├── awesome_anatomy.md ├── contributing.md ├── CODE_OF_CONDUCT.md ├── LICENSE └── README.md /awesome_anatomy.md: -------------------------------------------------------------------------------- 1 | # Awesome Anatomy 2 | 3 | There are a massive number of known physiological objects in the human body. 4 | But since that massive number is _finite_, sooner or later someone is going to 5 | attempt to build a machine learning system to detect/segment/analyze 6 | **every single one**. 7 | 8 | By the nature of ML, the primary constraint is lack of data. Collectively, our sights are set on curating large, diverse, and high-quality annotated datasets for _each and every object_. 9 | 10 | The Awesome Anatomy project hopes to keep track of our progress on this. 11 | 12 | ## FAQ 13 | 14 | * [Why start with Abdomen?](#why-start-with-abdomen) 15 | * [Don't lists of medical data already exist?](#dont-lists-of-medical-data-already-exist) 16 | 17 | -- 18 | 19 | ### Why start with Abdomen? 20 | 21 | Why not? 22 | 23 | ### Don't lists of medical data already exist? 24 | 25 | Yes! Shoutout to: 26 | 27 | * kakoni for [Awesome Health](https://github.com/kakoni/awesome-healthcare) 28 | * awesomedata for [Awesome Public Datasets](https://github.com/awesomedata/awesome-public-datasets) 29 | * The NIH for [The Cancer Imaging Archive](http://www.cancerimagingarchive.net/) 30 | 31 | and more. 32 | 33 | **So how is this project different?** 34 | 35 | Previous lists have enumerated only _existing_ datasets. We see value in enumerating every _opportunity_ for a dataset, along the datasets in that area that have been made. We hope it will help codify a sense of how far we've come, and how far we have to go. 36 | -------------------------------------------------------------------------------- /contributing.md: -------------------------------------------------------------------------------- 1 | # Contribution Guidelines 2 | 3 | ## Medical Information Provenance 4 | 5 | If you see inaccurate or incomplete medical information, please [submit an issue](https://github.com/neheller/awesome-abdomen/issues)! 6 | 7 | ## Content Curation 8 | 9 | Please add content! This is a massive undertaking and we won't be able to do it alone. All pull requests are welcome. 10 | 11 | ## Organization 12 | 13 | We are very open to new ideas about formatting and organization. Feel free to [submit issues](https://github.com/neheller/awesome-abdomen/issues) with ideas about how to better structure the content. 14 | 15 | At present, decisions are being made arbitrarily to decide what objects deserve a "top-level" entry and which are mentioned within them. If you know of an established taxonomy for this, please [submit an issue](https://github.com/neheller/awesome-abdomen/issues) with a source. 16 | 17 | ### Structuring a "Conditions & Open Data" Section 18 | 19 | Each top-level entry should contain a **Conditions & Open Data** (C&OD) section. Within that section should be anunordered list that always starts with "Healthy Controls". 20 | 21 | Databases are always denoted by an anchor entry in the unordered list, but not all "level 2" entries need by databases. In prostate, for instance, there are a number of databases at level 2 under "Prostate Cancer", but Adenocarcinoma is also listed as a subset of prostate cancer with its own databases. This is allowed and should be utilized in cases where broad databases exist, in order to limit duplicate database entries. 22 | 23 | ### Structuring a Data Entry 24 | 25 | Databases can be included at any level in the C&OD other than 1. They must always take the following form 26 | 27 | - [Link to Database](#structuring-a-data-entry) 28 | - Feature 1 29 | - Feature 1 info 30 | - Feature 2 31 | - Feature 2 info 32 | - ... 33 | 34 | Where features describe in broad terms the type of data included. Feature info then contains more information about that feature. For instance, Feature 1 may be Radiology, and Feature 1 info might be which modalities (e.g. CT, MR). Feature info is preferred but optional. 35 | 36 | If a particular feature exists at a different URL, include that after the feature as shown below 37 | 38 | - [Link to Database](#structuring-a-data-entry) 39 | - Feature 1 40 | - Feature 1 info 41 | - Feature 2 ([separate url](#structuring-a-data-entry)) 42 | - Feature 2 info 43 | - ... 44 | 45 | **NOTE:** Please do not directly edit the table of contents. It is autogenerated by the headings. If your editor does not have this feature, it will be done as an amendment to your pull request. -------------------------------------------------------------------------------- /CODE_OF_CONDUCT.md: -------------------------------------------------------------------------------- 1 | # Contributor Covenant Code of Conduct 2 | 3 | ## Our Pledge 4 | 5 | In the interest of fostering an open and welcoming environment, we as 6 | contributors and maintainers pledge to making participation in our project and 7 | our community a harassment-free experience for everyone, regardless of age, body 8 | size, disability, ethnicity, sex characteristics, gender identity and expression, 9 | level of experience, education, socio-economic status, nationality, personal 10 | appearance, race, religion, or sexual identity and orientation. 11 | 12 | ## Our Standards 13 | 14 | Examples of behavior that contributes to creating a positive environment 15 | include: 16 | 17 | * Using welcoming and inclusive language 18 | * Being respectful of differing viewpoints and experiences 19 | * Gracefully accepting constructive criticism 20 | * Focusing on what is best for the community 21 | * Showing empathy towards other community members 22 | 23 | Examples of unacceptable behavior by participants include: 24 | 25 | * The use of sexualized language or imagery and unwelcome sexual attention or 26 | advances 27 | * Trolling, insulting/derogatory comments, and personal or political attacks 28 | * Public or private harassment 29 | * Publishing others' private information, such as a physical or electronic 30 | address, without explicit permission 31 | * Other conduct which could reasonably be considered inappropriate in a 32 | professional setting 33 | 34 | ## Our Responsibilities 35 | 36 | Project maintainers are responsible for clarifying the standards of acceptable 37 | behavior and are expected to take appropriate and fair corrective action in 38 | response to any instances of unacceptable behavior. 39 | 40 | Project maintainers have the right and responsibility to remove, edit, or 41 | reject comments, commits, code, wiki edits, issues, and other contributions 42 | that are not aligned to this Code of Conduct, or to ban temporarily or 43 | permanently any contributor for other behaviors that they deem inappropriate, 44 | threatening, offensive, or harmful. 45 | 46 | ## Scope 47 | 48 | This Code of Conduct applies both within project spaces and in public spaces 49 | when an individual is representing the project or its community. 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Check out our [Contribution Guidelines](contributing.md) and fix it! 10 | 11 | ## Table of Contents 12 | 13 | - [Awesome Abdomen](#awesome-abdomen) 14 | - [Table of Contents](#table-of-contents) 15 | - [Digestive Tract](#digestive-tract) 16 | - [Stomach](#stomach) 17 | - [Small Intestine](#small-intestine) 18 | - [Large Intestine](#large-intestine) 19 | - [Appendix](#appendix) 20 | - [Accesories to Digestive Tract](#accesories-to-digestive-tract) 21 | - [Liver](#liver) 22 | - [Gallbladder](#gallbladder) 23 | - [Pancreas](#pancreas) 24 | - [Urinary System](#urinary-system) 25 | - [Kidneys](#kidneys) 26 | - [Ureters](#ureters) 27 | - [Urinary Bladder](#urinary-bladder) 28 | - [Other Organs](#other-organs) 29 | - [Spleen](#spleen) 30 | - [Uterus](#uterus) 31 | - [Prostate](#prostate) 32 | - [Adrenal Glands](#adrenal-glands) 33 | - [Bones](#bones) 34 | - [Lumbar Vertebrae](#lumbar-vertebrae) 35 | - [Ribs](#ribs) 36 | - [Pelvis](#pelvis) 37 | - [Veins](#veins) 38 | - [Inferior Vena Cava](#inferior-vena-cava) 39 | - [Renal Veins](#renal-veins) 40 | - [Gonadal Veins](#gonadal-veins) 41 | - [Hepatic Veins](#hepatic-veins) 42 | - [Portal Vein](#portal-vein) 43 | - [Arteries](#arteries) 44 | - [Abdominal Descending Aorta](#abdominal-descending-aorta) 45 | - [Renal Arteries](#renal-arteries) 46 | - [Gonadal Arteries](#gonadal-arteries) 47 | - [Celiac Artery](#celiac-artery) 48 | - [Common Hepatic Artery](#common-hepatic-artery) 49 | - [Gastroduodenal Artery](#gastroduodenal-artery) 50 | - [Right Gastric Artery](#right-gastric-artery) 51 | - [Left Gastric Artery](#left-gastric-artery) 52 | - [Hepatic Artery Proper](#hepatic-artery-proper) 53 | - [Splenic Artery](#splenic-artery) 54 | - [Muscles](#muscles) 55 | - [Rectus Abdominis](#rectus-abdominis) 56 | - [Transverse Abdominal](#transverse-abdominal) 57 | - [Quadratus Lumborum](#quadratus-lumborum) 58 | - [External Oblique](#external-oblique) 59 | - [Internal Oblique](#internal-oblique) 60 | - [Fat](#fat) 61 | - [Subcutaneous](#subcutaneous) 62 | - [Extraperitoneal](#extraperitoneal) 63 | - [Membranes](#membranes) 64 | - [Skin](#skin) 65 | - [Peritoneum](#peritoneum) 66 | - [Omentum](#omentum) 67 | - [Masentry](#masentry) 68 | - [Outer Fascia](#outer-fascia) 69 | - [Inner Fascia](#inner-fascia) 70 | - [Falciform Ligament](#falciform-ligament) 71 | 72 | ## Digestive Tract 73 | 74 | The Digestive Tract is an organ system which takes in food, extracts energy and nutrients, and expels the remaining waste as feces. [Wikipedia](https://en.wikipedia.org/wiki/Gastrointestinal_tract) 75 | 76 | ### Stomach 77 | 78 | The stomach is located between the oesophegus and the small intestine. It secretes enzymes and acid to aid in digestion. [Wikipedia](https://en.wikipedia.org/wiki/Stomach) 79 | 80 | **Conditions & Open Data** 81 | 82 | - Healthy Controls 83 | - Stomach Adenocarcinoma 84 | - [TCGA-STAD](https://wiki.cancerimagingarchive.net/display/Public/TCGA-STAD) 85 | - Radiology 86 | - CT 87 | - Pathology 88 | - WSI 89 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-STAD)) 🔵 90 | - Clinical Data 91 | - Lymphoma 92 | - GIST 93 | - Gastrointestinal Carcinoid Tumors 94 | - Gastritis 95 | - Gastroenteritis 96 | - Gastroparesis 97 | - Non-ulcer Dyspepsia 98 | - Peptic Ulcers 99 | 100 | ### Small Intestine 101 | 102 | Also known as the small bowel, the small intestine lies between the stomach and the large intestine, and it consists of three distinct regions: the duodenum, jejunum, and the ileum. The primary function of the small intestine is the absorbtion of nutrients and minearals from food. [Wikipedia](https://en.wikipedia.org/wiki/Small_intestine) 103 | 104 | **Conditions & Open Data** 105 | 106 | - Healthy Controls 107 | - Celiac Disease 108 | - Bowel Obstruction 109 | - Inflamatory Bowel Disease 110 | - Small Intestinal Bacterial Overgrowth 111 | 112 | ### Large Intestine 113 | 114 | Also known as the large bowel, the large intestine is the final part of the GI tract. In the order in which waste material travels through, it consists of cecum, ascending colon, transverse colon, descending colon, sigmoid colon, rectum, and anal canal. It's primary purpose is absorbtion of water from waste material and storing feces. [Wikipedia](https://en.wikipedia.org/wiki/Large_intestine) 115 | 116 | **Conditions & Open Data** 117 | 118 | - Healthy Controls 119 | - Inflammatory Bowel Disease 120 | 121 | ### Appendix 122 | 123 | The appendix is a finger-like tube connected to the cecum at the junction of the small and large intestines. It is often considered to be a vestigial organ due to the lack of side effects upon its removal, but there is evidence to suggest that it supports the growth of useful intestinal bacteria. [Wikipedia](https://en.wikipedia.org/wiki/Appendix_(anatomy)) 124 | 125 | **Conditions & Open Data** 126 | 127 | - Healthy Controls 128 | - Appendicitis 129 | - Fecalith 130 | - Carcinoid Tumors 131 | - Adenocarcinoid Tumors 132 | - Goblet Cell Carcinomas 133 | - Colonic-Type Adenocarcinoma 134 | - Non-carcinoid Appendix Tumors 135 | - Signet-Ring Cell Adenocarcinoma 136 | 137 | ## Accesories to Digestive Tract 138 | 139 | These are organs which are not considered to be part of the digestive tract itself, but are nonetheless instrumental to digestion. 140 | 141 | ### Liver 142 | 143 | The liver is located in the right upper abdomen below the diaphram. It produces biochemicals for digestion, regulates glycogen storage, red blood cell decomposition, and hormone production. [Wikipedia](https://en.wikipedia.org/wiki/Liver) 144 | 145 | **Conditions & Open Data** 146 | 147 | - Healthy Controls 148 | - [CHAOS Challenge Data](https://zenodo.org/record/3431873) 149 | - Radiology 150 | - CT, MR 151 | - Segmentations of Kidneys, Liver, and Spleen 🔷 152 | - Hepatocellular Carcinoma 153 | - [LiTS Challenge Data](https://competitions.codalab.org/competitions/17094) 154 | - Radiology 155 | - CT + Segmentations 🔷 156 | - [TCGA-LIHC](https://wiki.cancerimagingarchive.net/display/Public/TCGA-LIHC) 157 | - Radiology 158 | - MR, CT, PT 159 | - Pathology 160 | - WSI 161 | - Clinical Data 162 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-LIHC)) 🔵 163 | - Cholangiocarcinoma 164 | - Angiosarcoma 165 | - Hemoblastoma 166 | - Hepatitis A 167 | - Hepatitis B 168 | - Hepatitis C 169 | - Autoimmune Hepatitis 170 | - Primary Biliary Cirrhosis 171 | - Primary Sclerosing Cholangitis 172 | - Hemochromatosis 173 | - Hyperoxaluria 174 | - Oxalosis 175 | - Wilson's Disease 176 | - Alpha-1 Antritrypsin Deficiency 177 | - Chronic Alcohol Abuse 178 | - Nonalcoholis Fatty Liver Disease 179 | 180 | ### Gallbladder 181 | 182 | The gallbladder is a small organ which lies beneath the liver. It receives and stores bile from the liver, and rleases it into the duodenum where it helps in the digestion of fats. [Wikipedia](https://en.wikipedia.org/wiki/Gallbladder) 183 | 184 | **Conditions & Open Data** 185 | 186 | - Healthy Controls 187 | - Gallbladder Cancer 188 | - Gallstones 189 | - Cholecystitis 190 | - Choledocholithiasis 191 | - Acalculous Gallbladder Disease 192 | - Biliary Dyskinesia 193 | - Sclerosing Cholangitis 194 | - Gallbladder Polyps 195 | - Gangrene of the Gallbladder 196 | - Abscess of the Gallbladder 197 | 198 | ### Pancreas 199 | 200 | The pancreas is located in the abdominal cavity behind the stomach. It secretes 201 | several hormones into blood including insulin, as well as pancreatic juice into 202 | the duodenum. [Wikipedia](https://en.wikipedia.org/wiki/Pancreas) 203 | 204 | **Conditions & Open Data** 205 | 206 | - Healthy Controls 207 | - [NIH Clinical Center Pancreas-CT](https://wiki.cancerimagingarchive.net/display/Public/Pancreas-CT) 208 | - Radiology 209 | - CT + Segmentations 🔷 210 | - Ductal Adenocarcinoma 211 | - [CPTAC-PDA](https://wiki.cancerimagingarchive.net/display/Public/CPTAC-PDA) 212 | - Radiology 213 | - CT, MR, DX, CR 214 | - Pathology 215 | - WSI 216 | - Proteomics 217 | - Clinical Data 218 | - Neoendocrine Tumor 219 | - Intraductal Papillary Mucinous Neoplasm 220 | - Pancreatitis 221 | - Type 1 Diabetes 222 | - Hypertriglyceridemia 223 | - Pancreatic Cyst 224 | - Cystic Fibrosis 225 | 226 | ## Urinary System 227 | 228 | The urinary system serves several purposes, including the elimination of waste, the regulation of blood volume and pressure, the regulation of levels of electrolytes adn metabolites, and the regulation of blood pH. [Wikipedia](https://en.wikipedia.org/wiki/Urinary_system) 229 | 230 | ### Kidneys 231 | 232 | The kidneys are two bean-shaped organs located on the left and right in the retroperitoneal space. Kidneys' primary function is filtration of blood plasma, but they are also responsible for the synthesis of certain hormones and the conversion of vitamin D to calcitriol. [Wikipedia](https://en.wikipedia.org/wiki/Kidney) 233 | 234 | **Conditions & Open Data** 235 | 236 | - Healthy Controls 237 | - [CHAOS Challenge Data](https://zenodo.org/record/3431873) 238 | - Radiology 239 | - CT, MR 240 | - Segmentations of Kidneys, Liver, and Spleen 🔷 241 | - Renal Tumors (Various Types) 242 | - [KiTS19](https://github.com/neheller/kits19) 243 | - Radiology 244 | - CT 245 | - Segmentations of Kidneys and Kidney Tumors 🔷 246 | - Renal Clear Cell Carcinoma 247 | - [CPTAC-CCRCC](https://wiki.cancerimagingarchive.net/display/Public/CPTAC-CCRCC) 248 | - Radiology 249 | - CT, MR 250 | - Pathology 251 | - WSI 252 | - Proteomics 253 | - [TCGA-KIRC](http://dx.doi.org/10.7937/K9/TCIA.2016.V6PBVTDR) 254 | - Radiology 255 | - CT, MR, CR 256 | - Pathology 257 | - WSI 258 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-KIRC)) 🔵 259 | - Renal Papillary Carcinoma 260 | - [TCGA-KIRP](http://dx.doi.org/10.7937/K9/TCIA.2016.ACWOGBEF) 261 | - Radiology 262 | - CT, MR, PT 263 | - Pathology 264 | - WSI 265 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-KIRP)) 🔵 266 | - Renal Chromophobe Carcinoma 267 | - [TCGA-KICH](http://dx.doi.org/10.7937/K9/TCIA.2016.YU3RBCZN) 268 | - Radiology 269 | - CT, MR 270 | - Pathology 271 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-KICH)) 🔵 272 | - Transitional Cell Carcinoma 273 | - Sarcoma 274 | - Wilms Tumor 275 | - Lymphoma 276 | - Renal Cyst 277 | - Cystic Kidney Disease 278 | - Polycystic Kidney Disease 279 | - Automsomal Dominant Polycystic Kidney Disease 280 | - Autosomal Recessive Polycystic Kidney Disease 281 | - Multicystic Dysplastic Kidney 282 | - Nephritis 283 | - Pyelonephritis 284 | - Interstitial Nephritis 285 | - Glomerulonephritis 286 | - Lupus Nephritis 287 | - Diabetic Nephropathy 288 | - IgA Nephropathy 289 | - Hematuria 290 | - Uremia 291 | - Neprotic Syndrom 292 | - Goodpasture Syndrome 293 | - Alport Syndrome 294 | - Amyloidosis 295 | - Atherosclerosis 296 | - Renal Tubular Acidosis 297 | - Focal Segmental Glomerulosclerosis 298 | - Renal Artery Stenosis 299 | - Chronic Kidney Disease 300 | - Henoch-Schonlein Pupura 301 | - Medullary Sponge Kidney 302 | - Vesicoureteral Reflux 303 | - Urinary Tract Obstruction 304 | - Urinary Tract Infection 305 | - Acute Kidney Injury 306 | - Kidney Stone 307 | 308 | ### Ureters 309 | 310 | The ureters are tubes that run from the kidneys to the urinary bladder. Their purpose is to carry fluid extracted by the kidneys to the bladder for excretion. [Wikipedia](https://en.wikipedia.org/wiki/Ureter) 311 | 312 | **Conditions & Open Data** 313 | 314 | - Healthy Controls 315 | - Urinary Tract Obstruction 316 | - Vesicoureteral Reflux 317 | - Hydronephrosis 318 | - Kidney Stones 319 | - Ureterocele 320 | - Calculus 321 | - Retroperitoneal Fibrosis 322 | - Duplicated Ureter 323 | - Ectopic Ureter 324 | - Transitional Cell Carcinoma (see [Kidneys](#kidneys)) 325 | - Megaureter 326 | - Bladder Outlet Obstruction 327 | - Renal Colic 328 | - Ureteritis 329 | 330 | ### Urinary Bladder 331 | 332 | The urinary bladder, often simply called bladder, is a distensible organ that sits on the pelvic floor. It's purpose is to store urine from the ureters until it exits through the urethra. [Wikipedia](https://en.wikipedia.org/wiki/Urinary_bladder) 333 | 334 | **Conditions & Open Data** 335 | 336 | - Healthy Controls 337 | - Urothelial Carcinoma 338 | - [TCGA-BLCA](https://wiki.cancerimagingarchive.net/display/Public/TCGA-BLCA) 339 | - Radiology 340 | - CT, CR, MR, PT 341 | - Pathology 342 | - WSI 343 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-BLCA)) 🔵 344 | - Clinical Information 345 | - Squamous Cell Carcinoma 346 | - Adenocarcinoma 347 | - Urinary Tract Infection 348 | - Interstitial Cystitis 349 | - Overactive Bladder 350 | - Cystocele 351 | - Urinary Incontinence 352 | - Hematuria 353 | - Urinary Retention 354 | - Neurogenic Bladder Dysfunction 355 | - Stones 356 | - Benign Prostatic Hyperplasia 357 | - Pyelonephritis 358 | - Vesiocoureteral Reflux 359 | - Stress Incontinence 360 | - Nocturia 361 | - Nocturnal Enuresis 362 | - Hunner's Ulcer 363 | - Bladder Exstrophy 364 | - Prolapse 365 | - Urethritis 366 | - Hydronephrosis 367 | 368 | ## Other Organs 369 | 370 | Organs which don't fit nicely into any of the other categories. Ideas for better organizing this data [are welcome](https://github.com/neheller/awesome-abdomen/issues). 371 | 372 | ### Spleen 373 | 374 | The spleen is a purple organ in the left upper quadrant of the abdomen, and it plays important roles with regard to red blood cells, and the immune system. It removes old red blood cells, holds a reserve of them, and recycles iron, and its immune function is to metabolize hemoglobin. [Wikipedia](https://en.wikipedia.org/wiki/Spleen) 375 | 376 | **Conditions & Open Data** 377 | 378 | - Healthy Controls 379 | - [CHAOS Challenge Data](https://zenodo.org/record/3431873) 380 | - Radiology 381 | - CT, MR 382 | - Segmentations of Kidneys, Liver, and Spleen 🔷 383 | - Lymphoma 384 | - Leukemia 385 | - Splenomegaly 386 | - Splenic Injury 387 | - Gaucher's Disease 388 | - Infectious Mononucleosis 389 | - Hemolytic Anemia 390 | - Hereditary Spherocytosis 391 | - Asplenia 392 | - Spenic Infarction 393 | - Portal Hypertension 394 | - Myelofibrosis 395 | - Accessory Spleen 396 | - Wandering Spleen 397 | - Infantile Hemangioma 398 | - Extramedullary Hematopoiesis 399 | 400 | ### Uterus 401 | 402 | Also known as the womb, the uterus is an organ of the female reproductive system. The superior end (the fundus) is connected to the fallopian tubes while the inferior end (the cervix) opens to the vagina. [Wikipedia](https://en.wikipedia.org/wiki/Uterus) 403 | 404 | **Conditions & Open Data** 405 | 406 | - Healthy Controls 407 | - Uterine Sarcoma 408 | - Endometrial Carcinoma 409 | - [CPTAC-UCEC](http://doi.org/10.7937/K9/TCIA.2018.3R3JUISW) 410 | - Radiology 411 | - CT, MR, PT, CR 412 | - Pathology 413 | - WSI 414 | - [TCGA-UCEC](http://dx.doi.org/10.7937/K9/TCIA.2016.GKJ0ZWAC) 415 | - Radiology 416 | - CT, CR, MR, PT 417 | - Pathology 418 | - WSI 419 | - Clinical Information 420 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-UCEC)) 🔵 421 | - Adenocarcinoma 422 | - Carcinosarcoma 423 | - Squamous Cell Carcinoma 424 | - Undifferentiated Carcinoma 425 | - Small Cell Carcinoma 426 | - Transitional Carcinoma 427 | - Uterine Fibroid 428 | - Endometrial Polyp 429 | - Cervical Cancer 430 | - Ednometriosis 431 | - Endometritis 432 | - Menorrhagia 433 | - Adenomyosis 434 | - Endometrial Hyperplasia 435 | - Ectopic Pregnancy 436 | - Dysmenorrhea 437 | - Metritits 438 | - Pyometra 439 | - Prolapse 440 | - Leiomyoma 441 | - Asherman's Syndrome 442 | - Cercivitis 443 | - Adhesion 444 | - Retained Placenta 445 | - Pelvic Organ Prolapse 446 | - Obstructed Labor 447 | - Uterus Didelphys 448 | - Ovarian Cyst 449 | - Uterine Rupture 450 | - Uterine Malformation 451 | - Fibroma 452 | - Stenosis of Uterine Cervix 453 | - Retroverted Uterus 454 | - Postpartum Bleeding 455 | - Hematometra 456 | - Bicornuate Uterus 457 | - Unicornuate Uterus 458 | 459 | ### Prostate 460 | 461 | The prostate is a exocrine gland of the male reproductive system which sits between the bladder and the penis. The purpose of the prostate is to secrete an alkaline fluid constituting roughly 30% of the volume of semen, helping to neutralize the acidity of the vaginal tract. [Wikipedia](https://en.wikipedia.org/wiki/Prostate) 462 | 463 | **Conditions & Open Data** 464 | 465 | - Healthy Controls 466 | - Prostate Cancer 467 | - [PROSTATEx Challenge](https://wiki.cancerimagingarchive.net/display/Public/SPIE-AAPM-NCI+PROSTATEx+Challenges#83450a9eb4144751b38cb85f7abcb711) 468 | - Radiology 469 | - MR 470 | - Lesion Locations 471 | - Clinical Information 472 | - [Prostate-Fused-MRI-Pathology](https://wiki.cancerimagingarchive.net/display/Public/Prostate+Fused-MRI-Pathology) 473 | - Radiology 474 | - MR 475 | - Pathology 476 | - WSI + Segmentations 🔷 477 | - [QIN-Prostate-Repeatability](https://wiki.cancerimagingarchive.net/display/Public/QIN-PROSTATE-Repeatability) 478 | - Longitudinal (test-retest study with ~2 week interval) 479 | - Radiology 480 | - MR: T2w, DWI, DCE, ADC 481 | - Segmentations of prostate gland, peripheral zone, and lesion and normal tissue regions based on radiological appearance 🔷 482 | - Adenocarcinoma 483 | - [TCGA-PRAD](https://wiki.cancerimagingarchive.net/display/Public/TCGA-PRAD#46af39dce8ee4f3eafa3f5305d907abc) 484 | - Radiology 485 | - CT, PT, MR 486 | - Pathology 487 | - Clinical Data 488 | - Genomics ([separate url](https://portal.gdc.cancer.gov/projects/TCGA-PRAD)) 🔵 489 | - Acinar Adenocarcinoma 490 | - Ductal Adenocarcinoma 491 | - Transitional Cell 492 | - Squamous Cell 493 | - Small Cell 494 | - Benign Prostatic Hyperplasia 495 | - Chronic Prostatitis 496 | - Acute Prostatitis 497 | - Hematuria 498 | - Bladder Outlet Obstruction 499 | 500 | ### Adrenal Glands 501 | 502 | The adrenal glands are endocrine glands that lie superior to the kidneys, hence they are sometimes called the "suprarenal glands". They produce a variety of hormones such as adrenaline, and steroids such as aldosterone and cortisol. [Wikipedia](https://en.wikipedia.org/wiki/Adrenal_gland) 503 | 504 | **Conditions & Open Data** 505 | 506 | - Healthy Controls 507 | - Adrenal Tumor 508 | - Adrenocortical Carcinoma 509 | - Pheochromocytoma 510 | - Cushing's Syndrome 511 | - Adrenal Crisis 512 | - Primary Aldosteronism 513 | - Congenital Adrenal Hyperplasia 514 | - Adrenal Inusfficiency 515 | - Adrenoleukodystrophy 516 | - Addison's Disease 517 | - Hyperaldosteronism 518 | 519 | ## Bones 520 | 521 | Bones are rigid organs which constitue the skeleton. The purpose of bones is to support and protect other organs, produce red and white blood cells, store minerals, and enable mobility. [Wikipedia](https://en.wikipedia.org/wiki/Bone) 522 | 523 | ### Lumbar Vertebrae 524 | 525 | The lumbar vertebrae are the five vertebrae between the rib cage and pelvis. They help to support the weight of the body and permit movement. [Wikipedia](https://en.wikipedia.org/wiki/Lumbar_vertebrae) 526 | 527 | **Conditions & Open Data** 528 | 529 | - Healthy Controls 530 | - Spinal Tumor 531 | - Degenerative Disc Disease 532 | - Splan Disc Herniation 533 | - Spondylolisthesis 534 | - Spondylosis 535 | - Spondylolysis 536 | - Spondylitis 537 | - Spinal Fracture 538 | - Vertical Compression Fracture 539 | - Lumbar Disc Disease 540 | - Lumbar Spinal Stenosis 541 | - Disc protrusion 542 | 543 | ### Ribs 544 | 545 | Ribs are long curved bones which form the rib cage surrounding the chest. They serve to protect the internal organs of the thorax while allowing the lungs to expand during respiration. [Wikipedia](https://en.wikipedia.org/wiki/Rib) 546 | 547 | **Conditions & Open Data** 548 | 549 | - Healthy Controls 550 | - Pancoast Tumor 551 | - Rib Fracture 552 | - Tietze Syndrome 553 | - Fibrous Dysplasia of Bone 554 | - Hypoplasia 555 | - Flail Chest 556 | - Preiosteal Reaction 557 | - Pectus Excavatum 558 | - Thoracic Outlet Syndrome 559 | - Cervical Rib 560 | - Asphyxiating Thoracic Dysplasia 561 | - Short Rib 562 | - Bifid Rib 563 | - Pulmonary Contusion 564 | - Microtia 565 | - Spondylocostal Dysostosis 566 | 567 | ### Pelvis 568 | 569 | The pelvis is the skeletal structure in the lower part of the human body between the abdomen and thighs. The pelvis serves as a connection between the spine and the lower limbs, and it creates a cavity mainly for reproductive organs. [Wikipedia](https://en.wikipedia.org/wiki/Pelvis) 570 | 571 | **Conditions & Open Data** 572 | 573 | - Healthy Controls 574 | - Pelvic Fractures 575 | - Osteitis Pubis 576 | - Metastatic Bone Disease of the Pelvis 577 | - Vanishing Bone Disease Involving the Pelvis 578 | 579 | ## Veins 580 | 581 | Veins are blood vessels that carry blood toward the heart. Most veins carry deoxygenated blood from the tissues back to the heart, but some veins including pulmonary and umbilical veins carry oxygenated blood. [Wikipedia](https://en.wikipedia.org/wiki/Vein) 582 | 583 | ### Inferior Vena Cava 584 | 585 | The Inferior Vena Cava (IVC) is a large vein which carries deoxygenated blood from the lower and middle body back to the heart. In the direction of flow, it begins where the left and right iliac veins join, and ends where it enters the right atrium of the heart. [Wikipedia](https://en.wikipedia.org/wiki/Inferior_vena_cava) 586 | 587 | **Conditions & Open Data** 588 | 589 | - Healthy Controls 590 | - Leimyosarcoma of the IVC 591 | - Double Inferior Vena Cava 592 | - Inferior Vena Cava Syndrome 593 | 594 | ### Renal Veins 595 | 596 | The Renal Veins are the veins that carry filtered blood away from the kidney to the inferior vena cava. [Wikipedia](https://en.wikipedia.org/wiki/Renal_vein) 597 | 598 | **Conditions & Open Data** 599 | 600 | - Healthy Controls 601 | - Renal Vein Thrombosis 602 | - Renal Nutcracker Syndrome 603 | 604 | ### Gonadal Veins 605 | 606 | The gonadal veins are the blood vessels that carrie blood away from the testis (male) or ovaries (female) to the inferior vena cava. [Wikipedia](https://en.wikipedia.org/wiki/Gonadal_vein) 607 | 608 | **Conditions & Open Data** 609 | 610 | - Healthy Controls 611 | - Pelvic Vein Disease 612 | - Pelvic Venous Congestion Syndrome 613 | - Ovarian Vein Syndrome 614 | - Female Gonadal Vein Insufficiency 615 | - Gonadal Vein Thrombosis 616 | 617 | ### Hepatic Veins 618 | 619 | The hepatic veins are the blood vessels that carrie blood away from the liver and into the inferior vena cava. There are usually three hepatic veins draining from the left, middle, and right parts of the liver. [Wikipedia](https://en.wikipedia.org/wiki/Hepatic_veins) 620 | 621 | **Conditions & Open Data** 622 | 623 | - Healthy Controls 624 | - Budd-Chiari Syndrome 625 | - Hepatic Veno-occlusive Disease 626 | 627 | ### Portal Vein 628 | 629 | Also known as the hepatic portal vein, the portal vein is a blood vessel that carries blood with nutrients and toxins from the GI tract, gallbladder, pancreas, and spleen to the liver. The portal vein accounts for roughly 75% of liver blood flow. [Wikipedia](https://en.wikipedia.org/wiki/Portal_vein) 630 | 631 | **Conditions & Open Data** 632 | 633 | - Healthy Controls 634 | - Portal Venous Gas 635 | - Portosystemic Shunt 636 | - Portal Hypertension 637 | - Portal Vein Thrombosis 638 | - Pylephlebitis 639 | - Gastric Varices 640 | - Non-cirrhotic Portal Fibrosis 641 | 642 | ## Arteries 643 | 644 | Arteries are blood vessels that take blood away from the heart. Most arteries carry oxygenated blood, with the exception of the pulmonary and umbilical arteries. [Wikipedia](https://en.wikipedia.org/wiki/Artery) 645 | 646 | ### Abdominal Descending Aorta 647 | 648 | The descending aorta is the largest artery in the body, running from the heart down to where it splits into the two common iliac arteries. It's purpose is to carry oxygenated blood to tissue in the middle and lower parts of the body. There is a large thoracic component to the descending aorta, but here we concern ourselves with only the abdominal component. [Wikipedia](https://en.wikipedia.org/wiki/Descending_aorta) 649 | 650 | **Conditions & Open Data** 651 | 652 | - Healthy Controls 653 | - Abdominal Aortic Dissection 654 | - Abdominal Aortic Aneurysm 655 | - Abdominal Aortic Atherosclerosis 656 | 657 | ### Renal Arteries 658 | 659 | The renal arteries are blood vessel arising from the left interior of the abdominal aorta and ending where they branch into capillaries in the renal hilum. These arteries carry as much as a third of all cardiac output through the kidneys for filtration. [Wikipedia](https://en.wikipedia.org/wiki/Renal_artery) 660 | 661 | **Conditions & Open Data** 662 | 663 | - Healthy Controls 664 | - Renal Artery Stenosis 665 | - Bruit 666 | - Renal Artery Cholesterol Embolism 667 | - Renovascular Hypertension 668 | - Renal Artery Vasculaitis 669 | - Fibromuscular Dysplasia 670 | - Renal Artery Dissection 671 | 672 | ### Gonadal Arteries 673 | 674 | The gonadal arteries arise from the abdominal aorta and end at each testical (male) or ovary (female). Their purpose is to supply oxygenated blood to the gonads. [Wikipedia](https://en.wikipedia.org/wiki/Gonadal_artery) 675 | 676 | **Conditions & Open Data** 677 | 678 | - Healthy Controls 679 | - Gonadal Artery Aneurysm 680 | - 681 | 682 | ### Celiac Artery 683 | 684 | Also known as the celiac trunk, the celiac artery is the first major branch of the abdominal aorta around thoracic vertebrae 12. It terminates where it splits into the left gastric artery, the common hepatic artery, and the splenic artery. [Wikipedia](https://en.wikipedia.org/wiki/Celiac_artery) 685 | 686 | **Conditions & Open Data** 687 | 688 | - Healthy Controls 689 | - Celiac Artery Dissection 690 | - Celiac Artery Aneurysm 691 | - Celiac Artery Stenosis 692 | 693 | ### Common Hepatic Artery 694 | 695 | The common hepatic artery is a blood vessel that supplies oxygenated blood to the liver, pylorus of the stomach, duodenum, pancreas, and gallbladder. It arises from the celiac artery and branches into the hepatic artery proper, the gastroduodenal artery, and the right gastric artery. [Wikipedia](https://en.wikipedia.org/wiki/Common_hepatic_artery) 696 | 697 | **Conditions & Open Data** 698 | 699 | - Healthy Controls 700 | 701 | ### Gastroduodenal Artery 702 | 703 | The gastroduodenal artery is a small blood vessel in the abdomen that supplies blood directly to the pylorus and duodenum, and indirectly to the pancreatic head. It typically arises from the common hepatic artery and terminates when it splits into the right gastroepiploic arter and the anterior superior pancreaticoduodenal artery. [Wikipedia](https://en.wikipedia.org/wiki/Gastroduodenal_artery) 704 | 705 | **Conditions & Open Data** 706 | 707 | - Healthy Controls 708 | - Peptic Ulcer Disease 709 | - Gastroduodenal Artery Aneurysm 710 | - Gastroduodenal Artery Dissection 711 | 712 | ### Right Gastric Artery 713 | 714 | The right gastric artery arises from the common hepatic artery and supplies oxygenated blood to the pyloric end of the stomach along its lesser curvature, until it terminates by anastamosing with the left gastric artery. [Wikipedia](https://en.wikipedia.org/wiki/Right_gastric_artery) 715 | 716 | **Conditions & Open Data** 717 | 718 | - Healthy Controls 719 | - Right Gastric Artery Aneurysm 720 | - Right Gastric Artery Dissection 721 | 722 | ### Left Gastric Artery 723 | 724 | The left gastric artery arises from the celiac artery and supplies oxygenated blood to the stomach along the superior portion of its lesser curvature, until it terminates by anastamosing with the right gastric artery. [Wikipedia](https://en.wikipedia.org/wiki/Left_gastric_artery) 725 | 726 | **Conditions & Open Data** 727 | 728 | - Healthy Controls 729 | - Left Gastric Artery Aneurysm 730 | - Left Gastric Artery Dissection 731 | 732 | ### Hepatic Artery Proper 733 | 734 | Also called the proper hepatic artery, the hepatic artery proper arises from the common hepatic artery and supplies the liver and gallbladder. [Wikipedia](https://en.wikipedia.org/wiki/Hepatic_artery_proper) 735 | 736 | **Conditions & Open Data** 737 | 738 | - Healthy Controls 739 | - Hepatic Artery Proper Stenosis 740 | - Hepatic Artery Proper Aneurysm 741 | - Hepatic Artery Proper Dissection 742 | 743 | ### Splenic Artery 744 | 745 | The splenic artery (formerly called the lienal artery) supplies oxygenated blood to the spleen. It arises from the celiac artery and runs superior to the pancreas. [Wikipedia](https://en.wikipedia.org/wiki/Splenic_artery) 746 | 747 | **Conditions & Open Data** 748 | 749 | - Healthy Controls 750 | - Splenic Artery Aneurysm 751 | - Splenic Artery Pseudoaneurysm 752 | - Splenic Artery Dissection 753 | - Splenic Artery Stenosis 754 | 755 | ## Muscles 756 | 757 | ### Rectus Abdominis 758 | 759 | TODO 760 | 761 | **Conditions & Open Data** 762 | 763 | - Healthy Controls 764 | 765 | ### Transverse Abdominal 766 | 767 | TODO 768 | 769 | **Conditions & Open Data** 770 | 771 | - Healthy Controls 772 | 773 | ### Quadratus Lumborum 774 | 775 | TODO 776 | 777 | **Conditions & Open Data** 778 | 779 | - Healthy Controls 780 | 781 | ### External Oblique 782 | 783 | TODO 784 | 785 | **Conditions & Open Data** 786 | 787 | - Healthy Controls 788 | 789 | ### Internal Oblique 790 | 791 | TODO 792 | 793 | **Conditions & Open Data** 794 | 795 | - Healthy Controls 796 | 797 | ## Fat 798 | 799 | ### Subcutaneous 800 | 801 | TODO 802 | 803 | **Conditions & Open Data** 804 | 805 | - Healthy Controls 806 | 807 | ### Extraperitoneal 808 | 809 | TODO 810 | 811 | **Conditions & Open Data** 812 | 813 | - Healthy Controls 814 | 815 | ## Membranes 816 | 817 | ### Skin 818 | 819 | TODO 820 | 821 | **Conditions & Open Data** 822 | 823 | - Healthy Controls 824 | 825 | ### Peritoneum 826 | 827 | TODO 828 | 829 | **Conditions & Open Data** 830 | 831 | - Healthy Controls 832 | 833 | ### Omentum 834 | 835 | TODO 836 | 837 | **Conditions & Open Data** 838 | 839 | - Healthy Controls 840 | 841 | ### Masentry 842 | 843 | TODO 844 | 845 | **Conditions & Open Data** 846 | 847 | - Healthy Controls 848 | 849 | ### Outer Fascia 850 | 851 | TODO 852 | 853 | **Conditions & Open Data** 854 | 855 | - Healthy Controls 856 | 857 | ### Inner Fascia 858 | 859 | TODO 860 | 861 | **Conditions & Open Data** 862 | 863 | - Healthy Controls 864 | 865 | ### Falciform Ligament 866 | 867 | TODO 868 | 869 | **Conditions & Open Data** 870 | 871 | - Healthy Controls 872 | --------------------------------------------------------------------------------