhs14393.13613-146G4", 480 | "hepatic stellate cells, partial hepatectomy, 30hr, biol_rep1.CNhs14511.13616-146G7", 481 | "hepatic stellate cells, partial hepatectomy, 30hr, biol_rep2.CNhs14512.13617-146G8", 482 | "hepatic stellate cells, partial hepatectomy, 30hr, biol_rep3.CNhs14513.13618-146G9", 483 | "hepatic stellate cells, partial hepatectomy, 48hr, biol_rep1.CNhs14514.13619-146H1", 484 | "hepatic stellate cells, partial hepatectomy, 48hr, biol_rep2.CNhs14515.13620-146H2", 485 | "hepatic stellate cells, partial hepatectomy, 48hr, biol_rep3.CNhs14516.13621-146H3", 486 | "hepatic stellate cells, sham operation, biol_rep1.CNhs14390.13610-146G1", 487 | "hepatic stellate cells, sham operation, biol_rep2.CNhs14391.13611-146G2", 488 | "hepatic stellate cells, sham operation, biol_rep3.CNhs14392.13612-146G3" 489 | ], 490 | "hepatocyte": [ 491 | "Mouse hepatocyte, donor1.CNhs13078.11714-123C4", 492 | "Mouse hepatocyte, donor3.CNhs12615.11637-122C8", 493 | "Mouse hepatocyte, donor6.CNhs13090.11822-124F4", 494 | "Mouse hepatocyte, donor8.CNhs13091.11824-124F6", 495 | "Mouse hepatocyte, donor5.CNhs14553.11821-124F3", 496 | "Mouse hepatocyte, donor7.CNhs14554.11823-124F5", 497 | "hepatocytes, partial hepatectomy, 02hr, biol_rep1.CNhs14450.13583-146D1", 498 | "hepatocytes, partial hepatectomy, 02hr, biol_rep2.CNhs14451.13584-146D2", 499 | "hepatocytes, partial hepatectomy, 02hr, biol_rep3.CNhs14452.13585-146D3", 500 | "hepatocytes, partial hepatectomy, 30hr, biol_rep1.CNhs14453.13586-146D4", 501 | "hepatocytes, partial hepatectomy, 30hr, biol_rep2.CNhs14454.13587-146D5", 502 | "hepatocytes, partial hepatectomy, 30hr, biol_rep3.CNhs14455.13588-146D6", 503 | "hepatocytes, partial hepatectomy, 48hr, biol_rep1.CNhs14456.13589-146D7", 504 | "hepatocytes, partial hepatectomy, 48hr, biol_rep2.CNhs14458.13590-146D8", 505 | "hepatocytes, partial hepatectomy, 48hr, biol_rep3.CNhs14459.13591-146D9", 506 | "hepatocytes, partial hepatectomy, week01, biol_rep1.CNhs14460.13592-146E1", 507 | "hepatocytes, partial hepatectomy, week01, biol_rep2.CNhs14461.13593-146E2", 508 | "hepatocytes, partial hepatectomy, week01, biol_rep3.CNhs14462.13594-146E3", 509 | "hepatocytes, sham operation, biol_rep1.CNhs14447.13580-146C7", 510 | "hepatocytes, sham operation, biol_rep2.CNhs14448.13581-146C8", 511 | "hepatocytes, sham operation, biol_rep3.CNhs14449.13582-146C9" 512 | ], 513 | "hippocampus": [ 514 | "hippocampus, adult.CNhs10478.13-16E8", 515 | "hippocampus, neonate N00.CNhs11228.627-43G1" 516 | ], 517 | "intestinal mucosa": [ 518 | "intestinal mucosa, adult.CNhs10506.860-29I3" 519 | ], 520 | "intestine": [ 521 | "intestine, adult.CNhs10496.178-9A3", 522 | "intestine, embryo E12.CNhs11019.1251-16I5", 523 | "intestine, embryo E13.CNhs11010.381-16D5", 524 | "intestine, embryo E15.CNhs10602.976-16D8", 525 | "intestine, embryo E16.CNhs10585.463-22H4", 526 | "intestine, embryo E17.CNhs10582.482-18D3", 527 | "intestine, embryo E18.CNhs10526.1289-20F7", 528 | "intestine, neonate N00.CNhs11126.644-26D1", 529 | "intestine, neonate N01.CNhs11192.1322-23E9", 530 | "intestine, neonate N06.CNhs11102.688-20B8", 531 | "intestine, neonate N07.CNhs11095.720-20F2", 532 | "intestine, neonate N10.CNhs11098.755-23A5", 533 | "intestine, neonate N20.CNhs11187.827-18D1", 534 | "intestine, neonate N25.CNhs11121.1352-25E3", 535 | "intestine, neonate N30.CNhs11131.1384-42G1" 536 | ], 537 | "kidney": [ 538 | "kidney, embryo E14.CNhs10606.411-4I9", 539 | "kidney, embryo E15.CNhs10997.434-16F8", 540 | "kidney, embryo E16.CNhs10584.464-22A5", 541 | "kidney, embryo E17.CNhs11028.483-18I2", 542 | "kidney, embryo E18.CNhs11001.1288-20C7", 543 | "kidney, neonate N00.CNhs11214.646-21G7", 544 | "kidney, neonate N10.CNhs11206.758-6D5", 545 | "kidney, neonate N20.CNhs11113.832-19I1", 546 | "kidney, neonate N25.CNhs11122.1353-25F3", 547 | "kidney, neonate N30.CNhs11203.1385-42H1" 548 | ], 549 | "liver": [ 550 | "liver, adult pregnant day01.CNhs10466.508-5B2", 551 | "liver, embryo E12.CNhs10601.355-15F8", 552 | "liver, embryo E13.CNhs10524.378-3H6", 553 | "liver, embryo E14.CNhs10594.409-16E1", 554 | "liver, embryo E15.CNhs10520.433-16D7", 555 | "liver, embryo E16.CNhs10523.462-17F5", 556 | "liver, embryo E17.CNhs10510.481-18A3", 557 | "liver, embryo E18.CNhs10579.499-43G4", 558 | "liver, neonate N00.CNhs11117.641-24F4", 559 | "liver, neonate N03.CNhs11123.1345-25G2", 560 | "liver, neonate N06.CNhs11101.684-20A8", 561 | "liver, neonate N07.CNhs11103.716-20H2", 562 | "liver, neonate N10.CNhs11115.751-24B9", 563 | "liver, neonate N20.CNhs11220.823-25A3", 564 | "liver, neonate N25.CNhs11198.1368-26H1", 565 | "liver, neonate N30.CNhs11106.1382-42D1" 566 | ], 567 | "liver sinusoidal endothelial cell": [ 568 | "Mouse hepatic Sinusoidal Endothelial Cells, donor1.CNhs13209.11830-124G3", 569 | "liver sinusoidal endothelial cells, partial hepatectomy, 01week, biol_rep1.CNhs14508.13607-146F7", 570 | "liver sinusoidal endothelial cells, partial hepatectomy, 01week, biol_rep2.CNhs14509.13608-146F8", 571 | "liver sinusoidal endothelial cells, partial hepatectomy, 01week, biol_rep3.CNhs14510.13609-146F9", 572 | "liver sinusoidal endothelial cells, partial hepatectomy, 02hr, biol_rep1.CNhs14504.13598-146E7", 573 | "liver sinusoidal endothelial cells, partial hepatectomy, 02hr, biol_rep2.CNhs14399.13599-146E8", 574 | "liver sinusoidal endothelial cells, partial hepatectomy, 02hr, biol_rep3.CNhs14400.13600-146E9", 575 | "liver sinusoidal endothelial cells, partial hepatectomy, 30hr, biol_rep1.CNhs14402.13601-146F1", 576 | "liver sinusoidal endothelial cells, partial hepatectomy, 30hr, biol_rep2.CNhs14403.13602-146F2", 577 | "liver sinusoidal endothelial cells, partial hepatectomy, 30hr, biol_rep3.CNhs14506.13603-146F3", 578 | "liver sinusoidal endothelial cells, partial hepatectomy, 48hr, biol_rep1.CNhs14404.13604-146F4", 579 | "liver sinusoidal endothelial cells, partial hepatectomy, 48hr, biol_rep2.CNhs14405.13605-146F5", 580 | "liver sinusoidal endothelial cells, partial hepatectomy, 48hr, biol_rep3.CNhs14507.13606-146F6", 581 | "liver sinusoidal endothelial cells, sham operation, biol_rep1.CNhs14503.13595-146E4", 582 | "liver sinusoidal endothelial cells, sham operation, biol_rep2.CNhs14502.13596-146E5", 583 | "liver sinusoidal endothelial cells, sham operation, biol_rep3.CNhs14398.13597-146E6" 584 | ], 585 | "lung": [ 586 | "lung, adult.CNhs10474.28-22B1", 587 | "lung, embryo E12.CNhs10522.354-16G2", 588 | "lung, embryo E14.CNhs10604.404-26F8", 589 | "lung, embryo E15.CNhs11020.432-17C5", 590 | "lung, embryo E16.CNhs10998.458-17B6", 591 | "lung, embryo E17.CNhs10605.480-44A6", 592 | "lung, embryo E18.CNhs10583.1287-20I6", 593 | "lung, neonate N00.CNhs11224.640-42C6", 594 | "lung, neonate N06.CNhs11212.683-20E5", 595 | "lung, neonate N07.CNhs11111.715-19A3", 596 | "lung, neonate N10.CNhs11219.750-23E6", 597 | "lung, neonate N20.CNhs11109.822-18A4", 598 | "lung, neonate N25.CNhs11119.1359-25C7", 599 | "lung, neonate N30.CNhs11133.1394-42H2" 600 | ], 601 | "macrophage": [ 602 | "macrophage, bone marrow derived, pool1.CNhs11457.3560-170A1", 603 | "macrophage, bone marrow derived, pool2.CNhs11532.3632-171A1", 604 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11586.3683-171G6", 605 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14351.3976-173D5", 606 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 120hr, biol_rep1.CNhs11463.3566-170G1", 607 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 072hr, biol_rep1.CNhs11462.3565-170F1", 608 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11510.3610-170F6", 609 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11582.3679-171C6", 610 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11583.3680-171D6", 611 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 024hr, biol_rep1.CNhs11458.3561-170B1", 612 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11584.3681-171E6", 613 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 048hr, biol_rep1.CNhs11461.3564-170E1", 614 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 024hr, biol_rep2.CNhs11533.3633-171B1", 615 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 028hr, biol_rep1.CNhs11459.3562-170C1", 616 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11511.3611-170G6", 617 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 028hr, biol_rep2.CNhs11534.3634-171C1", 618 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 036hr, biol_rep2.CNhs11535.3635-171D1", 619 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 036hr, biol_rep1.CNhs11460.3563-170D1", 620 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 072hr, biol_rep2.CNhs11537.3637-171F1", 621 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 048hr, biol_rep2.CNhs11536.3636-171E1", 622 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11508.3608-170D6", 623 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 120hr, biol_rep2.CNhs11538.3638-171G1", 624 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11509.3609-170E6", 625 | "macrophage, TB infection, non-stimulated BMDM, with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11507.3607-170C6", 626 | "macrophage, TB infection, non stimulated BMDM, without Mtb, 024hr, biol_rep4.CNhs14342.3967-173D4", 627 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 120hr, biol_rep3.CNhs14301.3713-172A2", 628 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 048hr, biol_rep3.CNhs14299.3711-172H1", 629 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14348.3973-173A5", 630 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 072hr, biol_rep3.CNhs14300.3712-172I1", 631 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 006hr, biol_rep3.CNhs11634.3706-172C1", 632 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 004hr, biol_rep3.CNhs11633.3705-172B1", 633 | "macrophage, bone marrow derived, pool3.CNhs11632.3704-172A1", 634 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14349.3974-173B5", 635 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 036hr, biol_rep3.CNhs14298.3710-172G1", 636 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14350.3975-173C5", 637 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 012hr, biol_rep3.CNhs11635.3707-172D1", 638 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 028hr, biol_rep3.CNhs11637.3709-172F1", 639 | "macrophage, TB infection, non-stimulated BMDM, without Mtb, 024hr, biol_rep3.CNhs11636.3708-172E1", 640 | "macrophage, TB infection, non stimulated BMDM, with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14347.3972-173I4", 641 | "macrophage, bone marrow derived.CNhs14136.2171-50H8" 642 | ], 643 | "macrophage - alternatively activated": [ 644 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 120hr, biol_rep2.CNhs11581.3678-171B6", 645 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 028hr, biol_rep2.CNhs11577.3674-171G5", 646 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 006hr, biol_rep2.CNhs11574.3671-171D5", 647 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 024hr, biol_rep2.CNhs11556.3653-171D3", 648 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 012hr, biol_rep2.CNhs11555.3652-171C3", 649 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 006hr, biol_rep1.CNhs11476.3579-170B3", 650 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 036hr, biol_rep2.CNhs11558.3655-171F3", 651 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 072hr, biol_rep2.CNhs11580.3677-171A6", 652 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 024hr, biol_rep1.CNhs11478.3581-170D3", 653 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 048hr, biol_rep1.CNhs11491.3594-170H4", 654 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 012hr, biol_rep2.CNhs11575.3672-171E5", 655 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 006hr, biol_rep2.CNhs11564.3661-171C4", 656 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep2.CNhs11576.3673-171F5", 657 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 120hr, biol_rep2.CNhs11571.3668-171A5", 658 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 048hr, biol_rep2.CNhs11579.3676-171I5", 659 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 028hr, biol_rep2.CNhs11557.3654-171E3", 660 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 006hr, biol_rep2.CNhs11554.3651-171B3", 661 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 002hr, biol_rep2.CNhs11552.3649-171I2", 662 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 072hr, biol_rep2.CNhs11570.3667-171I4", 663 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 004hr, biol_rep2.CNhs11563.3660-171B4", 664 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 004hr, biol_rep2.CNhs11553.3650-171A3", 665 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 120hr, biol_rep2.CNhs11561.3658-171I3", 666 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 012hr, biol_rep2.CNhs11565.3662-171D4", 667 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 072hr, biol_rep1.CNhs11492.3595-170I4", 668 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 120hr, biol_rep1.CNhs11493.3596-170A5", 669 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 004hr, biol_rep1.CNhs11485.3588-170B4", 670 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 004hr, biol_rep1.CNhs11475.3578-170A3", 671 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 002hr, biol_rep2.CNhs11562.3659-171A4", 672 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 036hr, biol_rep2.CNhs11568.3665-171G4", 673 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 002hr, biol_rep1.CNhs11494.3597-170B5", 674 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 002hr, biol_rep1.CNhs11484.3587-170A4", 675 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 028hr, biol_rep2.CNhs11567.3664-171F4", 676 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 048hr, biol_rep2.CNhs11559.3656-171G3", 677 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 120hr, biol_rep1.CNhs11483.3586-170I3", 678 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep1.CNhs11488.3591-170E4", 679 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11521.3621-170H7", 680 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep2.CNhs11566.3663-171E4", 681 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 028hr, biol_rep1.CNhs11489.3592-170F4", 682 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 036hr, biol_rep1.CNhs11490.3593-170G4", 683 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 002hr, biol_rep1.CNhs11474.3577-170I2", 684 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11519.3619-170F7", 685 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11524.3624-170B8", 686 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 048hr, biol_rep2.CNhs11569.3666-171H4", 687 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep1.CNhs11498.3601-170F5", 688 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 036hr, biol_rep1.CNhs11480.3583-170F3", 689 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 004hr, biol_rep1.CNhs11495.3598-170C5", 690 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11520.3620-170G7", 691 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 072hr, biol_rep1.CNhs11482.3585-170H3", 692 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 006hr, biol_rep1.CNhs11496.3599-170D5", 693 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 048hr, biol_rep1.CNhs11481.3584-170G3", 694 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 006hr, biol_rep1.CNhs11486.3589-170C4", 695 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 028hr, biol_rep1.CNhs11479.3582-170E3", 696 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11526.3626-170D8", 697 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 012hr, biol_rep1.CNhs11487.3590-170D4", 698 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11525.3625-170C8", 699 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 012hr, biol_rep1.CNhs11497.3600-170E5", 700 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11531.3631-170I8", 701 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11517.3617-170D7", 702 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11527.3627-170E8", 703 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11522.3622-170I7", 704 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 028hr, biol_rep1.CNhs11502.3602-170G5", 705 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11518.3618-170E7", 706 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 120hr, biol_rep3.CNhs14267.3753-172E6", 707 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11530.3630-170H8", 708 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11529.3629-170G8", 709 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11528.3628-170F8", 710 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 048hr, biol_rep1.CNhs11504.3604-170I5", 711 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11523.3623-170A8", 712 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 036hr, biol_rep1.CNhs11503.3603-170H5", 713 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 120hr, biol_rep1.CNhs11506.3606-170B6", 714 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 072hr, biol_rep3.CNhs14257.3742-172C5", 715 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 072hr, biol_rep1.CNhs11505.3605-170A6", 716 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 120hr, biol_rep3.CNhs14258.3743-172D5", 717 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 048hr, biol_rep3.CNhs14265.3751-172C6", 718 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 048hr, biol_rep3.CNhs14256.3741-172B5", 719 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11618.3690-171E7", 720 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 072hr, biol_rep3.CNhs14266.3752-172D6", 721 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 004hr, biol_rep3.CNhs14259.3745-172F5", 722 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 028hr, biol_rep3.CNhs14254.3739-172I4", 723 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11619.3691-171F7", 724 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 036hr, biol_rep3.CNhs14255.3740-172A5", 725 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11627.3699-171E8", 726 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11625.3697-171C8", 727 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 036hr, biol_rep3.CNhs14264.3750-172B6", 728 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11621.3693-171H7", 729 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11620.3692-171G7", 730 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11629.3701-171G8", 731 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep3.CNhs14262.3748-172I5", 732 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11628.3700-171F8", 733 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11626.3698-171D8", 734 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 028hr, biol_rep3.CNhs14263.3749-172A6", 735 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11631.3703-171I8", 736 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14361.3986-173E6", 737 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11623.3695-171A8", 738 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 012hr, biol_rep3.CNhs14261.3747-172H5", 739 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14360.3985-173D6", 740 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 120hr, biol_rep3.CNhs14309.3733-172C4", 741 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 024hr, biol_rep3.CNhs11648.3728-172G3", 742 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11624.3696-171B8", 743 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11630.3702-171H8", 744 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 072hr, biol_rep3.CNhs14308.3732-172B4", 745 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11617.3689-171D7", 746 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14362.3987-173F6", 747 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11622.3694-171I7", 748 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14357.3982-173A6", 749 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 002hr, biol_rep3.CNhs11650.3734-172D4", 750 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 006hr, biol_rep3.CNhs14260.3746-172G5", 751 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 024hr, biol_rep4.CNhs14346.3971-173H4", 752 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 048hr, biol_rep3.CNhs14307.3731-172A4", 753 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 012hr, biol_rep3.CNhs11647.3727-172F3", 754 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 028hr, biol_rep3.CNhs11649.3729-172H3", 755 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), without Mtb, 002hr, biol_rep3.CNhs11655.3744-172E5", 756 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep4.CNhs14345.3970-173G4", 757 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 024hr, biol_rep3.CNhs11654.3738-172H4", 758 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 002hr, biol_rep3.CNhs11644.3724-172C3", 759 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 006hr, biol_rep3.CNhs11652.3736-172F4", 760 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 012hr, biol_rep3.CNhs11653.3737-172G4", 761 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), without Mtb, 004hr, biol_rep3.CNhs11651.3735-172E4", 762 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 006hr, biol_rep3.CNhs11646.3726-172E3", 763 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 004hr, biol_rep3.CNhs11645.3725-172D3", 764 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14370.3995-173E7", 765 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14365.3990-173I6", 766 | "macrophage, TB infection, stimulated BMDM+IL-13(aaMph), without Mtb, 036hr, biol_rep3.CNhs14306.3730-172I3", 767 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14368.3993-173C7", 768 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14369.3994-173D7", 769 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14371.3996-173F7", 770 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14364.3989-173H6", 771 | "macrophage, TB infection, stimulated BMDM+IL-4(aaMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14367.3992-173B7", 772 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14366.3991-173A7", 773 | "macrophage, TB infection, stimulated BMDM+IL-4/IL-13(aaMph), with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14363.3988-173G6" 774 | ], 775 | "macrophage - classically activated": [ 776 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 028hr, biol_rep1.CNhs11469.3572-170D2", 777 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 036hr(012h after stimulation), biol_rep2.CNhs11588.3685-171I6", 778 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 028hr(004h after stimulation), biol_rep2.CNhs11587.3684-171H6", 779 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 048hr, biol_rep2.CNhs11549.3646-171F2", 780 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep1.CNhs11468.3571-170C2", 781 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 004hr, biol_rep1.CNhs11465.3568-170I1", 782 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 036hr, biol_rep1.CNhs11470.3573-170E2", 783 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 012hr, biol_rep1.CNhs11467.3570-170B2", 784 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 036hr, biol_rep2.CNhs11548.3645-171E2", 785 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 002hr, biol_rep1.CNhs11464.3567-170H1", 786 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 072hr, biol_rep2.CNhs11550.3647-171G2", 787 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 120hr, biol_rep1.CNhs11473.3576-170H2", 788 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 006hr, biol_rep1.CNhs11466.3569-170A2", 789 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 048hr, biol_rep1.CNhs11471.3574-170F2", 790 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 120hr, biol_rep2.CNhs11551.3648-171H2", 791 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 028hr, biol_rep2.CNhs11547.3644-171D2", 792 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 120hr(096h after stimulation), biol_rep1.CNhs11516.3616-170C7", 793 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 048hr(024h after stimulation), biol_rep1.CNhs11514.3614-170A7", 794 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep2.CNhs11543.3643-171C2", 795 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 006hr, biol_rep2.CNhs11541.3641-171A2", 796 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 072hr(048h after stimulation), biol_rep1.CNhs11515.3615-170B7", 797 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 002hr, biol_rep2.CNhs11539.3639-171H1", 798 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 028hr(004h after stimulation), biol_rep1.CNhs11512.3612-170H6", 799 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 004hr, biol_rep2.CNhs11540.3640-171I1", 800 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 012hr, biol_rep2.CNhs11542.3642-171B2", 801 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 036hr(012h after stimulation), biol_rep1.CNhs11513.3613-170I6", 802 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 120hr(096h after stimulation), biol_rep4.CNhs14356.3981-173I5", 803 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 072hr, biol_rep3.CNhs14304.3722-172A3", 804 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep4.CNhs14343.3968-173E4", 805 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 120hr(096h after stimulation), biol_rep2.CNhs11616.3688-171C7", 806 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 120hr, biol_rep3.CNhs14305.3723-172B3", 807 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 072hr(048h after stimulation), biol_rep2.CNhs11615.3687-171B7", 808 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 048hr(024h after stimulation), biol_rep2.CNhs11614.3686-171A7", 809 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 028hr(004h after stimulation), biol_rep4.CNhs14352.3977-173E5", 810 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 072hr(048h after stimulation), biol_rep4.CNhs14355.3980-173H5", 811 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 048hr, biol_rep3.CNhs14303.3721-172I2", 812 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 006hr, biol_rep3.CNhs11640.3716-172D2", 813 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 012hr, biol_rep3.CNhs11641.3717-172E2", 814 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 036hr, biol_rep3.CNhs14302.3720-172H2", 815 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 048hr(024h after stimulation), biol_rep4.CNhs14354.3979-173G5", 816 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 004hr, biol_rep3.CNhs11639.3715-172C2", 817 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 028hr, biol_rep3.CNhs11643.3719-172G2", 818 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 002hr, biol_rep3.CNhs11638.3714-172B2", 819 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), without Mtb, 024hr, biol_rep3 .CNhs11642.3718-172F2", 820 | "macrophage, TB infection, stimulated BMDM+IFNg(caMph), with Mtb, 036hr(012h after stimulation), biol_rep4.CNhs14353.3978-173F5" 821 | ], 822 | "mammary gland": [ 823 | "mammary gland, adult lactating day02.CNhs10480.595-22B6", 824 | "mammary gland, adult pregnant day19.CNhs10476.588-5H2" 825 | ], 826 | "medulla oblongata": [ 827 | "medulla oblongata, adult.CNhs10477.17-12C2", 828 | "medulla oblongata, neonate N30.CNhs11200.1396-42A3" 829 | ], 830 | "natural helper cell": [ 831 | "natural helper cells, IL2 treated, day15, biol_rep1, tech_rep1.CNhs12576.12247-129H6", 832 | "natural helper cells, IL2 treated, day15, biol_rep1, tech_rep2.CNhs14330.12247-129H6", 833 | "natural helper cells, IL2 treated, day15, biol_rep1, tech_rep3.CNhs14378.12247-129H6", 834 | "natural helper cells, IL2 treated, day15, biol_rep2, tech_rep1.CNhs12508.12248-129H7", 835 | "natural helper cells, IL2 treated, day15, biol_rep2, tech_rep2.CNhs14334.12248-129H7", 836 | "natural helper cells, IL2 treated, day15, biol_rep2, tech_rep3.CNhs14388.12248-129H7", 837 | "natural helper cells, IL2 treated, day15, biol_rep3, tech_rep1.CNhs12509.12249-129H8", 838 | "natural helper cells, IL2 treated, day15, biol_rep3, tech_rep2.CNhs14335.12249-129H8", 839 | "natural helper cells, IL2 treated, day15, biol_rep3, tech_rep3.CNhs14389.12249-129H8", 840 | "natural helper cells, IL33 treated, 01hr, biol_rep1, tech_rep1.CNhs12579.12253-129I3", 841 | "natural helper cells, IL33 treated, 01hr, biol_rep1, tech_rep2.CNhs14332.12253-129I3", 842 | "natural helper cells, IL33 treated, 01hr, biol_rep1, tech_rep3.CNhs14383.12253-129I3", 843 | "natural helper cells, IL33 treated, 01hr, biol_rep2, tech_rep2.CNhs14338.12254-129I4", 844 | "natural helper cells, IL33 treated, 01hr, biol_rep2, tech_rep3.CNhs14384.12254-129I4", 845 | "natural helper cells, IL33 treated, 01hr, biol_rep3, tech_rep2.CNhs14339.12255-129I5", 846 | "natural helper cells, IL33 treated, 01hr, biol_rep3, tech_rep3.CNhs14380.12255-129I5", 847 | "natural helper cells, IL33 treated, day02, biol_rep1, tech_rep2.CNhs14336.12250-129H9", 848 | "natural helper cells, IL33 treated, day02, biol_rep1, tech_rep3.CNhs14386.12250-129H9", 849 | "natural helper cells, IL33 treated, day02, biol_rep2, tech_rep2.CNhs14337.12251-129I1", 850 | "natural helper cells, IL33 treated, day02, biol_rep2, tech_rep3.CNhs14385.12251-129I1", 851 | "natural helper cells, IL33 treated, day02, biol_rep3, tech_rep1.CNhs12578.12252-129I2", 852 | "natural helper cells, IL33 treated, day02, biol_rep3, tech_rep2.CNhs14331.12252-129I2", 853 | "natural helper cells, IL33 treated, day02, biol_rep3, tech_rep3.CNhs14379.12252-129I2", 854 | "natural helper cells, naive, biol_rep1, tech_rep2.CNhs14340.12256-129I6", 855 | "natural helper cells, naive, biol_rep1, tech_rep3.CNhs14381.12256-129I6", 856 | "natural helper cells, naive, biol_rep2, tech_rep1.CNhs12515.12257-129I7", 857 | "natural helper cells, naive, biol_rep2, tech_rep2.CNhs14341.12257-129I7", 858 | "natural helper cells, naive, biol_rep2, tech_rep3.CNhs14382.12257-129I7", 859 | "natural helper cells, naive, biol_rep3, tech_rep1.CNhs12580.12258-129I8", 860 | "natural helper cells, naive, biol_rep3, tech_rep2.CNhs14333.12258-129I8", 861 | "natural helper cells, naive, biol_rep3, tech_rep3.CNhs14387.12258-129I8" 862 | ], 863 | "neurosphere": [ 864 | "neurospheres - enteric neuron derived, biol_rep1.CNhs13087.11810-124E1", 865 | "neurospheres - enteric neuron derived, biol_rep2.CNhs13088.11811-124E2", 866 | "neurospheres - enteric neuron derived, biol_rep3.CNhs13089.11812-124E3", 867 | "neurospheres - parasympathetic neuron derived, biol_rep1.CNhs13084.11807-124D7", 868 | "neurospheres - parasympathetic neuron derived, biol_rep2.CNhs13085.11808-124D8", 869 | "neurospheres - parasympathetic neuron derived, biol_rep3.CNhs13086.11809-124D9", 870 | "neurospheres - sympathetic neuron derived, biol_rep1.CNhs13081.11804-124D4", 871 | "neurospheres - sympathetic neuron derived, biol_rep2.CNhs13082.11805-124D5", 872 | "neurospheres - sympathetic neuron derived, biol_rep3.CNhs13083.11806-124D6" 873 | ], 874 | "olfactory brain": [ 875 | "olfactory brain, adult.CNhs10489.18-22I9" 876 | ], 877 | "osteoclast": [ 878 | "osteoclast, bone marrow derived.CNhs14137.2379-69A1" 879 | ], 880 | "osteocyte": [ 881 | "ST2 (Mesenchymal stem cells) cells, differentiation to osteocytes, day06, biol_rep1 (144hB1).CNhs11940.12337-130I6", 882 | "ST2 (Mesenchymal stem cells) cells, differentiation to osteocytes, day06, biol_rep2 (144hB2).CNhs13274.12459-132E2", 883 | "ST2 (Mesenchymal stem cells) cells, differentiation to osteocytes, day06, biol_rep3 (144hB3).CNhs13323.12581-133I7" 884 | ], 885 | "ovary": [ 886 | "ovary, adult.CNhs10507.91-2I7", 887 | "ovary, embryo E18.CNhs11040.505-44H7", 888 | "ovary, neonate N00.CNhs11217.1299-22I4" 889 | ], 890 | "oviduct": [ 891 | "oviduct, adult pregnant day01.CNhs10500.988-6G6" 892 | ], 893 | "pancreas": [ 894 | "pancreas, adult.CNhs10486.34-16E4", 895 | "pancreas, embryo E14.CNhs11012.405-44F4", 896 | "pancreas, embryo E15.CNhs11042.1556-45F2", 897 | "pancreas, embryo E16.CNhs11003.460-26E5", 898 | "pancreas, embryo E17.CNhs10599.1558-45G3", 899 | "pancreas, embryo E18.CNhs10580.1535-43I7", 900 | "pancreas, neonate N00.CNhs11105.645-26G9", 901 | "pancreas, neonate N01.CNhs11138.1531-43D7", 902 | "pancreas, neonate N02.CNhs11139.1539-43D8", 903 | "pancreas, neonate N16.CNhs11136.787-43B6", 904 | "pancreas, neonate N25.CNhs11094.1555-45E2", 905 | "pancreas, neonate N30.CNhs11182.1548-44H5" 906 | ], 907 | "pituitary gland": [ 908 | "pituitary gland, adult.CNhs10493.21-1G8", 909 | "pituitary gland, embryo E12.CNhs11018.346-16E6", 910 | "pituitary gland, embryo E13.CNhs11009.370-44C7", 911 | "pituitary gland, embryo E14.CNhs11037.398-44A5", 912 | "pituitary gland, embryo E15.CNhs10592.427-16B9", 913 | "pituitary gland, embryo E16.CNhs11036.449-43F6", 914 | "pituitary gland, embryo E17.CNhs11039.1265-44F5", 915 | "pituitary gland, neonate N00.CNhs11190.1308-22E9" 916 | ], 917 | "placenta": [ 918 | "placenta, adult pregnant day10.CNhs10472.539-13I7", 919 | "placenta, adult pregnant day17.CNhs10464.577-18G3" 920 | ], 921 | "prostate": [ 922 | "prostate, adult.CNhs10470.859-1F8" 923 | ], 924 | "skeletal muscle": [ 925 | "muscle (biceps femoris), neonate N30.CNhs11129.1389-42C2" 926 | ], 927 | "skin": [ 928 | "skin, adult.CNhs10492.30-1C3", 929 | "skin, neonate N00.CNhs11124.650-25G4", 930 | "skin, neonate N03.CNhs11215.662-22H3", 931 | "skin, neonate N06.CNhs11097.693-20I5", 932 | "skin, neonate N10.CNhs11108.762-6C4" 933 | ], 934 | "small intestine": [ 935 | "small intestine, neonate N16.CNhs11114.790-21I1" 936 | ], 937 | "spinal cord": [ 938 | "spinal cord, adult.CNhs10505.24-13C9" 939 | ], 940 | "spleen": [ 941 | "spleen, adult.CNhs10465.25-2G2", 942 | "spleen, embryo E16.CNhs11035.461-43C1", 943 | "spleen, embryo E18.CNhs11011.1271-21F2", 944 | "spleen, neonate N10.CNhs11116.752-24D1", 945 | "spleen, neonate N20.CNhs11112.824-19H1", 946 | "spleen, neonate N25.CNhs11099.1354-25G3" 947 | ], 948 | "stomach": [ 949 | "stomach, adult.CNhs10503.33-1H6", 950 | "stomach, embryo E12.CNhs10588.356-43E3", 951 | "stomach, embryo E15.CNhs10603.1252-16G8", 952 | "stomach, embryo E16.CNhs11022.459-17D4", 953 | "stomach, embryo E17.CNhs11006.1035-18D5", 954 | "stomach, embryo E18.CNhs10999.1286-20C6", 955 | "stomach, neonate N03.CNhs11193.1340-24B8", 956 | "stomach, neonate N07.CNhs11210.718-18A9", 957 | "stomach, neonate N25.CNhs11104.1355-25E4", 958 | "stomach, neonate N30.CNhs11134.1386-42I1" 959 | ], 960 | "submandibular gland": [ 961 | "submandibular gland, adult.CNhs10469.59-29C1" 962 | ], 963 | "testis": [ 964 | "testis, adult.CNhs10504.57-7G5", 965 | "testis, embryo E13.CNhs11031.389-23F5", 966 | "testis, embryo E15.CNhs11034.443-27C5", 967 | "testis, embryo E16.CNhs11033.470-26G5", 968 | "testis, embryo E17.CNhs11029.486-18I5", 969 | "testis, embryo E18.CNhs11027.503-18G5", 970 | "testis, neonate N00.CNhs11189.1300-22B7", 971 | "testis, neonate N07.CNhs11222.726-26I4", 972 | "testis, neonate N10.CNhs11204.763-44D9", 973 | "testis, neonate N20.CNhs11110.839-18H3", 974 | "testis, neonate N30.CNhs11130.1391-42E2" 975 | ], 976 | "thymus": [ 977 | "thymus, adult.CNhs10471.38-12B5", 978 | "thymus, embryo E14.CNhs11041.402-44I4", 979 | "thymus, embryo E15.CNhs11005.430-45I2", 980 | "thymus, embryo E16.CNhs11002.456-26C5", 981 | "thymus, embryo E17.CNhs10581.478-18C1", 982 | "thymus, embryo E18.CNhs10595.1273-19G4", 983 | "thymus, neonate N02.CNhs11181.1541-43F8", 984 | "thymus, neonate N03.CNhs11137.2104-43C7", 985 | "thymus, neonate N06.CNhs11197.681-26C4", 986 | "thymus, neonate N07.CNhs11211.713-19D3", 987 | "thymus, neonate N10.CNhs11194.748-24E4", 988 | "thymus, neonate N20.CNhs11186.820-7A2", 989 | "thymus, neonate N25.CNhs11125.1362-25G7", 990 | "thymus, neonate N30.CNhs11132.1393-42G2" 991 | ], 992 | "tongue": [ 993 | "tongue, adult.CNhs10499.32-1B4" 994 | ], 995 | "urinary bladder": [ 996 | "urinary bladder, adult.CNhs10481.879-12E4" 997 | ], 998 | "uterus": [ 999 | "uterus, adult pregnant day19.CNhs10497.590-15F5", 1000 | "uterus, adult.CNhs10509.92-27E5" 1001 | ], 1002 | "vagina": [ 1003 | "vagina, adult.CNhs10502.89-27D5" 1004 | ], 1005 | "vesicular gland": [ 1006 | "vesicular gland, adult.CNhs10491.51-27F8" 1007 | ], 1008 | "visual cortex": [ 1009 | "visual cortex - wildtype, neonate N15, donor1.CNhs13031.10235-104A1", 1010 | "visual cortex - wildtype, neonate N15, donor2.CNhs13032.10236-104A2", 1011 | "visual cortex - wildtype, neonate N15, donor3.CNhs13033.10237-104A3", 1012 | "visual cortex - wildtype, neonate N15, donor5.CNhs13820.10349-105D7", 1013 | "visual cortex - wildtype, neonate N30, donor1.CNhs13034.10238-104A4", 1014 | "visual cortex - wildtype, neonate N30, donor2.CNhs13035.10239-104A5", 1015 | "visual cortex - wildtype, neonate N30, donor3.CNhs13036.10240-104A6", 1016 | "visual cortex - wildtype, neonate N60-70, donor1.CNhs13037.10241-104A7", 1017 | "visual cortex - wildtype, neonate N60-70, donor2.CNhs13038.10242-104A8", 1018 | "visual cortex - wildtype, neonate N60-70, donor3.CNhs13039.10243-104A9", 1019 | "visual cortex - Mecp knockout, neonate N15, donor1.CNhs13040.10244-104B1", 1020 | "visual cortex - Mecp knockout, neonate N15, donor2.CNhs13041.10245-104B2", 1021 | "visual cortex - Mecp knockout, neonate N15, donor3.CNhs13821.10350-105D8", 1022 | "visual cortex - Mecp knockout, neonate N30, donor1.CNhs13042.10246-104B3", 1023 | "visual cortex - Mecp knockout, neonate N30, donor2.CNhs13043.10247-104B4", 1024 | "visual cortex - Mecp knockout, neonate N30, donor3.CNhs13044.10248-104B5", 1025 | "visual cortex - Mecp knockout, neonate N60-70, donor1.CNhs13045.10249-104B6", 1026 | "visual cortex - Mecp knockout, neonate N60-70, donor2.CNhs13046.10250-104B7", 1027 | "visual cortex - Mecp knockout, neonate N60-70, donor3.CNhs13048.10251-104B8" 1028 | ] 1029 | } 1030 | -------------------------------------------------------------------------------- /requirements.txt: -------------------------------------------------------------------------------- 1 | numpy>=1.12.1 2 | pandas>=0.18.0 3 | scipy>=0.19.1 -------------------------------------------------------------------------------- /scMatch.py: -------------------------------------------------------------------------------- 1 | #!/usr/bin/env python2 2 | # -*- coding: utf-8 -*- 3 | """ 4 | Created on Fri Apr 27 19:59:33 2018 5 | 6 | @author: rhou 7 | """ 8 | import warnings 9 | warnings.filterwarnings("ignore") 10 | import argparse 11 | import pandas as pd 12 | import numpy as np 13 | import os, sys 14 | from scipy.stats import spearmanr, pearsonr 15 | import glob 16 | from scipy import io 17 | import multiprocessing 18 | from functools import partial 19 | 20 | def SPMAnno(refDB, keepZeros, testMethod, testCol): 21 | firstLayerHeader = [testCol.columns[0], testCol.columns[0]] 22 | 23 | #find common genes between test data and ref data 24 | testRows = set(testCol.index) 25 | refRows = set(refDB.index) 26 | if keepZeros: 27 | commonRows = list(refRows) 28 | else: 29 | commonRows = list(refRows.intersection(testRows)) 30 | commonRowsLen = len(commonRows) 31 | thirdLayerHeader = [commonRowsLen, commonRowsLen] 32 | 33 | #only keep non-zero genes 34 | testCol = testCol.loc[commonRows, ].fillna(0.0) 35 | testrefDB = refDB.loc[commonRows, ].fillna(0.0) 36 | 37 | if testMethod == 'Spearman': 38 | spr_correlation = testrefDB.apply(lambda col: spearmanr(col, testCol)[0], axis=0) 39 | spr_correlation = spr_correlation.to_frame().fillna(0).round(10).reset_index() 40 | spr_correlation.columns = ['sample name', 'Spearman correlation coefficient'] 41 | secondLayerHeader = ['sample name', 'Spearman correlation coefficient'] 42 | spr_correlation = spr_correlation.sort_values(by=['Spearman correlation coefficient'], ascending=False) 43 | spr_correlation = spr_correlation.reset_index(drop=True) 44 | return (firstLayerHeader, thirdLayerHeader, secondLayerHeader, spr_correlation, testCol.columns[0], spr_correlation.iloc[0,0], spr_correlation.iloc[0,1]) 45 | elif testMethod == 'Pearson': 46 | pes_correlation = testrefDB.apply(lambda col: pearsonr(col.to_frame(), testCol)[0], axis=0) 47 | pes_correlation = pes_correlation.fillna(0).round(10).T.ix[:,0].reset_index() 48 | pes_correlation.columns = ['sample name', 'Pearson correlation coefficient'] 49 | secondLayerHeader = ['sample name', 'Pearson correlation coefficient'] 50 | pes_correlation = pes_correlation.sort_values(by=['Pearson correlation coefficient'], ascending=False) 51 | pes_correlation = pes_correlation.reset_index(drop=True) 52 | return (firstLayerHeader, thirdLayerHeader, secondLayerHeader, pes_correlation, testCol.columns[0], pes_correlation.iloc[0,0], pes_correlation.iloc[0,1]) 53 | 54 | #transfer given species gene symbols to hids 55 | def TransferToHids(refDS, species, geneList): 56 | hidCol = 0 # universal id for homology genes 57 | taxidCol = 1 # species id 58 | geneSymbolCol = 3 # for jordan's data, it only has gene symbol 59 | 60 | homoDF = pd.read_csv(os.path.join(refDS, 'homologene.data'), sep='\t', index_col=None, header=None) 61 | # reduce the list to genes of the given species 62 | speciesDF = homoDF.ix[homoDF[taxidCol] == int(species),].set_index(geneSymbolCol) 63 | 64 | geneDF = speciesDF.loc[speciesDF.index.isin(geneList)] 65 | notnaGenes = geneDF[geneDF[hidCol].notnull()] 66 | notnaGenes = notnaGenes.ix[~notnaGenes[hidCol].duplicated(keep='first'),] 67 | notnaGenesSymbols = list(notnaGenes.index) 68 | notnaGenesHIDs = list(notnaGenes.ix[:, hidCol]) 69 | notnaGenesHIDs = [int(i) for i in notnaGenesHIDs] 70 | return notnaGenesSymbols, notnaGenesHIDs 71 | 72 | def AnnSCData(testType, em, refDS, refType, refTypeName, keepZeros, testMethod, coreNum, savefolder): 73 | #if across species need to replace symbols to HIDs 74 | if testType == refType: 75 | #load reference database 76 | refDB = pd.read_csv(os.path.join(refDS, '%s_symbol.csv' % refType), index_col=0, header=0) 77 | else: 78 | #load reference database 79 | refDB = pd.read_csv(os.path.join(refDS, '%s_HID.csv' % refType), index_col=0, header=0) 80 | 81 | #for different species, transfer symbols to hids 82 | geneList = list(em.index) 83 | geneList, hidList = TransferToHids(refDS, testType, geneList) 84 | em = em.ix[~em.index.duplicated(keep='first'),] 85 | em = em.ix[geneList, ] 86 | hidList = [str(i) for i in hidList] 87 | em.index = hidList 88 | hidList = [str(i) for i in refDB.index] 89 | refDB.index = hidList 90 | 91 | #remove duplicate indices 92 | refDB = refDB.ix[~refDB.index.duplicated(keep='first'),] 93 | print('reference dataset shape: %s genes, %s samples' % refDB.shape) 94 | em = em.ix[~em.index.duplicated(keep='first'),] 95 | 96 | #split expression matrix to single-cell expression profiles 97 | eps = np.split(em, len(em.columns), axis=1) 98 | 99 | #annotate single-cell expression profiles in parallel 100 | p = multiprocessing.Pool(coreNum) 101 | func = partial(SPMAnno, refDB, keepZeros, testMethod) 102 | resultList = p.map(func, eps) 103 | p.close() 104 | p.join() 105 | 106 | #generate final sample annotation expression matrix 107 | firstLayerHeader = [item for i in resultList for item in i[0]] 108 | secondLayerHeader = [item for i in resultList for item in i[1]] 109 | thirdLayerHeader = [item for i in resultList for item in i[2]] 110 | merged = pd.concat([i[3] for i in resultList], axis=1) 111 | arrays = [firstLayerHeader, secondLayerHeader, thirdLayerHeader] 112 | tuples = list(zip(*arrays)) 113 | headers = pd.MultiIndex.from_tuples(tuples, names=['identifier', 'tested genes', 'annotation']) 114 | merged.columns = headers 115 | 116 | #prepare folder to save annotation result 117 | if not os.path.exists(savefolder): 118 | os.mkdir(savefolder) 119 | 120 | rstFolder = 'annotation_result' 121 | if keepZeros: 122 | rstFolder = rstFolder + '_keep_all_genes' 123 | else: 124 | rstFolder = rstFolder + '_keep_expressed_genes' 125 | 126 | savefolder = os.path.join(savefolder, rstFolder) 127 | if not os.path.exists(savefolder): 128 | os.mkdir(savefolder) 129 | 130 | #save file 131 | print('##########saving annotation results in the folder: %s' % savefolder) 132 | if len(merged.columns) > 8190: 133 | colNum = len(merged.columns) 134 | parts = int(colNum / 8000) 135 | for partIdx in range(parts): 136 | subMerged = merged.iloc[:,8000*partIdx:8000*(partIdx+1)] 137 | subMerged.to_excel(os.path.join(savefolder, refTypeName+"_%s_Part%04d.xlsx" % (testMethod, partIdx+1))) 138 | subMerged = merged.iloc[:,8000*parts:] 139 | subMerged.to_excel(os.path.join(savefolder, refTypeName+"_%s_Part%04d.xlsx" % (testMethod, parts+1))) 140 | else: 141 | merged.to_excel(os.path.join(savefolder, refTypeName+"_%s.xlsx" % testMethod)) 142 | 143 | #save top ann result 144 | topAnn = pd.DataFrame({'cell':[i[4] for i in resultList], 'cell type':[''] * len(resultList), 'top sample':[i[5] for i in resultList], 'top correlation score':[i[6] for i in resultList]}) 145 | mapData = pd.read_csv(os.path.join(refDS, '%s_map.csv' % refType), index_col=0, header=0) 146 | for idx in topAnn.index: 147 | topAnn.ix[idx, 'cell type'] = mapData.ix[topAnn.ix[idx, 'top sample'], 'cell type'] 148 | saveNameP = os.path.join(savefolder, refTypeName+"_%s_top_ann.csv" % (testMethod)) 149 | topAnn.to_csv(saveNameP, index=False, columns = ['cell', 'cell type', 'top sample', 'top correlation score']) 150 | print('##########DONE!') 151 | 152 | def SortAnno(testItem): 153 | oldcols = testItem.columns 154 | cell = oldcols.get_level_values(0)[0] 155 | testItem.columns = ["name", "coefficient"] 156 | testItem = testItem.sort_values(by=['coefficient'], ascending=False) 157 | topAnn = testItem.iloc[0,0] 158 | topCoff = testItem.iloc[0,1] 159 | testItem.columns = oldcols 160 | testItem = testItem.reset_index(drop=True) 161 | return (testItem, cell, topAnn, topCoff) 162 | 163 | #start to annotate test dataset 164 | def main(testType, testFormat, testDS, testGenes, refDS, refTypeList, keepZeros, testMethodList, coreNum): 165 | 166 | #load test data 167 | print('##########loading test data') 168 | if testFormat == '10x': 169 | fileItem = glob.glob(os.path.join(testDS, "matrix.mtx"))[0] 170 | em = io.mmread(fileItem) 171 | em = em.tocsr().toarray() 172 | if os.path.exists(os.path.join(opt.testDS, 'genes.tsv')): 173 | row = pd.read_table(fileItem[:-10]+"genes.tsv", header=None, index_col=None) 174 | else: 175 | row = pd.read_table(fileItem[:-10]+"features.tsv", header=None, index_col=None) 176 | col = pd.read_table(fileItem[:-10]+"barcodes.tsv", header=None, index_col=None) 177 | em = pd.DataFrame(em, index=row.T.values[1], columns=col.T.values[0]) 178 | savefolder = testDS 179 | else: 180 | em = pd.read_csv(testDS, index_col=0, header=0) 181 | savefolder = testDS[:-4] 182 | 183 | # remove unrelated genes 184 | geneList = set(em.index) 185 | if testGenes != 'none': 186 | testGeneList = set(pd.read_csv(testGenes,index_col=None, header=0).columns) 187 | geneList = testGeneList.intersection(testGeneList) 188 | em = em.ix[~em.index.duplicated(keep='first'),] 189 | em = em.ix[geneList,] 190 | print('test dataset shape: %s genes, %s samples' % em.shape) 191 | 192 | hidSpecDict = {'9606':'human', '10090':'mouse'} 193 | 194 | for refType in refTypeList: 195 | print('##########annotating test data with %s data' % hidSpecDict[refType]) 196 | for testMethod in testMethodList: 197 | AnnSCData(testType, em, refDS, refType, hidSpecDict[refType], keepZeros, testMethod, coreNum, savefolder) 198 | 199 | if len(refTypeList) == 2: 200 | print('##########merging annotation data') 201 | rstFolder = 'annotation_result' 202 | if keepZeros: 203 | rstFolder = rstFolder + '_keep_all_genes' 204 | else: 205 | rstFolder = rstFolder + '_keep_expressed_genes' 206 | savefolder = os.path.join(savefolder, rstFolder) 207 | for testMethod in testMethodList: 208 | tomergeList = glob.glob(os.path.join(savefolder, "human*%s*.xlsx" % testMethod)) 209 | tomergeList = [i for i in tomergeList if "_Avg" not in i] 210 | topAnnList = [] 211 | for tomerge in tomergeList: 212 | #merge results 213 | humanAnn = pd.read_excel(tomerge, header=[0,1,2]) 214 | humanAnn.columns = pd.MultiIndex.from_arrays([list(humanAnn.columns.get_level_values(0)),list(humanAnn.columns.get_level_values(2))], names=('identifier', 'annotation')) 215 | mouseAnn = pd.read_excel(tomerge.replace('human_','mouse_'), header=[0,1,2]) 216 | mouseAnn.columns = pd.MultiIndex.from_arrays([list(mouseAnn.columns.get_level_values(0)),list(mouseAnn.columns.get_level_values(2))], names=('identifier', 'annotation')) 217 | mergedAnn = pd.concat([humanAnn, mouseAnn]) 218 | 219 | #sort merged results 220 | #split merged results to single-cell merged results 221 | mergedAnnList = np.split(mergedAnn, len(mergedAnn.columns)/2, axis=1) 222 | 223 | #annotate single-cell expression profiles in parallel 224 | p = multiprocessing.Pool(coreNum) 225 | resultList = p.map(SortAnno, mergedAnnList) 226 | p.close() 227 | p.join() 228 | 229 | mergedAnn = pd.concat([i[0] for i in resultList], axis=1) 230 | mergedAnn.to_excel(tomerge.replace('human_','combined_')) 231 | 232 | #save top ann result 233 | topAnn = pd.DataFrame({'cell':[i[1] for i in resultList], 'cell type':[''] * len(resultList), 'top sample':[i[2] for i in resultList], 'top correlation score':[i[3] for i in resultList]}) 234 | topAnnList.append(topAnn) 235 | mergedAnn = pd.concat(topAnnList) 236 | mapData1 = pd.read_csv(os.path.join(refDS, '9606_map.csv'), index_col=0, header=0) 237 | mapData2 = pd.read_csv(os.path.join(refDS, '10090_map.csv'), index_col=0, header=0) 238 | mapData = pd.concat([mapData1, mapData2]) 239 | for idx in mergedAnn.index: 240 | mergedAnn.ix[idx, 'cell type'] = mapData.ix[mergedAnn.ix[idx, 'top sample'], 'cell type'] 241 | saveNameP = os.path.join(savefolder, "combined_%s_top_ann.csv" % (testMethod)) 242 | mergedAnn.to_csv(saveNameP, index=False, columns = ['cell', 'cell type', 'top sample', 'top correlation score']) 243 | 244 | print('##########DONE!') 245 | 246 | if __name__ == "__main__": 247 | 248 | #process arguments 249 | parser = argparse.ArgumentParser() 250 | parser.add_argument('--refType', default='human', help='human (default) | mouse | both ') 251 | parser.add_argument('--testType', default='human', help='human (default) | mouse | rat | chimpanzee |zebrafish') 252 | parser.add_argument('--refDS', required=True, help='path to the folder of reference dataset(s)') 253 | parser.add_argument('--dFormat', default='10x', help='10x (default) | csv') 254 | parser.add_argument('--testDS', required=True, help='path to the folder of test dataset if dtype is 10x, otherwise, the path to the file') 255 | parser.add_argument('--testMethod', default='s', help='s[pearman] (default) | p[earson] | both') 256 | parser.add_argument('--testGenes', default='none', help='optional, path to the csv file whose first row is the genes used to calculate the correlation coefficient') 257 | parser.add_argument('--keepZeros', default='yes', help='y[es] (default) | n[o]') 258 | parser.add_argument('--coreNum', type=int, default=1, help='number of the cores to use, default=1') 259 | 260 | opt = parser.parse_args() 261 | 262 | #check testType 263 | avaSpecDict = {'human':'9606', 'mouse':'10090', 'rat':'10116', 'chimpanzee':'9598', 'zebrafish':'7955'} 264 | if opt.testType.lower() not in avaSpecDict.keys(): 265 | sys.exit("The testType can only be 'human', 'mouse', 'rat', 'chimpanzee' or 'zebrafish'.") 266 | else: 267 | testType = avaSpecDict[opt.testType] 268 | 269 | #check testMethod 270 | if opt.testMethod.lower() == "p": 271 | testMethodList = ['Pearson'] 272 | elif opt.testMethod.lower() == "s": 273 | testMethodList = ['Spearman'] 274 | elif opt.testMethod.lower() == "both": 275 | testMethodList = ['Pearson', 'Spearman'] 276 | else: 277 | sys.exit("The testMethod can only be 's', 'p' or 'both'.") 278 | 279 | #check keepZeros 280 | if opt.keepZeros.lower()[0] == "n": 281 | keepZeros = False 282 | elif opt.keepZeros.lower()[0] == "y": 283 | keepZeros = True 284 | else: 285 | sys.exit("The keepZeros can only be 'y[es]' or 'n[o]'.") 286 | 287 | #check refType 288 | if opt.refType.lower() == "both": 289 | refTypeList = ['9606', '10090'] 290 | elif opt.refType.lower() == "human": 291 | refTypeList = ['9606'] 292 | elif opt.refType.lower() == "mouse": 293 | refTypeList = ['10090'] 294 | else: 295 | sys.exit("The refType can only be 'human', 'mouse' or 'both'.") 296 | 297 | #check refDS 298 | if not os.path.exists(opt.refDS): 299 | sys.exit("The folder of reference dataset does not exist.") 300 | for refType in refTypeList: 301 | if refType == testType: 302 | if not os.path.exists(os.path.join(opt.refDS, '%s_symbol.csv' % refType)): 303 | sys.exit("The reference dataset '%s_symbol.csv' dose not exist." % refType) 304 | else: 305 | if not os.path.exists(os.path.join(opt.refDS, '%s_HID.csv' % refType)): 306 | sys.exit("The reference dataset '%s_HID.csv' dose not exist." % refType) 307 | 308 | #check dFormat and testDS 309 | if opt.dFormat.lower() == 'csv': 310 | if not os.path.exists(opt.testDS): 311 | sys.exit("The test dataset file does not exist.") 312 | if opt.testDS[-4:].lower() != '.csv': 313 | sys.exit("The test dataset file is not a CSV file.") 314 | elif opt.dFormat.lower() == '10x': 315 | if not os.path.exists(opt.testDS): 316 | sys.exit("The folder of test dataset does not exist.") 317 | if not os.path.exists(os.path.join(opt.testDS, 'matrix.mtx')): 318 | sys.exit("Cannot find 'matrix.mtx' file in the folder of test dataset.") 319 | if not os.path.exists(os.path.join(opt.testDS, 'genes.tsv')): 320 | if not os.path.exists(os.path.join(opt.testDS, 'features.tsv')): 321 | sys.exit("Cannot find 'genes.tsv' or 'features.tsv' file in the folder of test dataset.") 322 | if not os.path.exists(os.path.join(opt.testDS, 'barcodes.tsv')): 323 | sys.exit("Cannot find 'barcodes.tsv' file in the folder of test dataset.") 324 | 325 | #check gene list 326 | if opt.testGenes != 'none' and opt.testGenes.endswith('.csv'): 327 | if not os.path.exists(opt.testGenes): 328 | sys.exit("Cannot find CSV file to obtain the test gene list.") 329 | 330 | #check coreNum 331 | maxCoreNum = multiprocessing.cpu_count() 332 | if opt.coreNum > maxCoreNum: 333 | sys.exit("There are only %s cores available, less than %s cores." % (maxCoreNum, opt.coreNum)) 334 | 335 | #pass argument check, show input data 336 | print('===================================================') 337 | print('Input data:') 338 | print('Reference species: %s' % opt.refType) 339 | print('The folder of reference dataset(s): %s' % opt.refDS) 340 | print('Test species: %s' % opt.testType) 341 | print('The format of the test dataset: %s' % opt.dFormat) 342 | if opt.dFormat == '10x': 343 | print('Test data are in the folder: %s' % opt.testDS) 344 | else: 345 | print('Test data are in the file: %s' % opt.testDS) 346 | print('The correlation method: %s' % opt.testMethod) 347 | if keepZeros: 348 | print('Keep genes with zero expression level: yes') 349 | else: 350 | print('Keep genes with zero expression level: no') 351 | if opt.testGenes != 'none': 352 | print('Test gene list: %s' % opt.testGenes) 353 | print('The number of cores to use: %s' % opt.coreNum) 354 | print('===================================================') 355 | 356 | #start to annotate test dataset 357 | main(testType, opt.dFormat, opt.testDS, opt.testGenes, opt.refDS, refTypeList, keepZeros, testMethodList, opt.coreNum) 358 | #python scMatch.py --refDS FANTOM5 --dFormat csv --testDS GSE81861_Cell_Line_COUNT.csv --coreNum 4 359 | -------------------------------------------------------------------------------- /toTerms.py: -------------------------------------------------------------------------------- 1 | #!/usr/bin/env python2 2 | # -*- coding: utf-8 -*- 3 | """ 4 | Created on Wed May 2 10:37:14 2018 5 | 6 | @author: rhou 7 | """ 8 | import warnings 9 | warnings.filterwarnings("ignore") 10 | import argparse 11 | import pandas as pd 12 | import numpy as np 13 | import os, sys 14 | import glob 15 | import json 16 | import multiprocessing 17 | from functools import partial 18 | 19 | def AvgTest(mapDict, barcodeDF): 20 | testID = barcodeDF.columns.get_level_values(0).values[0] 21 | barcodeDF.columns = ["spl", "score"] 22 | barcodeDF = barcodeDF.set_index('spl') 23 | termDict = {'Avg Score':[], 'Ont Term':[]} 24 | 25 | #get all sample names 26 | allSplSet = set(barcodeDF.index.values) 27 | 28 | for termItem in mapDict.keys(): 29 | ffList = mapDict[termItem] 30 | if len(ffList) > 1: 31 | #number of top sample names in the list 32 | commonTerms = list(set(ffList).intersection(allSplSet)) 33 | if len(commonTerms) > 0: 34 | totalCorr = 0.0 35 | for commonTerm in commonTerms: 36 | totalCorr += barcodeDF.ix[commonTerm, 'score'] 37 | avgScore = totalCorr/len(commonTerms) 38 | 39 | termDict['Ont Term'].append(termItem) 40 | termDict['Avg Score'].append(avgScore) 41 | 42 | termDF = pd.DataFrame.from_dict(termDict).ix[:, ['Ont Term', 'Avg Score']] 43 | termDF = termDF.sort_values(by=['Avg Score'], ascending=False) 44 | termDF = termDF.reset_index(drop=True) 45 | 46 | topScore = termDF.ix[:, 'Avg Score'][0] 47 | topAnns = list(termDF.ix[termDF['Avg Score']==topScore, 'Ont Term'].values) 48 | topAnns = sorted([i.split('.CNhs')[0] for i in topAnns]) 49 | 50 | arrays = [[testID, testID], ['Ont Term', 'Avg Score']] 51 | tuples = list(zip(*arrays)) 52 | headers = pd.MultiIndex.from_tuples(tuples, names=['identifier', 'annotation']) 53 | termDF.columns = headers 54 | 55 | return (termDF, (testID, ', '.join(topAnns), topScore)) 56 | 57 | #####average analysis 58 | def MapAvg(currAnn, mapDict, splFile, refDS, spsType, coreNum): 59 | #split annotation file to single-cell vectors 60 | idIndex = range(0, len(currAnn.columns), 2) 61 | idIndex = currAnn.columns.get_level_values(0).values[idIndex] 62 | totalCounter = len(idIndex) 63 | annfiles = np.split(currAnn, totalCounter, axis=1) 64 | 65 | p = multiprocessing.Pool(coreNum) 66 | func = partial(AvgTest, mapDict) 67 | termAnnList = p.map(func, annfiles) 68 | p.close() 69 | p.join() 70 | 71 | merged = pd.concat([i[0] for i in termAnnList], axis=1) 72 | saveNameP = splFile[:-5]+"_Avg.xlsx" 73 | merged.to_excel(saveNameP) 74 | 75 | #save ann result 76 | merged = pd.DataFrame({'cell':[i[1][0] for i in termAnnList], 'avg annotation':[i[1][1] for i in termAnnList], 'top average correlation score':[i[1][2] for i in termAnnList]}) 77 | saveNameP = splFile[:-5]+"_Avg_top_ann.csv" 78 | merged.to_csv(saveNameP, index=False, columns = ['cell', 'avg annotation', 'top average correlation score']) 79 | 80 | #start to transfer original sample names 81 | def main(splFileList, refDS, coreNum): 82 | for splFile in sorted(splFileList): 83 | print('#####processing %s' % splFile) 84 | 85 | if 'combined' in splFile: 86 | currAnn = pd.read_excel(splFile, index_col=0, header=[0,1]) 87 | else: 88 | currAnn = pd.read_excel(splFile, index_col=0, header=[0,1,2]) 89 | currAnn.columns = pd.MultiIndex.from_arrays([list(currAnn.columns.get_level_values(0)),list(currAnn.columns.get_level_values(2))], names=('identifier', 'annotation')) 90 | 91 | if 'human' in splFile: 92 | spsType = 'human' 93 | with open(os.path.join(refDS, 'human_samples_oto.txt')) as json_file: 94 | mapDict = json.load(json_file) 95 | if 'mouse' in splFile: 96 | spsType = 'mouse' 97 | with open(os.path.join(refDS, 'mouse_samples_oto.txt')) as json_file: 98 | mapDict = json.load(json_file) 99 | if 'combi' in splFile: 100 | spsType = 'hgmm' 101 | with open(os.path.join(refDS, 'hgmm_samples_oto.txt')) as json_file: 102 | mapDict = json.load(json_file) 103 | 104 | #start test 105 | MapAvg(currAnn, mapDict, splFile, refDS, spsType, coreNum) 106 | print('#####DONE!') 107 | 108 | if __name__ == "__main__": 109 | 110 | #process arguments 111 | parser = argparse.ArgumentParser() 112 | parser.add_argument('--splF', required=True, help='path to the original sample annotation folder which contains original sample annotation data') 113 | parser.add_argument('--refDS', required=True, help='path to the folder of reference dataset(s)') 114 | parser.add_argument('--coreNum', type=int, default=1, help='number of the cores to use, default is 1') 115 | 116 | opt = parser.parse_args() 117 | 118 | #check splFolder 119 | if os.path.isdir(opt.splF): 120 | splFileList = sorted(glob.glob(os.path.join(opt.splF, '*.xlsx'))) 121 | splFileList = [i for i in splFileList if "Avg" not in i] 122 | if len(splFileList) == 0: 123 | sys.exit("Cannot find the original sample annotation folder.") 124 | else: 125 | sys.exit("Cannot find the original sample annotation folder.") 126 | 127 | #check refDS 128 | if not os.path.exists(opt.refDS): 129 | sys.exit("The folder of reference dataset does not exist.") 130 | 131 | #check if the oto file exists 132 | speciesSet = set([os.path.basename(filename)[:5] for filename in splFileList]) 133 | if 'human' in speciesSet: 134 | if len(glob.glob(os.path.join(opt.refDS, 'human_samples_oto.txt'))) == 0: 135 | sys.exit("The reference dataset folder's 'human_samples_oto.txt' dose not exist.") 136 | if 'mouse' in speciesSet: 137 | if len(glob.glob(os.path.join(opt.refDS, 'mouse_samples_oto.txt'))) == 0: 138 | sys.exit("The reference dataset folder's 'mouse_samples_oto.txt' dose not exist.") 139 | if 'combi' in speciesSet: 140 | if len(glob.glob(os.path.join(opt.refDS, 'hgmm_samples_oto.txt'))) == 0: 141 | sys.exit("The reference dataset folder's 'hgmm_samples_oto.txt' dose not exist.") 142 | 143 | #check coreNum 144 | maxCoreNum = multiprocessing.cpu_count() 145 | if opt.coreNum > maxCoreNum: 146 | sys.exit("There are only %s cores availble, less than %s cores." % (maxCoreNum, opt.coreNum)) 147 | 148 | #pass argument check, show input data 149 | print('===================================================') 150 | print('Input data:') 151 | if os.path.isdir(opt.splF): 152 | print('The folder of original sample annotation data: %s' % opt.splF) 153 | else: 154 | print('The FANTOM5 sample annotation file: %s' % opt.splF) 155 | print('The folder of reference dataset(s): %s' % opt.refDS) 156 | print('The number of cores to use: %s' % opt.coreNum) 157 | print('===================================================') 158 | 159 | #start to transfer original sample names 160 | main(splFileList, opt.refDS, opt.coreNum) 161 | #python toTerms.py --splF GSE81861_Cell_Line_COUNT/annotation_result_keep_all_genes --refDS FANTOM5 --coreNum 4 162 | -------------------------------------------------------------------------------- /visAnnos.py: -------------------------------------------------------------------------------- 1 | #!/usr/bin/env python2 2 | # -*- coding: utf-8 -*- 3 | """ 4 | Created on Thu Dec 6 11:24:49 2018 5 | 6 | @author: rhou 7 | """ 8 | 9 | import warnings 10 | warnings.filterwarnings("ignore") 11 | import argparse 12 | import pandas as pd 13 | import os, sys, glob 14 | from scipy import io 15 | 16 | def CalCords(savefolder, em, visMethod): 17 | cordFile = os.path.join(savefolder, 'cords_%s.csv' % visMethod) 18 | if os.path.exists(cordFile): 19 | cords = pd.read_csv(cordFile, index_col=0, header=0) 20 | return cords 21 | 22 | x = em.T.values 23 | from sklearn.preprocessing import StandardScaler 24 | x = StandardScaler().fit_transform(x) 25 | from sklearn.decomposition import PCA 26 | pca = PCA(n_components=10) 27 | principalComponents = pca.fit_transform(x) 28 | 29 | if visMethod == 'PCA': 30 | cords = pd.DataFrame(data = principalComponents[:,:2], columns = ['x', 'y'], index = em.columns) 31 | elif visMethod == 'tSNE': 32 | from sklearn.manifold import TSNE 33 | tsneComponents = TSNE(n_components=2).fit_transform(principalComponents) 34 | cords = pd.DataFrame(data = tsneComponents, columns = ['x', 'y'], index = em.columns) 35 | elif visMethod == 'UMAP': 36 | import umap 37 | umapComponents = umap.UMAP(n_components=2).fit_transform(principalComponents) 38 | cords = pd.DataFrame(data = umapComponents, columns = ['x', 'y'], index = em.columns) 39 | cords.index.name = 'barcode' 40 | cords.to_csv(cordFile, index=True, header=True) 41 | return cords 42 | 43 | def DrawScatters(savefolder, annoFile, visMethod, cords, annos): 44 | import plotly 45 | import plotly.graph_objs as go 46 | annText = os.path.basename(annoFile).split('.')[0] 47 | 48 | for kind in ['cell type', 'top sample']: 49 | if kind not in annos.columns: 50 | continue 51 | annotationList = sorted(list(set(annos.ix[:,kind]))) 52 | 53 | import seaborn as sns 54 | colorList = sns.hls_palette(n_colors=len(annotationList)) 55 | 56 | data = [] 57 | annoLen = 0 58 | for annoIdx in range(len(annotationList)): 59 | annoNames = annotationList[annoIdx] 60 | if len(annoNames) > annoLen: 61 | annoLen = len(annoNames) 62 | indicesOfAnno = annos[kind]==annoNames 63 | text = [] 64 | for idx in annos.index[indicesOfAnno]: 65 | show_text = '%s: %s, barcode: %s' % (kind, annoNames, idx) 66 | text.append(show_text) 67 | trace = go.Scatter( 68 | x = cords.ix[annos.index[indicesOfAnno],'x'], 69 | y = cords.ix[annos.index[indicesOfAnno],'y'], 70 | name = annoNames, 71 | mode = 'markers', 72 | marker=dict( 73 | color='rgb(%s, %s, %s)' % colorList[annoIdx], 74 | size=5, 75 | symbol='circle', 76 | line=dict( 77 | color='rgb(204, 204, 204)', 78 | width=1 79 | ), 80 | opacity=0.9 81 | ), 82 | text = text, 83 | ) 84 | data.append(trace) 85 | if annoLen < 35: 86 | layout = go.Layout(legend=dict(orientation="v"),autosize=True,showlegend=True) 87 | else: 88 | layout = go.Layout(legend=dict(orientation="v"),autosize=True,showlegend=False) 89 | fig = go.Figure(data=data, layout=layout) 90 | fn = os.path.join(savefolder, '%s_%s_%s.html' % (annText, kind.replace(' ', '_'), visMethod)) 91 | print('##########saving plot: %s' % fn) 92 | plotly.offline.plot(fig, filename=fn) 93 | 94 | #start to visualise test dataset 95 | def main(testFormat, testDS, annoFile, visMethod): 96 | #load test data 97 | print('##########loading test data') 98 | if testFormat == '10x': 99 | fileItem = glob.glob(os.path.join(testDS, "matrix.mtx"))[0] 100 | em = io.mmread(fileItem) 101 | em = em.tocsr().toarray() 102 | if os.path.exists(os.path.join(opt.testDS, 'genes.tsv')): 103 | row = pd.read_table(fileItem[:-10]+"genes.tsv", header=None, index_col=None) 104 | else: 105 | row = pd.read_table(fileItem[:-10]+"features.tsv", header=None, index_col=None) 106 | col = pd.read_table(fileItem[:-10]+"barcodes.tsv", header=None, index_col=None) 107 | em = pd.DataFrame(em, index=row.T.values[1], columns=col.T.values[0]) 108 | savefolder = testDS 109 | else: 110 | em = pd.read_csv(testDS, index_col=0, header=0) 111 | savefolder = testDS[:-4] 112 | 113 | print('##########reducing dimensions') 114 | cords = CalCords(savefolder, em, visMethod) 115 | annos = pd.read_csv(annoFile, index_col=0, header=0) 116 | commonIdx = set(cords.index).intersection(set(annos.index)) 117 | cords = cords.ix[commonIdx,] 118 | annos = annos.ix[commonIdx,] 119 | 120 | print('##########darwing the scatter plots in the folder: %s' % savefolder) 121 | DrawScatters(savefolder, annoFile, visMethod, cords, annos) 122 | print('##########DONE!') 123 | 124 | if __name__ == "__main__": 125 | 126 | #process arguments 127 | parser = argparse.ArgumentParser() 128 | parser.add_argument('--testDS', required=True, help='path to the folder of test dataset if dtype is 10x, otherwise, the path to the file') 129 | parser.add_argument('--dFormat', default='10x', help='10x (default) | csv') 130 | parser.add_argument('--annoFile', required=True, help='path to the annotation file generated by scMatch') 131 | parser.add_argument('--visMethod', default='p', help='p[ca] (default) | t[sne] | u[map]') 132 | 133 | opt = parser.parse_args() 134 | 135 | #check visMethod 136 | if opt.visMethod.lower() == "p": 137 | visMethod = 'PCA' 138 | elif opt.visMethod.lower() == "t": 139 | visMethod = 'tSNE' 140 | elif opt.visMethod.lower() == "u": 141 | visMethod = 'UMAP' 142 | else: 143 | sys.exit("The visMethod can only be 'p', 't' or 'u'.") 144 | 145 | #check dFormat and testDS 146 | if opt.dFormat.lower() == 'csv': 147 | if not os.path.exists(opt.testDS): 148 | sys.exit("The test dataset file does not exist.") 149 | if opt.testDS[-4:].lower() != '.csv': 150 | sys.exit("The test dataset file is not a CSV file.") 151 | elif opt.dFormat.lower() == '10x': 152 | if not os.path.exists(opt.testDS): 153 | sys.exit("The folder of test dataset does not exist.") 154 | if not os.path.exists(os.path.join(opt.testDS, 'matrix.mtx')): 155 | sys.exit("Cannot find 'matrix.mtx' file in the folder of test dataset.") 156 | if not os.path.exists(os.path.join(opt.testDS, 'genes.tsv')): 157 | if not os.path.exists(os.path.join(opt.testDS, 'features.tsv')): 158 | sys.exit("Cannot find 'genes.tsv' or 'features.tsv' file in the folder of test dataset.") 159 | if not os.path.exists(os.path.join(opt.testDS, 'barcodes.tsv')): 160 | sys.exit("Cannot find 'barcodes.tsv' file in the folder of test dataset.") 161 | 162 | #check annotation file 163 | if not os.path.exists(opt.annoFile): 164 | sys.exit("Cannot find annotation file for single cells.") 165 | 166 | #pass argument check, show input data 167 | print('===================================================') 168 | print('Input data:') 169 | print('The format of the test dataset: %s' % opt.dFormat) 170 | if opt.dFormat == '10x': 171 | print('Test data are in the folder: %s' % opt.testDS) 172 | else: 173 | print('Test data are in the file: %s' % opt.testDS) 174 | print('Annotation file: %s' % opt.annoFile) 175 | print('The visualisation method: %s' % visMethod) 176 | print('===================================================') 177 | 178 | #start to visualise test dataset 179 | main(opt.dFormat, opt.testDS, opt.annoFile, visMethod) 180 | #python visAnno.py --dFormat csv --testDS GSE81861_Cell_Line_COUNT.csv --annoFile GSE81861_Cell_Line_COUNT/annotation_result_keep_all_genes/human_Spearman_top_ann.csv 181 | --------------------------------------------------------------------------------