├── Cox_DCAP.R ├── DAE-DCAP.py ├── Data_preprocessing.R ├── README.md ├── autoencoder_DCAP.py ├── brca_cox.csv ├── brca_cox2.csv ├── brca_multitest.csv ├── brcatest_go.csv ├── km_plot.R ├── uni_cox.R └── workflow.png /Cox_DCAP.R: -------------------------------------------------------------------------------- 1 | library("xgboost") 2 | library("ipred") 3 | library("survival") 4 | library("survivalROC") 5 | library("glmnet") 6 | library('kernlab') 7 | library('plyr') 8 | library('caret') 9 | 10 | setwd('D:/brca') 11 | 12 | kx2=read.csv('data_cox2.csv',row.names= 1) 13 | sdata=read.csv('brca_go.csv',row.names= 1) 14 | data1=t(sdata) 15 | 16 | j=6 17 | set.seed(j) 18 | k=10 19 | folds <- createFolds(as.data.frame(t(kx2)),k) 20 | results<-matrix(nrow = k, ncol=6) 21 | im=matrix(nrow=500,ncol=30) 22 | eva<-matrix(nrow = nrow(kx2), ncol=k) 23 | count=0 24 | for(i in 1:k){ 25 | testset <- kx2[folds[[i]],] 26 | trainset <- kx2[-folds[[i]],] 27 | te_xg=data1[folds[[i]],] 28 | tr_xg=data1[-folds[[i]],] 29 | x=trainset[,-c(1:2)] 30 | x=as.matrix(x) 31 | tc=trainset$time 32 | tc[tc==0]=0.001 33 | y=Surv(tc,trainset$status) 34 | cv.fit<-cv.glmnet(x,y,family="cox",maxit=10000,alpha=0,nfold=5) 35 | fit<-glmnet(x,y,family="cox",alpha=0) 36 | tt=predict(fit,x,s=cv.fit$lambda.min) 37 | x2=testset[,-c(1:2)] 38 | x2=as.matrix(x2) 39 | tc2=testset$time 40 | tc2[tc2==0]=0.001 41 | y2=Surv(tc2,testset$status) 42 | tt2=predict(fit,x2,s=cv.fit$lambda.min) 43 | y_xgtr=tt; 44 | x_xgtr=tr_xg 45 | x_xgtr=as.matrix(x_xgtr) 46 | x_xgte=te_xg 47 | x_xgte=as.matrix(x_xgte) 48 | bst <- xgboost(x_xgtr, y_xgtr, 49 | max_depth =3, eta =0.25, nrounds =6, min_child_weight=2, 50 | objective = "reg:linear",eval_metric = "rmse") 51 | pred <- predict(bst, x_xgte) 52 | eva[(count+1):(count+nrow(tt2)),1]<-tc2 53 | eva[(count+1):(count+nrow(tt2)),2]<-testset$status 54 | eva[(count+1):(count+nrow(tt2)),3]=tt2 55 | eva[(count+1):(count+nrow(tt2)),4]=pred 56 | count=count+nrow(tt2) 57 | 58 | } 59 | 60 | tc3=eva[,1] 61 | st3=eva[,2] 62 | rk3=eva[,3] 63 | rk4=eva[,4] 64 | 65 | y3=Surv(tc3,st3) 66 | ci_Cox=survConcordance(formula = y3~ rk3) 67 | ci_Cox$concordance 68 | ci_XGB=survConcordance(formula = y3~ rk4) 69 | ci_XGB$concordance 70 | 71 | 72 | -------------------------------------------------------------------------------- /DAE-DCAP.py: -------------------------------------------------------------------------------- 1 | 2 | 3 | import tensorflow as tf 4 | import numpy as np 5 | import matplotlib.pyplot as plt 6 | import pandas as pd 7 | from sklearn.cluster import KMeans 8 | from sklearn.metrics import silhouette_score 9 | 10 | with open(r"simulation.csv", 'r') as f: 11 | data = pd.read_csv(f) 12 | 13 | #print(data.shape) 14 | tcga_input=np.transpose(data) 15 | print(tcga_input.shape[1]) 16 | length1 = tcga_input.shape[1] 17 | learning_rate = 0.0001 18 | training_epochs = 100 19 | batch_size = 125 20 | display_step = 2 21 | examples_to_show = 10 22 | n_input = tcga_input.shape[1] 23 | 24 | 25 | X = tf.placeholder("float", [None, n_input]) 26 | 27 | 28 | n_hidden_1 = 200 29 | n_hidden_2 = 50 30 | n_hidden_3 = 2 31 | 32 | weights = { 33 | 'encoder_h1': tf.Variable(tf.random_normal([n_input, n_hidden_1])), 34 | 'encoder_h2': tf.Variable(tf.random_normal([n_hidden_1, n_hidden_2])), 35 | 'encoder_h3': tf.Variable(tf.random_normal([n_hidden_2, n_hidden_3])), 36 | 'decoder_h1': tf.Variable(tf.random_normal([n_hidden_3, n_hidden_2])), 37 | 'decoder_h2': tf.Variable(tf.random_normal([n_hidden_2, n_hidden_1])), 38 | 'decoder_h3': tf.Variable(tf.random_normal([n_hidden_1, n_input])), 39 | 40 | 41 | } 42 | biases = { 43 | 'encoder_b1': tf.Variable(tf.random_normal([n_hidden_1])), 44 | 'encoder_b2': tf.Variable(tf.random_normal([n_hidden_2])), 45 | 'encoder_b3': tf.Variable(tf.random_normal([n_hidden_3])), 46 | 'decoder_b1': tf.Variable(tf.random_normal([n_hidden_2])), 47 | 'decoder_b2': tf.Variable(tf.random_normal([n_hidden_1])), 48 | 'decoder_b3': tf.Variable(tf.random_normal([n_input])), 49 | } 50 | 51 | 52 | def encoder(x): 53 | layer_1 = tf.nn.tanh(tf.add(tf.matmul(x, weights['encoder_h1']), 54 | biases['encoder_b1'])) 55 | layer_2 = tf.nn.tanh(tf.add(tf.matmul(layer_1, weights['encoder_h2']), 56 | biases['encoder_b2'])) 57 | layer_3 = tf.nn.tanh(tf.add(tf.matmul(layer_2, weights['encoder_h3']), 58 | biases['encoder_b3'])) 59 | return layer_3 60 | 61 | 62 | 63 | def decoder(x): 64 | layer_1 = tf.nn.tanh(tf.add(tf.matmul(x, weights['decoder_h1']), 65 | biases['decoder_b1'])) 66 | layer_2 = tf.nn.tanh(tf.add(tf.matmul(layer_1, weights['decoder_h2']), 67 | biases['decoder_b2'])) 68 | layer_3 = tf.nn.tanh(tf.add(tf.matmul(layer_2, weights['decoder_h3']), 69 | biases['decoder_b3'])) 70 | return layer_3 71 | 72 | 73 | encoder_op = encoder(X) 74 | decoder_op = decoder(encoder_op) 75 | 76 | 77 | y_pred = decoder_op 78 | y_true = X 79 | 80 | 81 | cost = tf.reduce_mean(tf.pow(y_true - y_pred, 2)) 82 | optimizer = tf.train.AdamOptimizer(learning_rate).minimize(cost) 83 | 84 | with tf.Session() as sess: 85 | if int((tf.__version__).split('.')[1]) < 12 and int((tf.__version__).split('.')[0]) < 1: 86 | init = tf.initialize_all_variables() 87 | else: 88 | init = tf.global_variables_initializer() 89 | sess.run(init) 90 | 91 | total_batch = int(len(tcga_input)/batch_size) 92 | for epoch in range(training_epochs): 93 | for i in range(total_batch): 94 | batch_xs = tcga_input[((i) * batch_size):((i + 1) * batch_size)] + 0.3 * np.random.rand(length1) #added nosie 95 | # Run optimization op (backprop) and cost op (to get loss value) 96 | _, c = sess.run([optimizer, cost], feed_dict={X: batch_xs}) 97 | if epoch % display_step == 0: 98 | print("Epoch:", '%04d' % (epoch+1), "cost=", "{:.9f}".format(c)) 99 | if epoch == training_epochs - 1: 100 | fea_output = sess.run([encoder_op], feed_dict={X: tcga_input}) 101 | # print(fea_output) 102 | print(np.array(fea_output).shape) 103 | np.savetxt(r'fea.csv', np.array(fea_output[0]), delimiter=',') 104 | dd = np.array(fea_output[0]) 105 | print("Optimization Finished!") 106 | print(dd.shape) 107 | clf = KMeans(n_clusters=2) 108 | clf.fit(dd) 109 | centers = clf.cluster_centers_ 110 | labels = clf.labels_ 111 | silhouetteScore = silhouette_score(dd, labels, metric='euclidean') 112 | print(centers) 113 | print(silhouetteScore) 114 | # encode_decode = sess.run( 115 | # y_pred, feed_dict={X: mnist.test.images[:examples_to_show]}) 116 | # f, a = plt.subplots(2, 10, figsize=(10, 2)) #return fig，axes 117 | # for i in range(examples_to_show): 118 | # a[0][i].imshow(np.reshape(mnist.test.images[i], (28, 28))) 119 | # a[1][i].imshow(np.reshape(encode_decode[i], (28, 28))) 120 | # plt.show() -------------------------------------------------------------------------------- /Data_preprocessing.R: -------------------------------------------------------------------------------- 1 | setwd('D:/brca') 2 | library('imputeMissings') 3 | data=read.csv("brca_multitest.csv",row.names = 1) 4 | 5 | #################delete missing####################### 6 | sum(is.na(data)) 7 | miss=c() 8 | for (i in 1:nrow(data)){ 9 | miss=c(miss,sum(is.na(data[i,]))) 10 | } 11 | missrate=miss/ncol(data) 12 | data1=data[missrate<0.2,] 13 | data1[is.na(data1)] <- 0 14 | ###################delete zero################# 15 | nz=c() 16 | for (i in 1:nrow(data1)){ 17 | nz=c(nz,sum(data1[i,]==0)) 18 | } 19 | zerorate=nz/ncol(data1) 20 | data2=data1[zerorate<0.2,] 21 | ###############impute###################### 22 | 23 | data3=t(data2) 24 | data3=data.frame(data3) 25 | data3[data3==0]=NA 26 | data4<-impute(data3) 27 | ##########normalize############## 28 | data5=t(data4) 29 | data6=data5 30 | data7=t(data6) 31 | data8=scale(data7, center = T, scale = T) 32 | data9=t(data8) 33 | write.csv(data9,'brcatest_go.csv') 34 | 35 | -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- 1 | # DCAP 2 | DCAP:Integrating multi-omics data with deep learning for predicting cancer prognosis 3 | DCAP is designed to integrate multi-omics data for predicting the prognosis risk of cancer patients.The multi-omics data was input into Autoencoder to obtain representative composite features that can best rebuild all input data. These features were then input to the Cox proportional hazards (Cox-PH) model to estimate the patients’ prognosis risks. Finally, in order to reduce the number of features for cancer prognosis prediction, we employed XGboost for features selection, and reconstruct the cancer prognosis model. 4 | 5 | # Requirements 6 | tensorflow, python 3, R 7 | 8 | # Data preparation 9 | In this study, we utilized cancer datasets from the TCGA portal (https://tcga-data.nci.nih.gov/tcga/). All these datasets were downloaded by using the R package “TCGA-assembler”(v1.0.3, (Wei, et al., 2018)), which contains four types of multi-omics data: mRNA, miRNA, DNA methylation, and copy number variation (CNV) data. Here, “mRNA” was RNA sequencing data generated by UNC Illumina HiSeq_RNASeq V2; Level 3, “miRNA” was miRNA sequencing data obtained by BCGSC Illumina HiSeq miRNASeq, DNA methylation data was generated by USC HumanMethylation450, and CNV data that generated by BROAD-MIT Genome wide SNP_6. 10 | 11 | # Usage 12 | DCAP was a framework with three different method. Firstly please use the autoencoder_DCAP.py to obtain representative composite features that can best rebuild all input multi-omics data. The table named fea.csv will be saved in the file folder. After that a table (Such as brca_cox.csv) should be constructed by users, this table will be put into uni_cox.R (), and the generated file (such as brca_cox2.csv) will be processed by Cox_DCAP for getting the finally results. The CI_Cox$concordance is the C-index value obtained by DCAP_Cox and the CI-XGB is the C-index value obtained by XGBoost. (If users need data preprocessing, the Data_preprocessing.R can be used) 13 | 14 | Beforing using please checking the file folder path. 15 | 16 | # Example 17 | For easy to use, here we give four example data: brca_multitest.csv used for Data_preprocessing.R, brcatest_go.csv used for autoencoder_DCAP.py, brca_cox.csv used for uni_cox.R and brca_cox2.csv used for Cox_DCAP. Due to file size limitation, we only uploaded brca-omics data (brcatest_go.csv for 10 patients with 10 genes) as an example. Users can build data as the format of the example. 18 | 19 | # Contact 20 | This method is still on progress, any questions can be sent to chaihuachaihua@qq.com 21 | -------------------------------------------------------------------------------- /autoencoder_DCAP.py: -------------------------------------------------------------------------------- 1 | 2 | 3 | import tensorflow as tf 4 | import numpy as np 5 | import matplotlib.pyplot as plt 6 | import pandas as pd 7 | with open(r"C:\pypro\brcatest_go.csv", 'r') as f: 8 | data = pd.read_csv(f) 9 | 10 | print(data.shape) 11 | tcga_input=np.transpose(data) 12 | print(tcga_input.shape) 13 | 14 | learning_rate = 0.01 15 | training_epochs = 10 16 | batch_size = 50 17 | display_step = 1 18 | examples_to_show = 10 19 | 20 | dropout=0.1 21 | n_input = 60779 22 | scale = 0.0001 23 | # tf Graph input (only pictures) 24 | X = tf.placeholder("float", [None, n_input]) 25 | 26 | 27 | n_hidden_1 = 500 # 28 | n_hidden_2 = 200 # 29 | 30 | weights = { 31 | 'encoder_h1': tf.Variable(tf.random_normal([n_input, n_hidden_1])), 32 | 'encoder_h2': tf.Variable(tf.random_normal([n_hidden_1, n_hidden_2])), 33 | 'decoder_h1': tf.Variable(tf.random_normal([n_hidden_2, n_hidden_1])), 34 | 'decoder_h2': tf.Variable(tf.random_normal([n_hidden_1, n_input])), 35 | } 36 | biases = { 37 | 'encoder_b1': tf.Variable(tf.random_normal([n_hidden_1])), 38 | 'encoder_b2': tf.Variable(tf.random_normal([n_hidden_2])), 39 | 'decoder_b1': tf.Variable(tf.random_normal([n_hidden_1])), 40 | 'decoder_b2': tf.Variable(tf.random_normal([n_input])), 41 | } 42 | 43 | 44 | def encoder(x): 45 | layer_1 = tf.nn.tanh(tf.add(tf.matmul(x, weights['encoder_h1']), 46 | biases['encoder_b1'])) 47 | layer_2 = tf.nn.tanh(tf.add(tf.matmul(layer_1, weights['encoder_h2']), 48 | biases['encoder_b2'])) 49 | return layer_2 50 | 51 | 52 | 53 | def decoder(x): 54 | layer_1 = tf.nn.tanh(tf.add(tf.matmul(x, weights['decoder_h1']), 55 | biases['decoder_b1'])) 56 | layer_2 = tf.nn.tanh(tf.add(tf.matmul(layer_1, weights['decoder_h2']), 57 | biases['decoder_b2'])) 58 | return layer_2 59 | 60 | 61 | ################################################################## 62 | 63 | fc_1 = tf.layers.dense(inputs=X, units=n_hidden_1, 64 | kernel_regularizer=tf.contrib.layers.l2_regularizer(scale=scale)) 65 | fc_1_out = tf.nn.tanh(fc_1) 66 | fc_1_dropout = tf.layers.dropout(inputs=fc_1_out, rate=dropout) 67 | 68 | fc_2 = tf.layers.dense(inputs = fc_1_dropout, units = n_hidden_2, kernel_regularizer= tf.contrib.layers.l2_regularizer(scale=scale)) 69 | fc_2_out = tf.nn.tanh(fc_2) 70 | encoder_op = tf.layers.dropout(inputs=fc_2_out, rate=dropout) 71 | 72 | fc_3 = tf.layers.dense(inputs = encoder_op, units = n_hidden_1, kernel_regularizer= tf.contrib.layers.l2_regularizer(scale=scale)) 73 | fc_3_out = tf.nn.tanh(fc_3) 74 | fc_3_dropout = tf.layers.dropout(inputs=fc_3_out, rate=dropout) 75 | 76 | decoder_op = tf.layers.dense(inputs=fc_3_dropout, units=n_input) 77 | ################################################################## 78 | 79 | 80 | y_pred = decoder_op 81 | y_true = X 82 | 83 | 84 | cost = tf.reduce_mean(tf.pow(y_true - y_pred, 2))#+lossL 85 | l2_loss = tf.losses.get_regularization_loss() 86 | optimizer = tf.train.AdamOptimizer(learning_rate).minimize(cost+l2_loss) 87 | 88 | with tf.Session() as sess: 89 | # tf.initialize_all_variables() no long valid from 90 | # 2017-03-02 if using tensorflow >= 0.12 91 | if int((tf.__version__).split('.')[1]) < 12 and int((tf.__version__).split('.')[0]) < 1: 92 | init = tf.initialize_all_variables() 93 | else: 94 | init = tf.global_variables_initializer() 95 | sess.run(init) 96 | 97 | total_batch = int(len(tcga_input)/batch_size) 98 | for epoch in range(training_epochs): 99 | for i in range(total_batch): 100 | # tch_xs, batch_ys = mnist.train.next_batch(batch_size) # max(x) = 1, min(x) = 0 101 | batch_xs = tcga_input[((i)*batch_size):((i+1)*batch_size)] 102 | # Run optimization op (backprop) and cost op (to get loss value) 103 | _, c = sess.run([optimizer, cost], feed_dict={X: batch_xs}) 104 | if epoch % display_step == 0: 105 | print("Epoch:", '%04d' % (epoch+1), "cost=", "{:.9f}".format(c)) 106 | if epoch == training_epochs - 1: 107 | fea_output = sess.run([encoder_op], feed_dict={X: tcga_input}) 108 | # print(fea_output) 109 | print(np.array(fea_output).shape) 110 | np.savetxt(r'C:\pypro\fea.csv', np.array(fea_output[0]), delimiter=',') 111 | print("Optimization Finished!") 112 | 113 | 114 | -------------------------------------------------------------------------------- /brca_cox2.csv: -------------------------------------------------------------------------------- 1 | "","time","status","X.1","X.7","X.10","X.13","X.14","X.17","X.21","X.22","X.32","X.44","X.45","X.62","X.73","X.83","X.109","X.117","X.125","X.144","X.148","X.168","X.195","X.197" 2 | "TCGA-3C-AAAU-01",4047,0,-0.999998033046722,0.68682873249054,-1,-1,-1,0.99999988079071,-1,0.999999821186066,1,-0.998393177986145,-1,1,1,0.999989986419678,1,1,0.997547388076782,-1,-1,-0.458461165428162,-1,-0.999760448932648 3 | "TCGA-3C-AALI-01",4005,0,1,1,-1,-1,1,1,-1,-0.999915719032288,0.998650848865509,1,1,-1,1,1,1,-1,1,0.997667253017426,-1,1,-0.999996244907379,0.999996781349182 4 | "TCGA-3C-AALJ-01",1474,0,1,-0.999968528747559,-1,1,1,-1,-1,1,1,1,-1,1,1,1,0.999996602535248,0.999964714050293,-1,-1,-1,1,-1,-0.764071822166443 5 | "TCGA-3C-AALK-01",1448,0,-0.999183118343353,1,0.999998211860657,1,1,0.999171137809753,-1,1,-0.562381684780121,1,-1,1,-0.00337247736752033,0.453523337841034,-0.99997889995575,0.99113255739212,-1,-0.99999988079071,-0.994114875793457,1,1,-1 6 | "TCGA-4H-AAAK-01",348,0,0.99999988079071,1,-1,1,-1,-0.737105131149292,-1,1,-1,-1,-1,1,-1,-1,-1,-0.355576246976852,-1,-1,1,-1,1,-1 7 | "TCGA-5L-AAT0-01",1477,0,-1,-0.999999940395355,-1,-0.999226808547974,-1,0.999999940395355,1,1,-1,0.492342889308929,-1,1,-1,-1,-1,1,-1,0.999976277351379,0.99998015165329,-1,1,0.997460842132568 8 | "TCGA-5T-A9QA-01",303,0,0.999863147735596,1,0.999509394168854,1,1,-1,-1,1,1,1,-1,-1,1,1,1,1,1,1,-0.988710522651672,1,0.999983549118042,-1 9 | "TCGA-A1-A0SB-01",259,0,-0.99974399805069,-1,0.924459218978882,-1,-1,-1,1,-1,-0.999999761581421,-1,0.999657094478607,1,-1,-1,0.447349071502686,-1,0.781753420829773,-1,-1,-1,1,1 10 | "TCGA-A1-A0SF-01",1463,0,-1,-1,1,-1,-0.998481750488281,1,1,-1,-1,-1,1,-1,-1,1,-1,0.999972641468048,1,-1,0.999683678150177,-1,0.999923050403595,-1 11 | "TCGA-A1-A0SG-01",434,0,1,-1,1,-1,-1,1,1,1,-1,-1,-1,-0.999973058700562,-1,-1,-0.945304214954376,1,-1,-1,1,-1,0.999995946884155,1 12 | "TCGA-A1-A0SI-01",635,0,1,-1,-1,-1,-1,0.999999940395355,1,-1,-1,-1,1,-1,-1,1,1,1,0.999999642372131,-0.905302822589874,-1,-1,1,1 13 | "TCGA-A1-A0SN-01",1196,0,-1,1,1,1,0.999533712863922,1,-1,1,-0.989842891693115,0.999906063079834,0.680629432201385,1,1,1,1,0.999995589256287,-1,-1,1,1,1,-1 14 | "TCGA-A1-A0SQ-01",554,0,0.999998331069946,-1,1,0.999997198581696,0.373999387025833,1,1,-1,-1,-1,-0.999306738376617,-1,0.999997854232788,-0.952681839466095,-1,1,-0.314414739608765,-1,-1,-1,-0.99999874830246,1 15 | "TCGA-A2-A0CK-01",4159,0,1,-1,1,0.774884462356567,-1,1,1,1,-1,1,-1,1,-1,-1,-1,1,-1,1,1,0.999919652938843,1,-1 16 | "TCGA-A2-A0CO-01",3492,1,-0.145887866616249,1,1,0.903733313083649,-1,1,1,1,-1,0.878093183040619,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 17 | "TCGA-A2-A0CR-01",3283,0,-1,1,-1,0.967304110527039,-1,0.999999940395355,-0.962829828262329,1,-1,1,-1,0.99999988079071,-1,-1,-1,1,-1,-1,1,-1,1,-0.986569702625275 18 | "TCGA-A2-A0EP-01",3603,0,-1,1,1,0.999375104904175,-0.506578862667084,0.350906878709793,-1,-1,-1,0.999977290630341,-1,1,-1,-1,-1,0.9781374335289,-1,-1,1,-1,1,-0.998723149299622 19 | "TCGA-A2-A1FV-01",714,0,-1,1,0.99997490644455,1,-1,1,-0.999995231628418,1,-0.999983251094818,1,0.999999642372131,1,1,1,-1,1,-1,1,1,1,-1,-1 20 | "TCGA-A2-A1FW-01",528,0,-1,1,1,1,-1,0.996391236782074,-1,0.99989378452301,1,-1,-0.99947327375412,1,1,-1,0.999999940395355,0.978295385837555,-1,1,0.999999761581421,1,1,-1 21 | "TCGA-A2-A1FX-01",1847,0,-1,-0.999347746372223,1,1,-0.941327273845673,1,0.966728746891022,1,-1,-0.722413301467896,-1,0.99999988079071,1,-1,0.9998739361763,1,0.999999403953552,-0.836586117744446,0.999210596084595,-1,-1,-0.529747426509857 22 | "TCGA-A2-A1FZ-01",683,0,-0.999998390674591,1,1,1,-0.999478995800018,-1,-1,-1,-1,1,0.99123352766037,1,-1,-1,0.991101682186127,-0.499157041311264,-1,1,1,1,1,-0.999999344348907 23 | "TCGA-A2-A1G0-01",616,0,0.999389827251434,-1,1,1,-1,1,-1,-1,-1,-1,1,1,-1,-1,-1,0.999097108840942,-1,-1,1,-1,0.999999701976776,-1 24 | "TCGA-A2-A1G1-01",584,0,-0.997754275798798,-1,-1,-1,0.99999874830246,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,0.99999064207077,-1,1 25 | "TCGA-A2-A1G4-01",595,0,-1,1,1,1,-1,1,-1,1,-1,1,-0.999999701976776,1,0.999878525733948,-1,1,-0.99109411239624,-1,-1,1,-0.999998152256012,1,-1 26 | "TCGA-A2-A1G6-01",501,0,-1,-1,1,-0.79448664188385,-1,-1,0.800778329372406,-1,-1,-1,-0.991324663162231,1,-1,-1,-1,0.99999988079071,-1,-0.999675571918488,1,-1,1,1 27 | "TCGA-A2-A259-01",1596,0,-0.582817792892456,-0.247915744781494,1,-1,-0.999924898147583,0.999999582767487,-1,-0.999996662139893,-0.999999821186066,0.810301244258881,-0.999994397163391,1,-1,-1,-1,-1,-1,1,1,-1,1,1 28 | "TCGA-A2-A25A-01",3276,0,-1,1,1,1,-1,1,-1,-0.303774386644363,-1,1,-1,1,-1,-1,-1,0.999995291233063,-1,-0.884100437164307,1,0.999998509883881,1,-1 29 | "TCGA-A2-A25B-01",1291,0,1,1,-1,1,1,0.999610900878906,-1,1,1,1,1,-0.999999761581421,1,1,1,-0.999999821186066,1,0.999999523162842,-1,1,-1,-1 30 | "TCGA-A2-A25C-01",523,0,-1,1,1,0.99999862909317,1,-0.946527123451233,-1,-1,-0.998895406723022,1,-0.999971628189087,1,1,-1,-1,1,-1,1,1,1,1,-1 31 | "TCGA-A2-A25D-01",552,0,1,1,1,1,-0.999187111854553,-0.99999737739563,-1,1,0.998171448707581,0.999999821186066,0.999738931655884,-0.566061735153198,0.833889603614807,1,1,-0.999995172023773,-0.999960243701935,-1,0.998429358005524,-1,-1,1 32 | "TCGA-A2-A25E-01",3204,0,-1,-0.999999701976776,1,1,-0.999993801116943,-0.994540154933929,-1,1,0.999818325042725,-1,0.999996840953827,1,1,0.865826010704041,1,-1,-0.714345514774323,1,-0.995661079883575,1,1,-1 33 | "TCGA-A2-A25F-01",322,0,-1,1,1,1,-0.999999642372131,-1,-1,-1,1,1,0.999893188476562,-0.99531352519989,-1,-1,1,-1,-1,-0.999985635280609,1,-0.996235430240631,1,-0.999999940395355 34 | "TCGA-A2-A3KC-01",1102,0,-1,1,1,1,0.956052720546722,1,-1,1,-1,1,-1,1,-1,-1,-1,0.933824837207794,-1,-1,1,-1,1,-1 35 | "TCGA-A2-A3KD-01",1206,0,-1,1,1,-0.9918212890625,-1,1,1,0.999999165534973,-1,1,-1,1,-1,-1,-1,1,-1,0.491595238447189,1,-1,1,-1 36 | "TCGA-A2-A3XS-01",1032,1,1,-1,-0.999999165534973,-1,1,-0.999996900558472,1,-1,1,-1,0.579235017299652,-1,1,1,1,-1,1,1,-1,1,-1,1 37 | "TCGA-A2-A3XT-01",2770,0,1,-1,-1,-1,1,0.992482304573059,1,-1,1,-0.55724710226059,0.999859035015106,-1,0.999999523162842,1,1,-1,1,1,-1,1,-1,1 38 | "TCGA-A2-A3XU-01",912,1,1,-1,-1,-1,-0.873571693897247,-1,1,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,0.999565005302429,-1,1 39 | "TCGA-A2-A3XV-01",996,0,1,1,-1,1,1,-0.999963223934174,1,1,1,1,-1,-1,1,-0.999996662139893,-1,0.999970436096191,-1,-1,0.999980807304382,1,-1,-1 40 | "TCGA-A2-A3XW-01",1712,0,-1,0.0201185010373592,1,0.999996364116669,-1,1,1,1,-1,-1,-1,1,-1,-1,-1,-1,-1,-1,1,-1,1,1 41 | "TCGA-A2-A3XX-01",1439,1,0.999881744384766,-0.999999701976776,-1,-1,1,-1,1,-0.999999821186066,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 42 | "TCGA-A2-A3XY-01",1093,1,-1,-1,0.990930080413818,-1,0.975841760635376,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,-0.999994039535522,-1,1 43 | "TCGA-A2-A3XZ-01",1532,0,-1,0.632567882537842,-1,-1,-0.999974071979523,-0.999999642372131,0.99999988079071,-1,-1,-0.999999821186066,0.999999761581421,1,-1,1,0.996081054210663,-1,1,0.999996781349182,1,-1,1,-0.999999821186066 44 | "TCGA-A2-A3Y0-01",1546,0,1,-1,-1,-1,0.999999642372131,-1,1,-0.519696712493896,1,-0.999999046325684,1,-1,-1,1,1,-1,1,0.999999523162842,-1,1,-1,1 45 | "TCGA-A2-A4RW-01",222,0,-1,-1,-0.999999761581421,1,1,-1,-0.990142703056335,-0.986333966255188,-1,0.999997854232788,0.930286705493927,1,-1,1,-1,-0.999775052070618,0.99999988079071,0.999992966651917,1,1,-1,-1 46 | "TCGA-A2-A4RX-01",742,0,-0.999943315982819,0.999988675117493,1,-0.999999761581421,-0.897483348846436,-1,-1,-1,-1,-0.99994295835495,-1,-0.797049105167389,-1,-1,-0.995214283466339,-1,0.999304533004761,-1,1,-1,1,1 47 | "TCGA-A2-A4RY-01",648,0,-1,1,1,1,-1,-1,1,-1,-1,-0.99888813495636,-1,1,-1,-1,-0.990649402141571,1,-1,-1,1,-1,1,1 48 | "TCGA-A2-A4S0-01",706,0,-0.737504363059998,-1,1,1,-1,1,1,-0.907338261604309,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 49 | "TCGA-A2-A4S1-01",820,0,0.999996423721313,-1,-0.999500334262848,-1,-1,-1,0.999999940395355,1,-0.99999988079071,1,-0.965325891971588,-1,-1,-0.99999737739563,1,-0.820500373840332,-1,-1,-1,-1,-1,-0.999907493591309 50 | "TCGA-A2-A4S2-01",643,0,1,1,1,1,-1,1,-1,1,-1,1,-1,1,1,-1,-1,0.999802350997925,-1,-1,1,-1,1,-1 51 | "TCGA-A2-A4S3-01",666,0,0.999993741512299,-1,-1,1,1,-1,1,-0.540850579738617,1,0.506788730621338,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 52 | "TCGA-A7-A13D-01",965,0,1,-1,-1,-1,0.999994158744812,-1,1,-1,1,-1,1,-1,0.99998927116394,1,1,-1,1,1,-1,0.99999988079071,-1,1 53 | "TCGA-A7-A13E-01",614,1,1,-0.999303817749023,-1,-1,1,-1,1,-1,1,-1,-0.758425831794739,-1,1,1,1,-1,1,1,-1,1,-1,1 54 | "TCGA-A7-A13F-01",765,0,1,1,0.999999821186066,1,1,1,-1,1,-0.993258237838745,1,-1,1,1,1,-0.610484063625336,0.922215521335602,0.118636608123779,-1,1,1,-1,-1 55 | "TCGA-A7-A13G-01",718,0,-0.999977290630341,1,1,0.460537731647491,0.999908626079559,1,0.999999403953552,0.999832034111023,-1,0.941238880157471,-1,1,0.999999165534973,-1,-1,1,-1,1,1,-0.99999737739563,1,-1 56 | "TCGA-A7-A13H-01",899,0,-1,1,1,-1,-1,1,1,1,-1,-0.178430795669556,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 57 | "TCGA-A7-A26E-01",954,0,-1,1,1,1,-1,1,-1,1,-1,1,-1,1,-0.999997138977051,-0.980431199073792,-1,0.999978601932526,-1,-0.0345493033528328,1,1,1,-1 58 | "TCGA-A7-A26F-01",738,0,0.440879553556442,1,-1,0.998241305351257,-1,-1,-1,-1,1,1,1,1,-0.999910056591034,0.999987125396729,1,-1,1,1,-1,1,-1,1 59 | "TCGA-A7-A26G-01",722,0,-1,-1,-0.967005252838135,-1,-1,-1,0.303177744150162,-1,1,-1,1,-1,-1,-0.999999225139618,1,-1,1,1,-0.999996423721313,-1,-1,1 60 | "TCGA-A7-A26H-01",724,0,1,-0.995654761791229,1,-1,1,1,-1,1,0.999999940395355,1,0.999997079372406,-0.999993145465851,1,-0.10388907790184,-1,0.905834078788757,-1,1,-0.530480086803436,1,-0.999999284744263,-1 61 | "TCGA-A7-A26I-01",661,0,-1,-1,-1,-1,-0.930195987224579,-1,0.525269687175751,-1,1,-0.999999761581421,1,-1,-1,1,1,-1,1,1,-1,0.999982535839081,-1,1 62 | "TCGA-A7-A26J-01",627,0,-1,1,1,1,-1,-0.469553261995316,-1,1,1,1,-1,1,1,-1,-1,1,-1,-0.99871152639389,1,1,0.999134302139282,-1 63 | "TCGA-A7-A2KD-01",679,0,1,-1,-1,-1,-0.999976098537445,0.962742805480957,1,1,0.858312964439392,-0.999991357326508,-1,0.993586182594299,1,-1,-1,-0.999986410140991,0.588996767997742,1,-1,-0.997741997241974,-0.79093986749649,0.805732786655426 64 | "TCGA-A7-A3IY-01",345,0,0.99891459941864,-0.998891711235046,1,-1,-1,-1,1,-1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,1 65 | "TCGA-A7-A3IZ-01",322,0,-1,1,1,0.959596633911133,-1,1,-1,0.999999940395355,-0.99998414516449,-0.999997794628143,-1,1,1,-1,-0.998038172721863,1,-1,-0.999937117099762,1,-1,1,-1 66 | "TCGA-A7-A3J0-01",313,0,1,-1,1,-1,-1,-1,1,-1,1,-1,-1,1,0.999810099601746,-1,0.956372678279877,1,-1,-0.999984622001648,1,-1,1,-1 67 | "TCGA-A7-A3J1-01",343,0,-1,1,1,0.925223886966705,-1,1,-1,1,-1,1,-1,1,-1,-1,-1,0.999849021434784,-1,-1,1,-1,1,-1 68 | "TCGA-A7-A3RF-01",408,0,0.999994695186615,-1,1,0.999043583869934,-1,0.99999988079071,1,-0.995582640171051,-1,-1,-1,-0.997358202934265,-1,-1,-1,1,-1,-1,1,-1,1,0.916827023029327 69 | "TCGA-A7-A425-01",447,0,-0.826248347759247,0.999980688095093,1,0.999998033046722,0.872830152511597,1,1,1,-1,-0.999879658222198,-1,1,-0.470012485980988,-1,-1,1,-1,-1,1,-1,1,-1 70 | "TCGA-A7-A426-01",364,0,-1,-1,1,1,-1,0.999770760536194,1,1,-1,-0.999999701976776,-1,1,-1,-1,-1,0.557997167110443,-1,-1,1,-1,1,-0.999997019767761 71 | "TCGA-A7-A4SA-01",454,0,-1,1,0.999998033046722,-0.999999761581421,-1,-1,1,1,-1,1,-1,1,-1,-0.999688565731049,-0.999997615814209,0.999999940395355,-1,-1,-1,-1,0.999987959861755,-0.256135761737823 72 | "TCGA-A7-A4SB-01",418,0,1,1,-1,1,-1,1,-0.77602207660675,1,-0.999808847904205,1,-1,-0.999887764453888,1,-1,1,1,0.986441016197205,0.197965726256371,0.999469935894012,-1,-1,1 73 | "TCGA-A7-A4SD-01",441,0,1,-1,-1,-1,1,-0.991390943527222,1,-1,1,-1,1,-1,-1,1,1,-1,1,-1,-1,0.999910295009613,-1,1 74 | "TCGA-A7-A4SE-01",644,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,0.825220227241516,-1,1,-1,1 75 | "TCGA-A7-A4SF-01",545,0,1,-1,-1,-1,1,-0.999997317790985,1,0.999983906745911,0.996934413909912,1,1,-1,1,1,1,0.999999165534973,1,-0.999996662139893,-1,-0.99129182100296,-1,1 76 | "TCGA-A7-A56D-01",448,0,-0.997533202171326,-1,-1,-1,1,-0.999937236309052,1,1,-1,-0.999229073524475,1,-1,0.999984622001648,1,-1,1,-1,-1,1,1,-0.999194145202637,-1 77 | "TCGA-A7-A5ZV-01",368,0,1,-1,-1,-1,1,-1,-1,-1,1,1,1,-1,1,1,-0.997605621814728,-1,1,-1,-1,1,-1,1 78 | "TCGA-A7-A5ZW-01",326,0,-1,-1,1,-1,-1,1,0.999972522258759,-1,-0.999727725982666,-1,-0.99999988079071,-0.819233238697052,-1,-1,-1,1,-1,-1,1,-1,1,0.999998509883881 79 | "TCGA-A7-A5ZX-01",336,0,-1,-0.99999988079071,0.99999988079071,0.345496356487274,-1,0.0789154842495918,1,-1,-1,-1,-1,1,-1,-1,-1,1,-1,-1,1,-1,0.999867022037506,0.414518892765045 80 | "TCGA-A7-A6VV-01",313,0,-0.989352703094482,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,0.99813437461853,-1,-1,-1,1 81 | "TCGA-A7-A6VW-01",285,0,1,-1,-1,-1,1,0.986409604549408,1,-1,1,-0.999333202838898,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 82 | "TCGA-A7-A6VX-01",317,0,1,-1,-1,-1,1,-1,-0.999999821186066,-1,1,-1,0.999999046325684,-1,0.999969363212585,1,1,-1,1,-1,-1,1,-1,1 83 | "TCGA-A7-A6VY-01",266,0,0.999977827072144,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,0.999999582767487,-1,1,-1,-1,1,-1,1 84 | "TCGA-AC-A23C-01",585,0,-1,0.999983549118042,0.99999988079071,1,-0.999998450279236,-1,-1,-1,1,1,0.999997854232788,1,0.998894155025482,-1,1,-0.999999761581421,-1,1,-1,1,1,-0.95227062702179 85 | "TCGA-AC-A23E-01",698,0,-1,-1,1,-1,-1,0.999198019504547,1,-1,-1,0.999842286109924,1,1,-1,-1,-1,1,-0.99999988079071,-1,1,-0.999972522258759,1,0.989229440689087 86 | "TCGA-AC-A23G-01",2248,0,-1,1,1,0.980792224407196,-1,1,-1,0.992463886737823,-0.999966681003571,1,-1,1,-1,-1,-1,-1,-1,-1,1,-1,1,0.712104976177216 87 | "TCGA-AC-A23H-01",174,1,1,1,-1,1,1,-0.999999701976776,-1,1,1,1,-1,1,1,0.999673068523407,1,0.99999988079071,-1,1,-1,1,-1,-1 88 | "TCGA-AC-A2B8-01",677,0,-1,-1,1,-1,-1,-0.114687345921993,-0.99849396944046,1,0.243773609399796,1,0.77910965681076,1,-1,-1,-1,0.999586880207062,-1,0.828884303569794,1,-1,1,-1 89 | "TCGA-AC-A2BK-01",2222,0,1,0.995970666408539,-1,-1,1,-1,1,-1,1,-1,0.999999940395355,-1,-0.944705963134766,1,1,-1,1,1,-1,1,-1,1 90 | "TCGA-AC-A2BM-01",3022,0,-0.999999642372131,1,1,0.999994993209839,0.986755728721619,1,-0.999999165534973,1,1,1,-1,1,1,0.998005568981171,-1,-1,-1,0.00435254164040089,1,1,1,-1 91 | "TCGA-AC-A2FB-01",1234,0,-1,1,1,1,1,0.528226017951965,-1,-0.884996473789215,-1,1,1,1,-1,-1,-1,-1,-1,-0.999996244907379,1,-0.850216448307037,1,-1.00000011920929 92 | "TCGA-AC-A2FE-01",2636,1,-1,1,1,1,1,1,-1,1,-0.999998927116394,1,-1,1,-1,-1,-1,-1,-1,-1,1,0.45624253153801,1,-0.920204102993011 93 | "TCGA-AC-A2FF-01",2759,0,-1,1,1,1,-1,0.999999940395355,-1,-0.850150227546692,-1,1,0.933733284473419,1,-1,-1,-1,-1,-1,-1,1,-1,1,-0.999999642372131 94 | "TCGA-AC-A2FG-01",1853,0,-0.997260391712189,1,1,1,-1,1,0.999997973442078,0.999782621860504,-1,-0.99999988079071,-1,1,-1,-1,-1,1,-1,1,1,-1,1,-1 95 | "TCGA-AC-A2FK-01",2650,0,-1,1,1,1,-1,-0.99980103969574,-1,-1,-1,0.941449522972107,-1,1,-1,-1,-1,-0.996258616447449,-1,1,1,-1,1,1 96 | "TCGA-AC-A2FM-01",792,1,1,0.999999821186066,1,1,0.953694760799408,1,-1,1,1,1,-1,1,1,-1,-1,1,-1,-1,0.999999523162842,1,1,-1 97 | "TCGA-AC-A2FO-01",2255,0,-1,1,1,1,0.999983727931976,1,-1,0.926298379898071,-1,1,-1,-0.999984741210938,-1,-1,-0.99995231628418,1,-1,-1,1,-1,1,1 98 | "TCGA-AC-A2QH-01",1005,0,1,0.999905228614807,0.999510765075684,-0.196839675307274,-0.999981582164764,-1,-1,-1,1,-0.99999988079071,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 99 | "TCGA-AC-A2QI-01",588,0,-0.991270780563354,-1,1,-1,-0.998364150524139,1,1,1,-1,-1,-0.999616980552673,-1,-1,-1,-1,1,0.999999821186066,-1,-0.884826719760895,-1,1,0.99999988079071 100 | "TCGA-AC-A2QJ-01",446,1,0.999999940395355,-1,0.999999642372131,-1,-0.927230000495911,-0.977589011192322,1,1,-1,-1,1,-1,-1,-1,-1,-1,1,-1,-1,-0.999893605709076,-1,1 101 | "TCGA-AC-A3BB-01",987,0,-1,0.0624024718999863,1,0.803123474121094,-1,1,1,1,-1,1,-1,1,-1,-1,-1,0.999355971813202,-1,-1,1,-1,1,-0.999999940395355 102 | "TCGA-AC-A3EH-01",197,1,-0.999999821186066,1,-1,-1,0.994878053665161,1,1,1,0.961452186107635,0.997232913970947,-1,1,1,-0.999999940395355,-0.999673902988434,1,-1,-1,1,0.999986827373505,0.999256670475006,-1 103 | "TCGA-AC-A3HN-01",496,0,-1,1,1,1,-1,0.858367741107941,-1,1,-1,1,-1,1,-1,-1,-0.947156727313995,0.676956355571747,-1,-1,1,-1,1,-1 104 | "TCGA-AC-A3OD-01",451,0,-1,1,-1,0.99970269203186,1,-1,-1,-1,0.38309383392334,1,1,1,-1,1,1,-1,0.999995052814484,1,0.326524794101715,1,1,-1 105 | "TCGA-AC-A3QP-01",675,0,-1,0.972755372524261,1,1,-1,1,1,-0.999992787837982,-1,-0.999998092651367,-1,1.00000011920929,-1,-1,-0.997276067733765,1,-1,-1,1,-1,1,-0.999309778213501 106 | "TCGA-AC-A3QQ-01",734,0,0.999693036079407,-1,1,0.851993918418884,0.969652354717255,1,1,1,-1,-1,-1,0.765439212322235,1,-0.999752461910248,-1,1,-1,-1,1,-0.995754897594452,1,-1 107 | "TCGA-AC-A3TM-01",762,0,-1,0.989496529102325,-1,1,-0.999855279922485,1,1,1,-1,1,-1,-0.999366641044617,-0.999997496604919,-0.999998390674591,-1,1,-1,-1,0.988753795623779,-1,1,-1 108 | "TCGA-AC-A3TN-01",456,0,-0.445626050233841,1,1,1,0.201880529522896,0.994600057601929,1,1,-1,1,-1,1,0.999578952789307,-1,-1,1,-1,-1,1,-0.999924421310425,1,-1 109 | "TCGA-AC-A3W5-01",504,0,-1,0.999999582767487,0.999999940395355,-1,0.991029620170593,0.999032258987427,1,1,-1,1,0.999999761581421,-1,-1,1,-1,-1,-1,-1,1,1,-1,-0.999866604804993 110 | "TCGA-AC-A3W6-01",602,0,-1,-1,1,-1,-1,0.999960720539093,1,-1,-1,0.241563245654106,-1,1,-1,-1,-1,0.99999988079071,-1,-1,1,-1,1,-1 111 | "TCGA-AC-A3W7-01",471,0,-1,0.999992787837982,1,-0.818364918231964,-1,1,1,1,-1,1,-0.998058438301086,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 112 | "TCGA-AC-A3YI-01",707,0,-1,-0.999995768070221,1,-1,-1,-1,1,-1,-1,-1,-1,1,-1,-1,-0.997057139873505,-1,-1,-1,1,-1,1,1 113 | "TCGA-AC-A3YJ-01",754,0,1,1,1,-1,1,-0.999823689460754,1,1,-0.999644696712494,-0.999999940395355,-1,1,1,-1,0.999976694583893,1,-1,-1,-0.790788412094116,-1,1,-1 114 | "TCGA-AC-A4ZE-01",890,0,-1,1,-0.0020399063359946,1,-0.99999988079071,1,-0.999934554100037,1,-1,1,-1,1,1,-1,-0.999999165534973,1,0.999998688697815,0.9921515583992,-0.707357108592987,1,0.999999761581421,-1 115 | "TCGA-AC-A5EH-01",511,0,-1,1,1,-0.999074161052704,-1,1,1,1,-1,-0.847326338291168,0.999967813491821,0.999999940395355,-1,-0.999999463558197,-1,1,-1,-1,0.317374229431152,-1,1,-1 116 | "TCGA-AC-A5XS-01",588,0,1,-1,-1,-0.997810244560242,-0.999999940395355,1,1,1,1,-1,1,0.940530478954315,-1,1,1,1,0.96867299079895,-1,1,-1,1,-1 117 | "TCGA-AC-A5XU-01",455,0,-1,0.999986171722412,-1,1,1,1,0.999301493167877,-1,1,-1,-1,-1,0.999804675579071,1,-0.389595121145248,1,-0.983923017978668,-1,0.9975945353508,0.660286426544189,-0.999999940395355,-1 118 | "TCGA-AC-A62V-01",348,1,1,-1,-1,1,0.745966374874115,1,1,1,0.999819099903107,1,-1,-1,1,1,-1,1,0.999999940395355,0.999781608581543,-1,0.858888268470764,-1,-1 119 | "TCGA-AC-A62X-01",417,0,-0.995285511016846,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,1,-1,1 120 | "TCGA-AC-A62Y-01",530,0,1,-1,1,-1,0.999999642372131,1,1,-1,-1,-1,1,0.999695777893066,-0.999888598918915,-0.613407969474792,-1,1,-1,-1,1,-1,1,-1 121 | "TCGA-AC-A6IV-01",568,0,-1,0.999381363391876,1,1,-1,1,-1,-0.999916672706604,-0.999961912631989,1,-0.999448537826538,1,-1,-1,-1,1,-1,-1,0.99999862909317,-1,1,-0.99999988079071 122 | "TCGA-AC-A6IW-01",413,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.996373236179352,1,1,-1,1,1,-1,0.99999988079071,-1,1 123 | "TCGA-AC-A6IX-01",373,0,-1,1,-0.99998927116394,1,1,1,-1,-1,-1,0.999999344348907,-1,1,-1,-1,-0.999999940395355,-0.967868268489838,0.553297579288483,-1,0.999999284744263,-0.999995112419128,-0.999943792819977,1 124 | "TCGA-AC-A6NO-01",51,0,1,-0.609108150005341,-0.99999064207077,0.103353261947632,0.998146712779999,1,1,1,1,-1,-0.999999761581421,1,1,-1,0.474355459213257,1,-1,1,-1,-0.416067630052567,1,-1 125 | "TCGA-AC-A7VB-01",250,0,-0.999999046325684,0.999116897583008,-1,1,0.999994039535522,1,-1,1,-0.99986469745636,1,-1,1,1,1,-1,1,1,-1,1,0.907395780086517,-0.999862790107727,-1 126 | "TCGA-AC-A7VC-01",1,0,1,-1,0.852247953414917,-1,-1,-0.926898062229156,1,-1,-0.986035585403442,-1,1,-1,-0.999999940395355,-1,1,-1,1,-1,-1,-1,-1,-0.345802277326584 127 | "TCGA-AC-A8OP-01",614,0,0.998099565505981,1,1,1,1,1,-1,1,-1,1,-1,1,1,-0.999117314815521,-1,1,0.999999821186066,-1,1,1,-1,-1 128 | "TCGA-AC-A8OQ-01",34,0,0.999999642372131,-1,-1,-1,1,-1,1,-1,0.99999988079071,-1,1,-1,-1,0.991285979747772,1,-1,1,-1,-1,-0.999998867511749,-1,1 129 | "TCGA-AC-A8OR-01",40,0,1,-0.971872925758362,1,1,-1,-0.999999821186066,1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 130 | "TCGA-AC-A8OS-01",70,0,-1,-1,1,-1,-1,1,1,-1,-1,0.999993860721588,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 131 | "TCGA-AO-A12B-01",2989,0,1,-0.998623907566071,1,1,1,1,1,1,0.99999076128006,-1,-1,0.999963402748108,1,-1,1,1,-1,-1,-0.0641257613897324,-1,1,-1 132 | "TCGA-AO-A1KO-01",622,0,-1,-1,1,-1,-1,-1,0.963292598724365,-1,-1,-1,-0.999866008758545,1,-1,-1,-0.999975562095642,-1,-1,-1,1,-1,1,1 133 | "TCGA-AO-A1KP-01",2953,0,0.997149050235748,1,1,1,1,1,-1,1,-1,-1,-1,1,1,-1,-1,-0.999999821186066,-1,1,1,1,1,-1 134 | "TCGA-AO-A1KQ-01",1882,0,1,-1,-1,1,1,1,1,1,-0.991610288619995,-1,1,-1,1,1,-0.999999642372131,1,1,-1,-0.999983549118042,-0.996222913265228,-1,-0.999735593795776 135 | "TCGA-AO-A1KR-01",2513,0,1,-1,-1,-1,1,-1,1,0.837561726570129,-0.991775214672089,0.355469167232513,1,-1,1,1,1,-1,1,1,-1,1,-1,1 136 | "TCGA-AO-A1KS-01",350,0,-0.999956846237183,1,1,0.996813118457794,1,0.961936831474304,-1,-0.99999988079071,1,-0.999981045722961,1,0.992163002490997,1,-1,-1,-1,0.869990229606628,1,1,1,-0.999595582485199,-1 137 | "TCGA-AO-A1KT-01",541,0,1,-1,0.996235430240631,-1,-0.951157093048096,-1,1,1,-1,0.99999988079071,1,-1,1,-1,-0.999998331069946,1,1,0.999958515167236,-1,-1,-0.982500970363617,0.947798192501068 138 | "TCGA-AQ-A0Y5-01",172,1,-0.872879326343536,-1,0.99999737739563,-1,1,-1,1,-1,1,-1,1,-1,1,0.6933753490448,0.998729765415192,-1,-0.99999988079071,1,-1,-0.999586939811707,-1,1 139 | "TCGA-AQ-A1H2-01",475,0,-1,0.999999821186066,1,0.999999523162842,-0.999994099140167,1,1,1,-1,-1,-1,-1,0.999991714954376,-0.999999165534973,-1,1,-0.99998414516449,-1,-1,-1,1,-1 140 | "TCGA-AQ-A1H3-01",989,0,1,1,1,-1,-1,1,-1,1,-1,1,-1,1,-1,0.99999988079071,0.999953389167786,1,-1,0.964260578155518,1,0.999945759773254,1,-1 141 | "TCGA-AQ-A54N-01",78,0,1,-1,-1,-0.999255120754242,1,0.998257100582123,1,1,-1,-1,1,-1,0.961040794849396,1,1,-1,1,1,-1,0.999999523162842,-1,1 142 | "TCGA-AQ-A54O-01",1001,0,1,-1,0.402273327112198,-1,-1,1,1,1,-1,1,-1,0.671932399272919,1,1,-0.999999463558197,1,-1,-1,-1,0.999494791030884,0.949655115604401,-1 143 | "TCGA-AQ-A7U7-01",584,1,-1,1,1,1,-1,-0.93735659122467,-1,-1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 144 | "TCGA-AR-A1AI-01",3296,0,-1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.999874353408813,1,1,-1,1,1,-1,0.989159405231476,-1,1 145 | "TCGA-AR-A1AJ-01",3072,0,-1,0.996036052703857,-1,-0.979192733764648,-1,-1,-1,-1,1,1,1,-1,-1,1,0.999996423721313,-1,-0.982065856456757,0.905091822147369,-1,-0.999999940395355,1,1 146 | "TCGA-AR-A1AK-01",3159,0,1,1,0.99999988079071,0.999999821186066,1,1,-1,1,-1,-1,-1,1,1,-1,-1,1,-1,-1,1,-0.992731273174286,-0.708987474441528,-1 147 | "TCGA-AR-A1AL-01",2971,0,0.995278239250183,1,1,-0.999901473522186,-1,0.787507116794586,-1,-1,-0.998259544372559,0.999199151992798,0.035884965211153,1,-1,-1,-1,0.99999988079071,-1,-1,1,-1,1,-1 148 | "TCGA-AR-A1AM-01",2991,0,-0.99995481967926,-1,1,-0.999999523162842,-1,0.996805489063263,1,-0.999837100505829,-1,-1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,1 149 | "TCGA-AR-A1AN-01",2920,0,-1,-1,1,-0.999984502792358,-1,1,0.999942243099213,-1,1,-1,-1,0.999761641025543,-1,-1,-1,1,-1,-1,0.999997556209564,-1,1,1 150 | "TCGA-AR-A1AO-01",2618,0,-1,-1,1,-1,-0.999991416931152,-1,1,-1,0.99399596452713,-1,-0.999999403953552,-1,-1,-1,-0.999995231628418,-1,-1,-1,1,-1,1,1 151 | "TCGA-AR-A1AP-01",2856,0,-1,0.99538791179657,1,-0.981956899166107,1,1,-1,-1,-1,-1,1,-1,1,-1,-0.999999642372131,-0.990159869194031,1,1,1,-1,1,-1 152 | "TCGA-AR-A1AQ-01",3021,0,0.903978228569031,-1,-1,-1,0.999999523162842,-1,1,-1,1,0.99999988079071,1,-1,-1,1,1,0.740735352039337,1,1,-1,0.99943882226944,-1,0.579425573348999 153 | "TCGA-AR-A1AR-01",524,1,0.999999463558197,-1,-0.999998211860657,-1,-1,-1,0.999999642372131,-1,1,-0.816768407821655,1,-1,-1,1,1,-1,0.988014340400696,0.99976110458374,-1,1,-0.645566642284393,1 154 | "TCGA-AR-A1AS-01",1150,0,1,-1,1,-0.999914586544037,1,1,1,1,-1,1,1,-1,1,1,-1,1,-0.999999463558197,-0.999999165534973,-1,0.999996602535248,1,-1 155 | "TCGA-AR-A1AU-01",2868,0,-0.994985580444336,-1,1,-1,-1,1,-0.956923305988312,1,-1,-0.265381097793579,0.99999874830246,1,1,-1,-1,0.890173554420471,-1,-1,-0.370887130498886,-1,1,-1 156 | "TCGA-AR-A1AV-01",1864,0,1,1,0.999976515769958,1,1,1,-1,1,1,1,-1,1,1,-1,-1,1,0.995926678180695,0.973271667957306,0.935383319854736,1,-1,-1 157 | "TCGA-AR-A1AW-01",2632,0,-1,1,1,1,-0.999998390674591,-0.999817788600922,-1,-1,1,-1,1,1,-1,-1,1,-1,-1,0.999852895736694,-0.999997138977051,1,1,-1 158 | "TCGA-AR-A1AX-01",2629,0,-1,-1,1,1,-0.999872148036957,-1,-1,-1,-1,0.988272547721863,0.999991297721863,1,-1,-1,-1,-1,-1,-0.910885572433472,1,-1,1,1 159 | "TCGA-AR-A1AY-01",1026,0,0.999999940395355,-1,-1,-1,1,-0.999997973442078,1,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,1,-1,1 160 | "TCGA-AR-A24H-01",4894,0,1,1,-1,1,1,1,-1,1,1,-1,1,-1,1,-0.997503340244293,1,-1,1,1,-1,1,-0.997461795806885,0.999935209751129 161 | "TCGA-AR-A24K-01",1548,0,1,-0.99999338388443,1,1,-0.661853611469269,1,-0.938536822795868,0.878925681114197,-0.999962747097015,-1,-1,0.921315670013428,1,-1,-0.60547411441803,-0.999999761581421,0.998128354549408,1,1,-1,1,-1 162 | "TCGA-AR-A24L-01",2866,1,-0.999616265296936,-0.999999344348907,1,1,-1,-1,-1,-1,0.999999523162842,1,1,1,1,-0.99999988079071,-0.999829590320587,-0.999618649482727,-1,1,1,1,0.999985754489899,1 163 | "TCGA-AR-A24M-01",3660,0,-1,1,1,1,-1,1,-1,-1,-1.00000011920929,-0.842245042324066,-1,1,-0.698693633079529,-1,-1,1,-1,-1,1,-1,1,-0.999989748001099 164 | "TCGA-AR-A24N-01",3035,0,0.996393442153931,1,1,1,1,1,-1,1,-0.999983847141266,1,-0.975268185138702,1,1,-0.755876541137695,-1,1,-1,1,1,1,1,-1 165 | "TCGA-AR-A24O-01",3607,0,-1,-1,1,0.999607503414154,-1,1,-1,-0.144360139966011,-0.999997675418854,1,0.855912864208221,0.999999225139618,-1,-1,-1,1,-1,-1,1,-1,1,-1 166 | "TCGA-AR-A24P-01",84,0,-0.999971449375153,1,1,1,-1,1,-1,1,-1,1,-1,1,1,-1,-1,0.999996721744537,-1,1,1,0.996356308460236,1,-1 167 | "TCGA-AR-A24Q-01",3172,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.999999046325684,1,1,-1,1,1,-1,1,-1,1 168 | "TCGA-AR-A24R-01",3430,0,1,1,-0.999935626983643,1,0.99999988079071,1,-1,1,0.994555175304413,1,-1,1,1,0.261127173900604,-1,0.999997437000275,-1,1,1,1,1,-1 169 | "TCGA-AR-A24S-01",2976,0,-1,-1,-0.996122300624847,-1,-1,-1,1,-1,1,-1,1,-1,-1,1,1,-0.999995052814484,1,1,-1,-1,-1,1 170 | "TCGA-AR-A24T-01",3202,0,-1,1,1,1,-1,-1,-1,1,-1,1,-1,1,-1,-1,-1,-1,-1,-0.997849404811859,1,1,0.999993503093719,-1 171 | "TCGA-AR-A24U-01",3128,0,-1,-0.704999983310699,-0.999776303768158,-0.999978125095367,-1,1,-1,-1,1,0.999997913837433,1,-1,-1,-0.0502012148499489,0.999975740909576,-1,-0.999998211860657,-0.971484780311584,1,-1,-0.999996244907379,1 172 | "TCGA-AR-A24V-01",3203,0,0.997295379638672,-1,1,-1,-1,1,-1,1,-1,-1,0.994142174720764,-1,1,-1,1,1,0.999999761581421,-1,1,-1,1,-1 173 | "TCGA-AR-A24W-01",991,0,-1,0.999999701976776,1,1,-1,-0.999999761581421,-1,-1,-0.999972999095917,1,0.999983370304108,1,-1,-1,1,-1,-1,1,1,-0.999569416046143,1,1 174 | "TCGA-AR-A24X-01",3004,0,-1,1,1,1,-0.884076297283173,1,-1,-0.99997353553772,-1,1,-1,1,-1,-1,-1,1,-1,1,1,0.999887347221375,1,-0.999929666519165 175 | "TCGA-AR-A24Z-01",3001,0,-1,-1,1,1,-1,1,0.999995350837708,1,-0.999989330768585,-1,0.932139873504639,-1,1,1,-1,0.856630206108093,1,1,-1,1,-1,0.953221499919891 176 | "TCGA-AR-A250-01",2707,0,-1,1,-1,1,-1,-1,-1,-0.990662634372711,-1,-1,0.895065367221832,-1,1,1,-0.999999821186066,1,-0.812590897083282,1,-1,1,-1,1 177 | "TCGA-AR-A251-01",3030,0,1,-1,-0.999999940395355,-1,0.999575138092041,-1,0.999999821186066,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 178 | "TCGA-AR-A252-01",2838,0,-1,1,1,1,-1,0.985606849193573,-1,-1,-1,1,1,0.999962329864502,-1,-1,-1,-1,-1,-1,1,0.999979853630066,1,-1 179 | "TCGA-AR-A254-01",2605,0,1,1,-1,-1,1,-1,-1,0.809121191501617,1,1,1,-1,1,-0.99998265504837,0.98728734254837,-1,0.999999403953552,1,-1,1,1,1 180 | "TCGA-AR-A255-01",2161,0,-1,1,1,1,-1,-1,-1,0.99999988079071,1,0.99999988079071,0.460383802652359,-0.999999582767487,1,1,0.999995350837708,-1,1,0.999708831310272,-1,1,-1,1 181 | "TCGA-AR-A256-01",2854,1,1,-1,-1,-1,0.000852465338539332,-1,1,-1,0.99999988079071,-1,1,-1,0.999832034111023,1,1,-1,1,0.99999988079071,-1,1,-1,1 182 | "TCGA-AR-A2LE-01",5062,0,-1,1,1,-1,-0.999978542327881,1,-0.999964714050293,-1,-1,-1,-1,1,-0.99995094537735,-1,-0.99999988079071,1,-1,1,1,-1,1,-1 183 | "TCGA-AR-A2LH-01",616,1,-1,1,1,1,-1,-1,-1,-0.969434559345245,-1,1,-1,1,-1,-1,-1,-1,-1,-1,1,-0.999931812286377,1,1 184 | "TCGA-AR-A2LJ-01",2632,0,-1,1,0.999999284744263,-0.999325096607208,-1,1,1,-0.133659169077873,-1,1,-1,0.490850210189819,-1,-1,-1,1,-1,-1,1,-1,1,0.978540003299713 185 | "TCGA-AR-A2LK-01",1649,1,1,0.998985111713409,-0.702938973903656,-1,1,0.978115320205688,-1,1,1,-1,0.973065137863159,0.996045231819153,1,0.830402195453644,0.983438074588776,1,0.516941905021667,1,1,1,-1,-1 186 | "TCGA-AR-A2LM-01",1935,0,-1,1,1,-1,-1,1,-1,0.353229343891144,-1,1,-1,1,-1,-1,-1,1,-1,1,0.99997740983963,-0.999999046325684,1,-0.999998152256012 187 | "TCGA-AR-A2LN-01",1161,0,-1,1,1,1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,-1,1,-1,1,-0.999685823917389 188 | "TCGA-AR-A2LO-01",1198,0,-1,1,1,1,-1,1,-1,-1,-0.996245443820953,1,-1,1,-1,-1,0.988839507102966,-0.999983370304108,-1,1,1,1,1,-0.99438750743866 189 | "TCGA-AR-A2LQ-01",1233,0,-1,1,1,1,-1,-1,-1,-1,-0.99999612569809,1,-1,1,-1,-1,1,-1,-1,-1,1,-1,1,1 190 | "TCGA-AR-A5QM-01",2231,0,-1,1,1,1,-1,1,-1,1,-1,1,-1,1,-1,-0.68797767162323,-1,1,-1,-1,1,-1,1,-1 191 | "TCGA-AR-A5QN-01",1013,0,-1,1,1,-0.149714380502701,1,1,-1,0.866503357887268,0.638919413089752,1,-1,1,1,-0.999976634979248,-1,-1,-0.997241497039795,-1,1,1,1,-1 192 | "TCGA-AR-A5QP-01",1185,0,-1,1,1,1,-1,1,-1,-0.95386266708374,-1,0.855214178562164,-0.958982825279236,1,-1,-1,-1,0.999765336513519,-1,-0.999949812889099,1,1,1,-1 193 | "TCGA-AR-A5QQ-01",322,1,1,-1,-1,-1,-1,-1,1,-1,-1,1,1,-1,-1,1,0.999999761581421,-1,0.989855051040649,-1,-0.999994993209839,-1,1,1 194 | "TCGA-B6-A0I1-01",2361,1,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,1,-1,1 195 | "TCGA-B6-A1KC-01",1326,0,-1,-1,1,0.999999642372131,-0.999846041202545,0.0495900437235832,1,-0.999872744083405,1,-1,1,0.999999821186066,1,1,0.999999821186066,1,1,1,0.995177626609802,1,-1,-0.999862313270569 196 | "TCGA-B6-A1KF-01",3088,0,1,0.999999523162842,-1,-0.999976634979248,1,-1,-0.971676826477051,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,1,-1,1 197 | "TCGA-B6-A1KI-01",2236,0,-1,-0.999999761581421,1,-1,-1,1,1,-0.999999761581421,-1,-1,-1,1,0.90215265750885,-1,-1,1,-1,-1,1,-1,1,-1 198 | "TCGA-B6-A1KN-01",4233,0,-0.980498790740967,-0.999050617218018,0.955614745616913,0.0972781330347061,-0.99999862909317,1,-1,1,1,1,-0.993599653244019,1,1,-0.999998211860657,-0.95275342464447,-1,1,1,0.999966144561768,1,1,1 199 | "TCGA-B6-A2IU-01",5176,0,-0.87678337097168,1,1,1,-1,1,-1,1,-1,1,-1,0.999938249588013,0.541266560554504,-1,-1,1,-1,1,1,-0.755813956260681,1,-1 200 | "TCGA-B6-A3ZX-01",1152,1,-1,-1,-1,-1,-1,-1,1,-1,0.998619437217712,0.944679439067841,-0.990886628627777,-0.999999701976776,-1,-1,1,-1,-0.864926815032959,1,1,-0.995374381542206,1,1 201 | "TCGA-B6-A400-01",215,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,0.987666308879852,0.872728943824768,-1,1 202 | "TCGA-B6-A401-01",2596,0,-0.999891996383667,-1,0.999994218349457,0.799116134643555,1,-1,1,1,0.999969661235809,1,-1,1,-1,1,1,-0.998151838779449,-0.999997794628143,-1,0.866804778575897,-0.999973952770233,1,-1 203 | "TCGA-B6-A402-01",2134,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.883785963058472,1,1,-1,1,1,-1,1,-1,1 204 | "TCGA-B6-A408-01",2072,0,-1,-1,1,1,-0.999980688095093,1,1,1,-1,-1,-0.402928948402405,-0.863043129444122,-0.998826026916504,1,-1,1,-0.999635994434357,-1,1,-1,0.82648092508316,0.635345339775085 205 | "TCGA-B6-A409-01",573,1,1,-1,0.952908635139465,-1,1,-1,1,-0.99999326467514,1,-1,0.99999988079071,-1,-1,1,1,-1,1,1,-1,1,-1,1 206 | "TCGA-B6-A40B-01",3152,0,0.312695860862732,1,1,1,-1,1,-1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-0.999968290328979,1,-1 207 | "TCGA-B6-A40C-01",2164,0,1,1,-0.999987840652466,0.999999761581421,0.999999821186066,1,1,1,-0.999998807907104,-0.999999642372131,-0.959362685680389,0.999938488006592,0.869939863681793,1,-1,1,1,-0.991336286067963,-1,-1,-1.00000011920929,-1 208 | "TCGA-BH-A0AU-01",1914,0,-1,-1,1,0.999999821186066,1,1,-0.407098233699799,-1,0.999996721744537,1,1,0.986190974712372,1,-1,-1,-1,0.998116970062256,1,-1,0.999688386917114,-1,-1 209 | "TCGA-BH-A0AZ-01",1919,0,-1,1,1,0.999999821186066,-1,-1,-1,-1,-1,-0.998495995998383,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-0.97965544462204 210 | "TCGA-BH-A0B5-01",2136,0,-1,1,1,1,-1,1,-1,1,-0.999996602535248,0.999997913837433,-1,1,1,-1,-1,1,-1,-1,1,1,1,-1 211 | "TCGA-BH-A0BF-01",1324,1,-1,-1,-0.999719977378845,-1,-1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,-0.676790058612823,-0.99999988079071,-1,0.97924530506134,0.999999821186066,1 212 | "TCGA-BH-A0BS-01",2612,0,-0.999918639659882,-0.979868590831757,1,-1,-1,1,1,-0.911812245845795,-1,-1,-1,1,-1,-1,-0.999994814395905,1,-1,0.443843156099319,0.999991774559021,-1,1,-0.999985635280609 213 | "TCGA-BH-A0BT-01",2365,0,1,-0.999999582767487,-1,0.999998509883881,1,1,1,1,1,-1,1,-0.777005136013031,1,1,1,1,1,0.999998211860657,-1,1,-1,-1 214 | "TCGA-BH-A0BZ-01",2255,0,1,0.999999821186066,-1,1,0.999999642372131,0.302479833364487,-1,1,1,1,-1,1,0.999842166900635,0.997434914112091,1,1,-0.999999642372131,-1,-0.378410547971725,1,1,-1 215 | "TCGA-BH-A0C3-01",2709,0,-1,0.986014783382416,1,1,-1,1,-1,-0.998465776443481,-0.999975800514221,1,-1,0.999999284744263,-1,-1,-1,0.998808979988098,-1,-1,1,-1,1,-1 216 | "TCGA-BH-A0DD-01",2486,0,1,0.463349401950836,-1,0.9999960064888,-0.953447103500366,-1,-0.999999344348907,1,1,-0.757943451404572,1,0.966207265853882,1,1,1,0.998550117015839,1,-0.999998331069946,-0.999967634677887,0.229589834809303,-1,-1 217 | "TCGA-BH-A0DG-01",2041,0,-1,0.818649768829346,1,0.98013836145401,1,-1,-1,0.985254764556885,-1,0.999249577522278,-1,0.997589826583862,-1,-1,-1,0.999987542629242,-0.998648941516876,0.99999988079071,0.99999988079071,-1,1,1 218 | "TCGA-BH-A0DI-01",912,0,-1,-0.999994695186615,1,-1,-0.999998927116394,-1,-1,-0.880767464637756,-1,-0.99999988079071,-1,0.999993324279785,-1,-1,-1,-1,-1,-1,1,-1,1,-1 219 | "TCGA-BH-A0DV-01",2064,0,-1,1,1,1,-1,1,-1,-0.999988317489624,-0.955497145652771,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,0.26353731751442 220 | "TCGA-BH-A0E2-01",435,0,1,1,1,0.99997878074646,1,-0.0580405183136463,-1,1,1,-1,1,-1,1,-1,-1,-1,1,0.978988707065582,-0.999998509883881,-0.999281287193298,1,1 221 | "TCGA-BH-A0H3-01",1928,0,0.998024106025696,1,1,0.932140707969666,-0.514021933078766,1,-1,-0.0145215010270476,1,-0.96630847454071,-1,1,-1,-1,-1,0.942176342010498,-1,0.999981760978699,1,-1,1,-1 222 | "TCGA-BH-A0HA-01",1611,0,-1,1,1,1,-1,1,-1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 223 | "TCGA-BH-A0HN-01",516,0,1,-1,0.99992436170578,0.999910056591034,1,1,1,1,-1,-0.999391198158264,-1,1,0.964879095554352,-0.98788994550705,-0.72072958946228,1,-1,-1,-1,-1,1,-0.999989330768585 224 | "TCGA-BH-A1EN-01",2127,1,1,1,1,1,1,1,-1,1,-0.999999940395355,-0.666687428951263,1,1,1,1,-1,0.00490670371800661,0.999999701976776,0.984801888465881,-0.999995529651642,1,-1,-1 225 | "TCGA-BH-A1EO-01",2798,1,1,-1,1,1,0.669827878475189,-1.00000011920929,-1,-0.834002315998077,1,-0.998160243034363,-1,1,1,-1,-0.68021833896637,1,-1,-1,1,0.999999940395355,1,0.999996066093445 226 | "TCGA-BH-A1ES-01",3462,1,0.680844068527222,1,1,1,-1,1,-1,1,-0.998579740524292,1,0.999550759792328,1,1,-1,-1,0.999991893768311,-1,-1,1,1,1,-1 227 | "TCGA-BH-A1ET-01",2520,1,-1,1,1,1,-1,1,-1,-1,-0.999999940395355,-0.999984979629517,1,-0.996038913726807,0.98681116104126,-1,1,1,-1,1,1,-1,1,-1 228 | "TCGA-BH-A1EU-01",1286,1,-1,1,1,-0.999997973442078,-1,0.999936640262604,-1,-1,-0.904784798622131,0.99999988079071,1,1,-1,-1,1,-1,-1,-1,1,-1,1,-1 229 | "TCGA-BH-A1EV-01",365,1,1,-1,-0.99999463558197,-1,1,-0.999999642372131,-1,-0.449800252914429,-1,-1,1,-1,1,-1,1,-0.99991649389267,-1,1,-1,1,1,1 230 | "TCGA-BH-A1EW-01",1694,1,1,1,1,0.999999821186066,-0.384405821561813,-0.99994307756424,-1,-1,-0.994754254817963,0.999990344047546,1,1,1,0.999782204627991,1,-0.99994820356369,1,1,0.836182057857513,1,0.911956489086151,1 231 | "TCGA-BH-A1EX-01",1508,1,1,-1,-0.999999582767487,-1,0.997405052185059,1,0.998246490955353,-0.99998539686203,1,-1,1,-1,1,-0.373597145080566,-0.99999988079071,0.999999344348907,1,1,-1,-0.999999344348907,-1,-1 232 | "TCGA-BH-A1EY-01",538,1,-1,-1,-0.993774116039276,-1,-1,1,-1,0.999918878078461,-1,-0.999990880489349,1,1,-1,-1,-1,0.990984559059143,-1,-1,-0.999976813793182,-1,1,-1 233 | "TCGA-BH-A1F0-01",785,1,-1,-0.999999701976776,-1,-1,-1,-1,-1,-1,-1,1,1,-1,-1,-0.999955177307129,1,-1,0.903729438781738,0.999999821186066,-1,-0.999291181564331,-0.999995648860931,1 234 | "TCGA-BH-A1F2-01",959,1,1,-1,-1,-1,1,-1,0.999998807907104,-1,-0.979620575904846,-1,1,-1,1,1,0.999996900558472,-1,1,1,-1,1,-1,0.809926688671112 235 | "TCGA-BH-A1F5-01",2712,1,1,-1,1,1,-1,1,-1,1,-1,-1,0.808200716972351,1,1,-1,-1,0.302399635314941,-1,1,1,-0.749614894390106,1,-1 236 | "TCGA-BH-A1F6-01",2965,1,1,-1,-1,-1,1,-1,1,-1,1,0.99990713596344,1,-1,-0.985797584056854,1,1,-1,1,0.999997019767761,-1,1,-1,1 237 | "TCGA-BH-A1F8-01",763,1,0.994901776313782,-0.99998527765274,-1,1,0.962592661380768,0.999999344348907,-1,-0.999999642372131,0.999999642372131,-1,1,-1,1,1,-1,-1,1,0.998148143291473,-0.999978363513947,1,-1,1 238 | "TCGA-BH-A1FB-01",3669,1,-1,-1,1,-0.999995231628418,-1,0.99902755022049,-0.999999821186066,-1,-0.999982595443726,-1,-0.999998927116394,1,-1,-1,-1,0.986396491527557,-1,-1,1,-1,1,0.999999046325684 239 | "TCGA-BH-A1FC-01",3472,1,-0.690720021724701,-0.99999988079071,-1,1,-0.8744877576828,-1,1,-1,1,1,-0.999992072582245,-0.99996292591095,-1,1,1,0.824774026870728,1,1,-1,1,-1,1 240 | "TCGA-BH-A1FE-01",2273,1,-1,0.967581212520599,1,1,-1,-1,-0.999999523162842,-1,1,0.999710142612457,1,0.999848186969757,-1,-1,1,-1,-0.999999940395355,1,1,1,1,1 241 | "TCGA-BH-A1FG-01",3736,1,1,-1,1,-0.999190509319305,-1,0.99994695186615,-0.99999988079071,0.995228111743927,-1,-0.800116777420044,-1,0.999999523162842,-0.969388484954834,-1,1,1,-0.999828994274139,1,1,-0.999997735023499,0.997977018356323,-1 242 | "TCGA-BH-A1FH-01",1034,1,-1,-1,1,-1,-1,0.999998033046722,-1,-1,-1,-1,0.0373683199286461,1,-1,-1,-1,-0.994874954223633,-1,-1,1,-1,1,1 243 | "TCGA-BH-A1FJ-01",1927,1,0.997649729251862,1,-1,0.788641631603241,1,1,-1,1,-1,1,-1,1,1,1,1,1,-1,1,-0.993409931659698,1,1,-1 244 | "TCGA-BH-A1FL-01",1673,1,-1,1,1,1,-0.999754428863525,1,0.999993920326233,1,-1,-1,-1,1,0.999858200550079,-1,-0.967935025691986,1,-1,-0.955892324447632,1,-0.999036371707916,1,-1 245 | "TCGA-BH-A1FM-01",1388,1,1,-1,-1,1,0.836952745914459,1,-1,0.999740898609161,1,1,1,-1,1,1,0.999999701976776,-1,1,0.999999523162842,-1,1,-1,0.999996364116669 246 | "TCGA-BH-A1FN-01",2192,1,1,-1,-1,-1,0.999999701976776,-1,1,-1,1,-1,1,-1,0.999999940395355,1,1,0.999940812587738,1,1,-1,-0.896834075450897,-1,1 247 | "TCGA-BH-A1FR-01",1642,1,-1,0.529904365539551,1,1,-1,0.997809231281281,0.993479013442993,0.938957393169403,0.825883984565735,1,-1,1,-1,-1,-1,1,-1,0.999999642372131,1,-1,1,-1 248 | "TCGA-BH-A1FU-01",1688,1,-1,1,1,-1,-1,-1,-1,-1,0.983134508132935,1,0.999999701976776,-0.999982893466949,-1,-1,1,-1,-1,0.999999940395355,1,1,1,1 249 | "TCGA-BH-A201-01",856,0,1,-1,1,-1,-1,-1,1,-1,-1,-1,-1,1,-1,-1,-1,-1,-0.99999988079071,0.995643138885498,1,-1,1,1 250 | "TCGA-BH-A202-01",795,0,1,1,-0.999997138977051,-1,1,1,1,-1,1,1,1,-1,1,1,-1,-1,1,0.999999523162842,-1,1,-1,1 251 | "TCGA-BH-A203-01",1174,1,-1,1,0.98738294839859,-0.999998509883881,1,-0.999999284744263,1,-1,1,1,1,1,-0.999981582164764,1,-0.999992191791534,-1,0.999994337558746,1,-1,1,1,0.999489068984985 252 | "TCGA-BH-A204-01",2534,1,1,1,1,1,0.203227669000626,1,-0.99999988079071,1,1,1,1,0.962055087089539,1,-1,-1,1,0.999934554100037,1,0.947871267795563,1,-1,-1 253 | "TCGA-BH-A208-01",1759,1,1,-1,1,-1,-1,1,1,-1,-1,-1,1,-1,-1,-1,0.997048497200012,-1,1,-1,-1,-1,-1,1 254 | "TCGA-BH-A209-01",3959,1,-1,1,-1,1,0.99984484910965,-0.99130392074585,-1,0.999960899353027,1,1,-1,-0.528457343578339,1,0.999999821186066,1,0.980359971523285,1,1,-1,1,-1,-0.999916911125183 255 | "TCGA-BH-A28O-01",1120,0,-1,-0.999996781349182,1,-0.99999988079071,-1,-1,0.993176400661469,-1,-1,-0.931075632572174,-1,1,-1,-1,-0.999990344047546,0.982374548912048,-1,-1,1,-1,1,1 256 | "TCGA-BH-A28Q-01",1119,0,-1,1,1,1,-1,1,-1,1,-1,1,-1,1,1,0.999961674213409,-1,1,-1,1,1,0.942798674106598,1,-1 257 | "TCGA-BH-A2L8-01",612,0,-1,1,0.999848783016205,1,-1,1,-1,0.999888598918915,-1,1,-1,1,-1,-1,0.999992311000824,0.961308538913727,-1,-0.252925783395767,1,-0.999999403953552,1,-1 258 | "TCGA-BH-A42T-01",320,1,-1,0.999992072582245,-1,-1,1,1,1,1,1,-1,-0.999536097049713,-1,1,1,1,-1,1,0.993740916252136,-0.999930560588837,1,-1,-1 259 | "TCGA-BH-A42U-01",3364,0,-1,-1,1,-1,-0.999761998653412,1,1,-1,-1,-1,0.91502583026886,1,-1,-1,-1,-1,-1,-1,1,-1,1,-1 260 | "TCGA-BH-A42V-01",635,0,-1,-0.99999988079071,1,-0.999956071376801,-1,1,1,-1,-1,-0.965480923652649,-1,1,-1,-1,-1,-0.998848795890808,-1,-1,1,-1,1,0.929257810115814 261 | "TCGA-BH-A5IZ-01",567,0,1,-0.999969959259033,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,-0.965930998325348,-1,1 262 | "TCGA-BH-A5J0-01",715,0,0.993793189525604,-0.970775127410889,-1,-0.999999821186066,-0.99978893995285,1,1,1,-0.999999821186066,-1,1,-1,-1,-0.884745240211487,-0.999999821186066,1,-1,-1,1,-1,1,-1 263 | "TCGA-BH-A6R8-01",293,0,1,-0.992691159248352,-1,-0.662824869155884,-1,1,1,1,1,-0.999998807907104,-1,-0.999957144260406,1,1,-0.999543964862823,1,1,-1,-0.999999344348907,1,-0.99985545873642,-1 264 | "TCGA-BH-A6R9-01",160,0,0.999073147773743,0.9998539686203,1,-0.990715324878693,1,-1,-1,-1,0.999999821186066,0.999997794628143,-1,0.999997675418854,-1,-1,0.998025119304657,-1,-1,-1,-0.999886572360992,-1,1,-1 265 | "TCGA-BH-A8FY-01",295,1,1,1,-1,1,1,1,1,1,-1,1,-1,1,1,0.220203697681427,0.188255444169044,1,0.997826933860779,-1,0.997384071350098,-1,0.396813482046127,-1 266 | "TCGA-BH-A8FZ-01",574,0,-1,-0.976200222969055,1,0.995972812175751,-1,1,1,-1,-1,1,-0.747447431087494,1,-1,-1,-1,-0.999910354614258,-1,-1,1,-1,1,-0.975593686103821 267 | "TCGA-BH-A8G0-01",662,0,-1,0.430680125951767,1,-1,-1,-1,1,-1,-1,-0.975236892700195,-1,1,-1,-1,-1,-0.63933938741684,-1,-1,1,-1,1,-0.767845332622528 268 | "TCGA-BH-AB28-01",287,0,-1,1,-0.77437025308609,1,0.52045863866806,0.77929550409317,-1,1,1,1,-1,1,1,-1,1,0.999998927116394,-1,1,-0.999997019767761,1,1,-1 269 | "TCGA-C8-A1HE-01",375,0,-1,1,1,1,-1,1,-0.999999284744263,1,-1,0.999950051307678,-1,1,1,-1,-1,1,-1,1,1,-1,1,-1 270 | "TCGA-C8-A1HF-01",332,0,1,-1,-1,0.999999701976776,1,-1,1,1,1,1,0.984667181968689,0.996098279953003,-0.80453896522522,1,1,1,1,1,-1,0.999999701976776,-1,0.999999940395355 271 | "TCGA-C8-A1HG-01",345,0,1,-1,-1,-0.999906837940216,-1,-1,1,1,-0.23805944621563,0.999999821186066,1,-1,1,0.999979019165039,-1,-1,0.999999821186066,-0.999702394008636,-1,-1,-1,1 272 | "TCGA-C8-A1HI-01",343,0,1,1,1,1,-1,1,-1,1,-1,1,-0.99999988079071,1,1,-1,-0.99963116645813,0.981224656105042,-1,0.962045431137085,1,-0.999920308589935,1,1 273 | "TCGA-C8-A1HJ-01",5,0,1,-1,-1,-1,1,-1,1,-1,1,-0.999999582767487,1,-1,1,1,1,-1,1,1,-1,1,-1,1 274 | "TCGA-C8-A1HK-01",366,0,1,-0.99140864610672,-1,-1,1,-1,-0.999999403953552,-1,-1,-1,1,-1,1,1,0.999346733093262,0.99935108423233,1,1,-1,1,-1,1 275 | "TCGA-C8-A1HL-01",317,0,1,-1,-1,-0.996732532978058,-1,-0.99999988079071,0.999975979328156,1,-1,-0.999988853931427,1,-1,1,1,-1,1,1,-1,-1,1,1,1 276 | "TCGA-C8-A1HM-01",375,0,0.997468233108521,-1,-1,1,0.999847412109375,-0.99999463558197,-1,-1,0.883382320404053,-1,1,-1,1,1,1,-1,-1,-0.99999076128006,-1,1,-1,0.999765455722809 277 | "TCGA-C8-A1HN-01",394,0,1,-0.999266505241394,-1,1,0.99999988079071,1,0.999679565429688,-1,1,-0.999999642372131,1,-1,1,1,-0.999995231628418,-1,1,0.918333768844604,-1,0.94873046875,-1,1 278 | "TCGA-C8-A1HO-01",375,0,-1,1,1,1,-0.999998331069946,1,-1,0.999999046325684,-1,1,1,0.999999821186066,1,1,1,-0.998317062854767,-0.581558704376221,-0.988739967346191,1,1,0.999557018280029,-1 279 | "TCGA-C8-A26V-01",616,0,-1,1,1,1,-1,1,-0.997500777244568,1,-1,1,-1,1,1,1,-1,-0.999998927116394,-1,0.999999344348907,1,1,0.999825537204742,-1 280 | "TCGA-C8-A26W-01",381,0,0.997354686260223,-1,0.999846041202545,-1,-1,-1,1,-1,-1,-0.99985533952713,1,-1,-1,1,-0.996121346950531,-0.999991238117218,1,1,-1,-0.993800759315491,-1,1 281 | "TCGA-C8-A26X-01",376,0,-0.999810874462128,1,0.999999642372131,-1,1,-1,-1,-0.999974727630615,1,1,0.999980032444,-1,-1,1,1,1,-1,0.936000883579254,0.998319387435913,1,-1,-1 282 | "TCGA-C8-A26Y-01",394,0,1,1,-1,-0.990458309650421,-1,-0.999999701976776,0.999999344348907,0.701518535614014,-0.999999940395355,1,1,-1,-1,1,-1,1,-0.999978125095367,1,-0.999999940395355,1,-0.873539984226227,1 283 | "TCGA-C8-A26Z-01",470,0,0.984561085700989,1,1,1,-1,1,-1,1,1,1,-0.772776544094086,-1,1,-1,-0.993022501468658,0.9999960064888,-1,-1,-0.999523103237152,1,-1,0.999664187431335 284 | "TCGA-C8-A273-01",513,0,1,-1,1,1,0.999996244907379,1,-0.746962249279022,1,-0.933428287506104,1,0.999999940395355,1,1,1,-1,1,1,1,-1,1,-1,-1 285 | "TCGA-C8-A274-01",508,0,-1,1,1,1,-0.988847494125366,1,-1,1,0.999999463558197,1,-1.00000011920929,1,1,0.996330738067627,-1,1,-1,1,1,1,0.99999988079071,-1 286 | "TCGA-C8-A275-01",1,0,1,1,-0.999998688697815,-1,0.169656917452812,-1,-1,0.68124532699585,1,1,-1,1,-0.999989151954651,-0.954007804393768,-0.999878168106079,-1,-1,1,1,1,-1,0.978753983974457 287 | "TCGA-C8-A278-01",297,0,-1,0.999943971633911,-1,-0.999984920024872,-0.872590780258179,-1,0.4985311627388,-1,1,-0.999999821186066,1,1,-1,1,1,-1,1,0.999999940395355,-1,0.999696671962738,-1,0.999981343746185 288 | "TCGA-C8-A27A-01",747,0,1,1,-0.72898530960083,1,1,-1,-1,-0.99999988079071,-0.999999821186066,1,-0.995451807975769,1,1,-1,1,0.392851263284683,1,1,-1,1,-1,0.999998331069946 289 | "TCGA-C8-A27B-01",439,0,0.559899270534515,-1,-1,-1,1,-1,1,-1,1,1,1,-1,-0.992985665798187,1,1,-1,1,1,-1,1,-1,1 290 | "TCGA-C8-A3M7-01",1034,1,-1,1,1,1,-1,1,-1,-1,-0.99999988079071,0.999589920043945,-1,-1,-1,-1,-1,1,-1,-1,1,1,1,-0.643279016017914 291 | "TCGA-C8-A3M8-01",394,0,-1,1,0.773847877979279,1,1,1,-1,1,1,1,-1,0.999996364116669,1,1,0.999999761581421,-1,1,-0.88345992565155,0.822881460189819,1,-1,-1 292 | "TCGA-C8-A8HP-01",396,0,-1,1,-1,-1,-0.999887526035309,-1,1,-1,0.195010349154472,1,-0.949674904346466,-1,-1,0.999996781349182,-1,-1,-0.994369208812714,-1,-1,-0.999993681907654,-0.999921917915344,0.995422899723053 293 | "TCGA-C8-A8HQ-01",380,0,-1,1,1,-1,1,-1,-1,1,-1,-0.967933893203735,1,1,-1,-1,0.0306100528687239,-0.99999988079071,0.757382273674011,1,-0.203722268342972,-0.999950587749481,1,-1 294 | "TCGA-C8-A8HR-01",408,0,-1,0.909354746341705,1,-1,-1,-0.999999165534973,1,-1,-0.974596679210663,1,-1,1,-1,-1,-1,-1,-0.998956561088562,-1,1,-1,1,1 295 | "TCGA-D8-A1J8-01",431,0,-1,1,0.999983012676239,1,1,1,-0.999992549419403,-0.997938394546509,1,1,1,1,-0.99999988079071,1,-1,1,-1,1,1,0.999999821186066,-1,-0.999925434589386 296 | "TCGA-D8-A1J9-01",532,0,0.999568402767181,-1,-0.999999642372131,-1,-0.998590469360352,-0.999999284744263,-1,-1,-1,-1,1,0.999991595745087,-1,1,-1,-1,-1,1,0.99979168176651,-0.999983131885529,-1,-0.745144248008728 297 | "TCGA-D8-A1JA-01",502,0,-1,-1,-1,-1,-1,-0.999082028865814,-1,-1,0.999981641769409,-1,1,-1,1,1,1,-1,1,0.994971394538879,0.743675947189331,1,-1,0.999989092350006 298 | "TCGA-D8-A1JB-01",1688,0,-1,-1,1,0.999996483325958,-1,-1,-1,-1,-1,-0.999998509883881,1,1,-1,-1,-1,-1,-1,-1,1,-1,1,1 299 | "TCGA-D8-A1JC-01",480,0,1,-0.999960482120514,1,0.998846292495728,0.999506175518036,0.999939501285553,-1,-0.999610245227814,-0.349245846271515,1,1,-1,1,1,1,-1,0.83141016960144,1,-0.999949336051941,0.998933792114258,-0.999998092651367,-0.913626253604889 300 | "TCGA-D8-A1JD-01",552,0,0.982833325862885,-1,1,-1,0.999611735343933,-1,1,-1,-1,-1,0.999999463558197,1,1,0.997062206268311,0.524098753929138,1,1,1,0.99999988079071,-0.999999403953552,0.999999523162842,0.999991893768311 301 | "TCGA-D8-A1JE-01",575,0,-0.83479517698288,-1,1,-1,-1,-0.999935567378998,-1,-0.969393193721771,-1,0.991991639137268,1,1,-1,-1,-0.999919474124908,1,-1,-1,1,-1,1,-0.999991655349731 302 | "TCGA-D8-A1JF-01",366,0,1,-1,1,-1,1,1,-0.859909772872925,-1,1,1,1,-0.999994933605194,1,1,-1,-1,0.999999403953552,1,-1,1,-1,-0.999999165534973 303 | "TCGA-D8-A1JG-01",1612,0,-1,0.999997198581696,1,1,1,-1,1,-1,1,0.999995589256287,0.999884605407715,-0.999961972236633,0.999774575233459,1,1,-0.997819423675537,1,-1,-1,1,-1,0.995011866092682 304 | "TCGA-D8-A1JH-01",426,0,-1,1,0.999967217445374,1,-1,0.999998509883881,-1,1,-1,1,-1,1,-1,-1,1,0.945183336734772,-1,0.999995350837708,1,-1,-0.999487936496735,-0.959164679050446 305 | "TCGA-D8-A1JI-01",577,0,-1,1,1,1,0.888217210769653,1,-1,1,1,1,-0.999999105930328,0.999989807605743,1,-1,1,1,-0.999797582626343,-0.999999761581421,1,-1,-0.973147451877594,-1 306 | "TCGA-D8-A1JJ-01",611,0,-1,-1,-0.999999225139618,-1,1,1,1,-1,1,-1,1,-1,-1,-0.9999840259552,0.999992728233337,-1,1,-0.840457201004028,-0.999997854232788,0.732121288776398,-0.992689371109009,1 307 | "TCGA-D8-A1JK-01",612,0,0.999997854232788,-0.999999821186066,-1,-1,1,0.999818921089172,1,-1,0.999548554420471,0.983125388622284,1,-1,-1,1,1,1,1,1,-1,-0.999999701976776,-1,0.999850273132324 308 | "TCGA-D8-A1JL-01",611,0,-1,-1,1,-1,-1,-1,1,-1,1,-0.999954283237457,1,-1,-1,1,1,-1,1,1,-0.796495079994202,1,-1,1 309 | "TCGA-D8-A1JN-01",620,0,-1,1,1,1,-1,1,-0.386333614587784,1,-1,-1,0.999999940395355,1,1,-0.999998152256012,-1,1,-0.717043101787567,-1,-1,-1,-0.0436482615768909,-1 310 | "TCGA-D8-A1JP-01",639,0,1,-1,-1,-1,1,-1,1,-1,-0.818970263004303,-1,1,-1,1,0.999976396560669,1,-1,1,1,-1,0.995112359523773,-1,1 311 | "TCGA-D8-A1JS-01",371,0,1,-0.99999988079071,1,1,0.999737858772278,1,1,1,-1,1,-1,0.999926567077637,1,-1,-1,1,-1,-1,-0.997917056083679,-0.999968469142914,1,-0.999999940395355 312 | "TCGA-D8-A1JT-01",405,0,1,1,1,1,-1,1,-1,1,-1,-1,-0.999991893768311,1,1,-1,-1,1,-0.930667996406555,1,0.999994039535522,1,1,-1 313 | "TCGA-D8-A1JU-01",447,0,-1,-1,1,0.999258875846863,-1,-0.994226276874542,-1,-1,-1,-0.999999821186066,-1,1,-1,-1,0.897158920764923,-0.999625504016876,-1,-1,1,-0.999999821186066,1,-0.99999988079071 314 | "TCGA-D8-A1X5-01",565,0,1,0.919146776199341,1,1,1,1,-1,-1,1,-1,1,-1,1,1,1,-1,1,1,0.999972462654114,1,-1,-0.999999523162842 315 | "TCGA-D8-A1X6-01",541,0,1,-1,1,0.999998927116394,-0.977001368999481,1,1,1,-1,-1,-1,0.999993085861206,0.999996960163116,-1,-1,1,-1,-1,1,-1,1,-0.999883413314819 316 | "TCGA-D8-A1X7-01",509,0,1,-1,-0.725319504737854,-1,1,-0.991384088993073,1,1,-1,-1,1,-1,1,0.999994874000549,-1,1,1,-0.997645914554596,-1,-1,1,-0.934516906738281 317 | "TCGA-D8-A1X8-01",783,0,-1,0.9996457695961,1,1,0.66302752494812,0.868691980838776,-1,-1,-0.999998450279236,-1,-0.999981999397278,1,-1,-1,-1,1,-1,-0.999997317790985,1,-1,1,-1 318 | "TCGA-D8-A1X9-01",727,0,-1,1,1,1,0.770308017730713,1,-1,1,1,1,-1,0.999999642372131,1,-0.999723136425018,-0.99988067150116,1,-1,-1,1,0.997437655925751,1,-1 319 | "TCGA-D8-A1XA-01",839,0,0.999866187572479,-1,1,1,-1,1,-0.999998867511749,1,0.999915838241577,-0.99999874830246,-1,-1,1,-0.919562101364136,-1,0.999999940395355,-0.607159197330475,-1,-1,1,-1,-1 320 | "TCGA-D8-A1XB-01",552,0,-1,1,1,1,-1,0.999667048454285,-1,0.999999046325684,-1,0.893209636211395,-1,1,0.999970436096191,-1,-1,-1,-1,-1,1,0.999853909015656,1,-1 321 | "TCGA-D8-A1XC-01",377,1,-0.999997675418854,1,1,0.24271397292614,-1,1,-1,-0.959759116172791,-0.995411932468414,-1,-1,1,0.999997794628143,-1,-1,1,-1,1,1,-1,1,-1 322 | "TCGA-D8-A1XD-01",522,0,-1,-0.999401569366455,1,1,-1,1,-1,-1,0.999966740608215,-0.554401338100433,0.999844610691071,1,-1,-1,-1,0.999981939792633,-1,0.999997556209564,-0.99999988079071,1,1,-1 323 | "TCGA-D8-A1XF-01",463,0,1,1,1,1,1,-1,-1,1,1,1,-1,1,1,0.987180292606354,-1,-1,1,1,-1,1,-0.99999988079071,-1 324 | "TCGA-D8-A1XG-01",448,0,1,1,-1,-1,0.999660968780518,-1,-0.647746443748474,-1,1,-1,-1,1,1,-1,1,0.988581717014313,-1,1,-0.952721536159515,-1,1,0.999990165233612 325 | "TCGA-D8-A1XJ-01",663,0,-1,0.999540328979492,-0.998021900653839,-1,-1,0.999923646450043,1,-1,-0.999983251094818,-1,1,-1,1,1,1,-1,1,-0.997402846813202,1,1,-1,1 326 | "TCGA-D8-A1XK-01",441,0,0.999999523162842,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,0.995779752731323,-1,1 327 | "TCGA-D8-A1XL-01",606,0,1,-1,-1,-1,1,-1,1,0.989962995052338,1,-1,1,-1,1,1,1,0.990958571434021,1,1,-1,1,-1,1 328 | "TCGA-D8-A1XM-01",538,0,-1,0.99998414516449,1,-0.952622652053833,-1,-0.920890867710114,-1,-1,-1,0.947223544120789,1,1,-1,-1,-0.999981760978699,-0.236109673976898,-1,-1,1,-1,1,-1 329 | "TCGA-D8-A1XO-01",1682,0,1,0.999999284744263,1,-1,-1,0.976436138153076,0.999784827232361,-1,-1,-1,-0.993714511394501,1,-1,-0.436523616313934,-1,0.972480416297913,-1,-0.989579558372498,0.905555009841919,1,1,1 330 | "TCGA-D8-A1XQ-01",499,0,1,-1,-1,-1,0.999982297420502,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,-0.879122972488403,-0.892942905426025,1 331 | "TCGA-D8-A1XR-01",482,0,1,-0.99999725818634,1,-1,-1,1,1,0.999170541763306,0.999925196170807,-1,-1,0.999979376792908,1,-1,0.999124348163605,1,-0.877262711524963,-0.998330891132355,0.999998986721039,-1,1,0.99999874830246 332 | "TCGA-D8-A1XS-01",496,0,1,-1,1,-1,1,1,-1,-0.996813774108887,0.91547417640686,-1,1,-1,1,-1,-1,-1,1,1,-1,0.999643981456757,0.101913519203663,1 333 | "TCGA-D8-A1XT-01",506,0,-1,-1,-1,-1,-1,-1,1,-1,-0.999996840953827,1,1,-1,-1,1,-1,-1,1,1,-1,0.999995768070221,-0.999996781349182,1 334 | "TCGA-D8-A1XU-01",395,0,-1,-1,1,1,-1,1,-1,-1,-1,-0.999999403953552,1,1,1,1,-1,1,-1,-1,1,1,1,-1 335 | "TCGA-D8-A1XV-01",461,0,0.999995589256287,1,1,-0.982430458068848,1,1,1,0.673021256923676,0.997777342796326,-1,-1,1,1,-1,-1,1,-1,1,0.999925851821899,-1,1,-0.999999761581421 336 | "TCGA-D8-A1XW-01",1309,0,-0.149847716093063,-1,-1,-1,-0.999904334545135,-1,1,-1,0.311745077371597,-1,1,-1,-1,1,1,-1,1,1,-1,-0.999998211860657,-1,1 337 | "TCGA-D8-A1XY-01",503,0,1,-1,1,-1,-1,1,1,1,-1,-1,1,-1,0.99999988079071,-1,-0.973474204540253,1,1,1,-1,-1,0.998616337776184,0.999997854232788 338 | "TCGA-D8-A1XZ-01",466,0,1,-1,-1,-1,1,0.999999761581421,1,-0.998446226119995,-1,-1,1,-1,1,1,0.999748468399048,-1,1,0.998846709728241,-0.999984204769135,-1,-1,1 339 | "TCGA-D8-A1Y0-01",472,0,-1,-1,1,1,-1,1,-1,0.99105966091156,-1,-1,1,1,1,-1,-1,-1,-0.999999821186066,-1,1,1,1,1 340 | "TCGA-D8-A1Y1-01",302,1,1,-1,1,-1,0.99999988079071,1,1,1,0.999991059303284,-1,1,-1,1,-1,-1,0.999999761581421,0.999991416931152,-1,-0.999999523162842,1,0.999992847442627,-1 341 | "TCGA-D8-A1Y2-01",433,0,0.998842000961304,-1,-0.900488495826721,-1,-1,0.997569024562836,0.999912679195404,-0.999969840049744,-1,-1,1,-0.999606907367706,-1,-1,-0.808410823345184,-1,-0.469951570034027,-1,0.999989449977875,-1,1,0.99999988079071 342 | "TCGA-D8-A1Y3-01",430,0,-1,1,0.282211124897003,1,1,-1,-1,1,1,1,-1,-1,1,1,1,1,1,1,-1,1,-1,-1 343 | "TCGA-D8-A27E-01",530,0,-1,-1,1,1,-1,-0.186160400509834,1,-1,1,-0.999996244907379,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,1 344 | "TCGA-D8-A27F-01",488,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 345 | "TCGA-D8-A27G-01",409,0,-0.999996960163116,1,1,1,0.253271639347076,1,-1,-0.999454438686371,-1,1,-1,1,-1,-1,-1,0.999998927116394,-1,1,1,1,1,-1 346 | "TCGA-D8-A27H-01",397,0,0.963769197463989,-1,-1,-1,-0.999992966651917,-0.998214721679688,1,-1,1,-1,1,-1,1,1,1,-1,1,-0.981992721557617,-1,1,-1,1 347 | "TCGA-D8-A27I-01",439,0,-1,1,1,1,-1,1,-1,0.999986469745636,-1,0.997352480888367,-1,1,-1,-1,-1,-0.999933660030365,-1,-1,1,-0.999999940395355,1,-0.229036808013916 348 | "TCGA-D8-A27K-01",1461,0,-1,1,1,0.946250975131989,-1,1,-1,-0.99997079372406,-1,-1,-0.99999988079071,1,-1,-1,-1,1,-1,1,1,-1,1,-0.990812659263611 349 | "TCGA-D8-A27L-01",499,0,-0.997030258178711,-1,1,-0.999924659729004,-1,0.997035324573517,-0.999193906784058,-1,0.866397798061371,-1,1,0.999999523162842,-1,-1,0.999966263771057,0.961957335472107,-1,-1,1,-1,1,-0.999999821186066 350 | "TCGA-D8-A27M-01",410,0,0.938664793968201,-1,-1,-1,0.999717593193054,-1,-0.999999523162842,-1,1,0.999959886074066,1,-1,-1,1,-1,-0.987041115760803,-1,1,1,0.999999821186066,-0.999573886394501,1 351 | "TCGA-D8-A27N-01",519,0,-1,-0.99999988079071,1,0.940310180187225,0.999965012073517,1,-1,-0.997597992420197,-0.999999403953552,0.995179057121277,-1,-1,0.999996423721313,1,1,1,-0.999948084354401,1,-1,1,1,-0.999994456768036 352 | "TCGA-D8-A27P-01",49,0,-1,-1,1,-1,-1,1,1,-1,-1,-1,-1,1,-1,-1,0.858271598815918,1,-1,1,1,-1,1,-0.995266854763031 353 | "TCGA-D8-A27R-01",307,0,1,-1,-1,1,-0.999991476535797,-0.23470750451088,0.0450362265110016,0.999755918979645,1,1,-0.999993860721588,-0.994980156421661,1,1,-1,-1,-0.723431706428528,0.998814404010773,-1,1,-0.999999821186066,1 354 | "TCGA-D8-A27T-01",398,0,-1,-0.999987483024597,1,-1,-1,1,1,-1,-1,1,-1,1,-0.804289638996124,-1,-0.940896153450012,1,-1,-1,1,-0.999998927116394,1,-1 355 | "TCGA-D8-A27V-01",381,0,0.755417168140411,1,0.981135904788971,1,-1,-0.226220071315765,-1,1,-1,-0.813581228256226,1,1,-1,-1,-1,1,-1,0.999996900558472,1,-0.999999701976776,1,1 356 | "TCGA-D8-A27W-01",373,0,1,1,1,1,1,-1,-1,1,0.999220430850983,1,0.99788624048233,0.0166332572698593,1,-1,0.860523223876953,-1,-1,-0.999076962471008,1,1,1,-1 357 | "TCGA-D8-A3Z5-01",1015,0,-1,0.975853085517883,1,1,-1,1,1,1,-1,-1,-1,1,-1,-1,-0.897860825061798,1,-1,-1,1,-1,1,0.449950635433197 358 | "TCGA-D8-A3Z6-01",563,0,1,1,1,-0.991583287715912,-0.999936640262604,1,1,1,-1,1,-1,1,0.999418258666992,-1,-1,1,-1,0.999952912330627,1,-1,1,-1 359 | "TCGA-D8-A4Z1-01",659,0,-1,1,1,1,-1,-0.910325050354004,0.912725687026978,-1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,1 360 | "TCGA-D8-A73U-01",492,0,-1,1,-0.987764716148376,1,-1,-0.997236371040344,-0.999989748001099,-0.996595501899719,-1,1,0.235890448093414,0.999999940395355,-1,-0.999954402446747,-1,-0.988153457641602,-1,-1,-1,-0.99999988079071,1,-1 361 | "TCGA-D8-A73W-01",385,1,0.980742931365967,1,1,-1,-1,1,1,1,-1,-0.999781489372253,-1,1,1,-1,-1,1,-1,-1,1,0.999233901500702,1,1 362 | "TCGA-D8-A73X-01",767,0,1,1,-0.999420523643494,1,-1,1,1,1,-1,-1,0.999998331069946,1,-1,-1,-0.999999761581421,1,-1,1,0.973394930362701,0.99972140789032,1,-1 363 | "TCGA-E2-A14N-01",1434,0,-0.999998807907104,-1,-1,-1,0.999990344047546,-1,1,-1,1,0.9999018907547,1,-1,-1,1,1,-1,1,1,-1,0.916143715381622,0.998055696487427,1 364 | "TCGA-E2-A14U-01",1318,0,-1,-1,1,0.999815821647644,-1,-0.996298909187317,1,-1,-1,-0.0576130636036396,-1,1,-1,-1,-1,-1,-1,-1,1,-1,1,0.999999940395355 365 | "TCGA-E2-A15I-01",1692,0,-0.971419274806976,-0.831693947315216,1,-0.845184087753296,-1,1,-1,-0.864995658397675,-1,-1,1,1,-1,-1,-1,1,-1,0.994572043418884,-0.963458895683289,-1,1,-1 366 | "TCGA-E2-A15J-01",1640,0,-0.999999523162842,1,1,0.999691724777222,1,1,1,1,-1,0.998226463794708,-1,1,1,-0.999942600727081,0.999844551086426,1,-1,1,0.997928500175476,-1,1,-1 367 | "TCGA-E2-A15K-01",275,0,1,0.999998986721039,1,-0.96920907497406,0.288826435804367,1,1,1,-1,-1,1,-1,-1,1,1,1,1,-1,1,-1,1,-0.999069571495056 368 | "TCGA-E2-A1AZ-01",2329,0,0.999999642372131,-1,-1,-1,-1,0.835362076759338,-0.999998033046722,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 369 | "TCGA-E2-A1B0-01",1631,0,0.940270304679871,-1,-0.999318301677704,-1,1,-1,1,-1,1,-1,1,-1,0.999997496604919,1,1,-1,1,1,-1,-1,-1,1 370 | "TCGA-E2-A1B1-01",2653,0,-0.997979879379272,-1,1,1,-1,-1,-1,-1,0.796727418899536,-1,1,0.999999761581421,-1,-1,-0.997409164905548,-0.999998986721039,-1,-1,1,-1,1,0.999998867511749 371 | "TCGA-E2-A1B4-01",1004,1,-1,-1,1,1,-1,1,1,1,-1,-0.99290668964386,-1,1,-1,-1,-1,1,-1,0.999578416347504,1,-1,1,-1 372 | "TCGA-E2-A1B5-01",984,0,-1,1,-0.438821166753769,1,0.999999046325684,-0.958260357379913,-1,0.990915656089783,-1,1,-1,1,-1,-1,-0.999997138977051,-1,-1,-1,1,-1,1,-1 373 | "TCGA-E2-A1B6-01",867,0,-0.998703360557556,-1,-1,1,0.999999523162842,-1,1,-1,1,-0.998869895935059,0.974395096302032,0.99999874830246,-1,0.999979615211487,1,-1,-1,-1,0.998910367488861,-1,0.999998211860657,-0.999495446681976 374 | "TCGA-E2-A1BC-01",501,0,-1,-1,1,0.939647555351257,-1,1,-1,-1,-1,-1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 375 | "TCGA-E2-A1BD-01",1133,0,1,1,1,1,-1,1,-1,1,-1,1,-1,1,-0.339062958955765,0.999999821186066,-1,1,-1,0.923911452293396,-1,-0.999934732913971,1,-1 376 | "TCGA-E2-A1IE-01",2362,0,0.999999463558197,1,1,1,-1,1,0.999962210655212,0.460746139287949,-0.561896979808807,1,-1,1,1,1,-1,1,1,-1,0.997671365737915,-0.999998450279236,-1,-1 377 | "TCGA-E2-A1IF-01",1138,0,-0.146832317113876,-1,0.994745850563049,-1,-1,1,1,0.968740224838257,-1,-1,0.998571872711182,-1,-1,-1,0.999792516231537,1,-1,-1,1,-1,1,-0.999997317790985 378 | "TCGA-E2-A1IG-01",2140,0,-0.99999988079071,-0.999999701976776,1,0.999994397163391,-0.999998211860657,0.335121542215347,1,1,-1,-0.964188694953918,-0.999999940395355,1,-1,-1,-1,1,1,-1,-1,-1,1,-1 379 | "TCGA-E2-A1IH-01",1026,0,-0.996756494045258,1,1,-1,-0.999997675418854,1,-1,-0.999999761581421,0.99998664855957,-1,1,1,1,-1,1,-1,-1,-1,1,-0.129505783319473,1,-1 380 | "TCGA-E2-A1II-01",1025,0,-1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-0.973486363887787,1,1,-1,1,-1,1 381 | "TCGA-E2-A1IJ-01",865,0,-1,-1,1,-1,-1,1,-1,-1,-1,-0.99999988079071,1,0.999461591243744,-1,-1,-1,1,-1,-1,1,-1,1,-1 382 | "TCGA-E2-A1IK-01",1800,0,-1,-1,1,-1,-1,0.789837300777435,1,-1,-1,-1,-0.999946057796478,-0.999900758266449,-1,-1,0.881859719753265,1,-1,-1,1,-1,1,1 383 | "TCGA-E2-A1IL-01",118,0,-1,1,1,0.480721056461334,-1,1,-0.999987244606018,0.999999821186066,-1,-1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-0.99999988079071 384 | "TCGA-E2-A1IN-01",675,0,1,0.996372997760773,1,-0.999999821186066,-1,1,0.999999701976776,1,-0.997643947601318,-1,1,-1,1,-0.999908626079559,1,-1,1,-1,1,-1,-0.999991238117218,1 385 | "TCGA-E2-A1IO-01",1855,0,-1,-1,1,-1,-1,-1,1,-1,-1,-1,1,1,-1,0.93450665473938,-1,0.999976515769958,-1,-0.980987906455994,1,-1,-0.895570576190948,0.988857507705688 386 | "TCGA-E2-A1IU-01",337,0,0.450585871934891,1,1,0.989108026027679,-1,1,-1,1,-0.999919593334198,0.999999046325684,-1,1,-1,-1,-1,1,-1,-0.99999988079071,1,-0.970601201057434,1,-1 387 | "TCGA-E2-A1L6-01",1648,0,-1,1,1,1,-1,-1,-1,1,-1,-0.761460304260254,-1,1,-1,-1,-1,1,-1,1,1,-1,1,-0.640581607818604 388 | "TCGA-E2-A1L7-01",1836,0,-1,-0.735588133335114,-1,1,-1,-1,-1,-1,0.70326554775238,1,0.999588549137115,1,-1,1,1,-1,0.288826435804367,-0.999996900558472,1,1,-0.999998509883881,-0.998485565185547 389 | "TCGA-E2-A1L8-01",2240,0,-1,-0.997146368026733,1,0.997304737567902,-1,1,-1,1,-1,-1,0.99999737739563,1,0.999971926212311,-1,0.998912572860718,1,-1,-1,1,1,1,-1 390 | "TCGA-E2-A1L9-01",598,0,0.999553382396698,-1,1,-1,-1,1,-1,1,-0.999963223934174,0.996383726596832,-0.984595477581024,1,-1,-1,-1,0.999981760978699,-1,0.513905644416809,1,-1,1,0.99999862909317 391 | "TCGA-E2-A1LA-01",748,0,1,-1,0.967839956283569,0.999894440174103,-0.995854020118713,0.48689541220665,1,1,-1,-1,-0.999990403652191,-1,-1,0.958095848560333,-1,1,1,-1,-1,-0.999861240386963,0.991025686264038,-1 392 | "TCGA-E2-A1LB-01",2306,0,-0.998883485794067,-1,1,-1,-1,-0.999999523162842,1,-1,-1,-1,0.57990175485611,1,-1,-1,1,-0.935913622379303,-1,-1,0.39459365606308,-1,1,1 393 | "TCGA-E2-A1LE-01",879,1,-1,1,-1,-1,-1,-0.99204009771347,1,-1,-1,1,1,1,-1,1,0.780356824398041,1,0.999999761581421,-0.999999940395355,-1,1,-1,-1 394 | "TCGA-E2-A1LG-01",1523,0,1,-1,-1,-1,0.99966025352478,-1,1,-1,-0.998781681060791,-1,1,-0.9978306889534,1,-0.999996662139893,1,-1,1,0.238185718655586,-0.999998211860657,-1,-1,1 395 | "TCGA-E2-A1LH-01",3247,0,1,-1,-1,-1,1,-1,1,-1,1,1,1,-1,-1,1,1,-1,0.99998277425766,0.99961906671524,-1,-0.150637209415436,-1,-0.998956441879272 396 | "TCGA-E2-A1LI-01",3121,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 397 | "TCGA-E2-A1LK-01",266,1,1,-1,-1,-1,1,-1,1,-1,1,-0.999999046325684,1,-1,1,1,1,-1,1,1,-1,1,-1,1 398 | "TCGA-E2-A1LL-01",1309,0,1,-0.999999761581421,-1,-1,1,-1,1,-1,-1,1,1,-1,0.432331502437592,1,-0.977852761745453,-1,1,1,1,-1,-1,1 399 | "TCGA-E2-A2P5-01",821,1,-1,1,-0.979512333869934,-1,1,1,1,1,1,-1,0.856124818325043,0.953548789024353,0.999026954174042,-0.996563613414764,0.999999642372131,1,-1,-1,0.999888241291046,0.999996662139893,-0.997900068759918,-1 400 | "TCGA-E2-A2P6-01",1051,0,1,0.99905651807785,0.951274156570435,-0.992583870887756,-0.999935448169708,1,1,1,-1,-1,-1,-0.994988143444061,0.999999701976776,-1,-1,1,-1,-1,-0.999937653541565,-1,1,-1 401 | "TCGA-E2-A3DX-01",1325,0,-1,1,1,0.998613595962524,1,1,-1,0.998148739337921,-0.999473929405212,1,-1,1,-1,-1,-1,-1,-1,-1,1,-1,1,1 402 | "TCGA-E2-A56Z-01",252,0,0.999999761581421,0.994839668273926,0.994241774082184,1,-0.997758448123932,1,1,1,-1,1,0.999964952468872,1,1,-1,-1,1,0.999999523162842,-1,1,-1,-0.999982059001923,0.308335304260254 403 | "TCGA-E2-A570-01",931,0,1,1,-0.994222104549408,-1,-1,1,1,1,-0.999783098697662,-1,-1,1,1,-0.894138336181641,-1,1,-0.77555251121521,-1,-1,0.506538033485413,1,-1 404 | "TCGA-E2-A572-01",1208,0,1,-1,1,0.992168843746185,-1,1,1,1,-1,0.999999821186066,-1,0.789508700370789,-1,-1,-1,1,-1,-1,1,-1,1,-1 405 | "TCGA-E2-A573-01",1062,0,0.996573567390442,-1,-1,-1,0.998471796512604,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 406 | "TCGA-E2-A574-01",1179,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,-0.752619504928589,-1,1 407 | "TCGA-E2-A576-01",1043,0,1,-0.999999821186066,-0.999997794628143,1,1,1,1,1,-1,-0.999955415725708,-1,1,1,-0.979374408721924,1,1,0.298627495765686,-1,1,1,-1,-1 408 | "TCGA-E2-A9RU-01",538,0,1,1,-1,1,1,1,-1,1,1,0.999998927116394,-1,-0.999037623405457,1,1,1,-1,1,-0.33699905872345,-1,1,-1,-0.969108462333679 409 | "TCGA-E9-A1N3-01",1059,0,-1,1,-1,1,-0.999993622303009,-1,-1,1,1,1,-1,1,1,-1,0.979621350765228,1,-1,1,-1,1,1,-1 410 | "TCGA-E9-A1N4-01",1000,0,-0.999989986419678,-1,1,-0.979401111602783,-1,-0.489967286586761,0.878932893276215,-1,-0.99999988079071,-0.931832373142242,-1,-1,-0.999999403953552,-1,-1,0.999997913837433,-0.994431495666504,-1,1,-1,1,0.999086737632751 411 | "TCGA-E9-A1N5-01",1120,0,-1,0.849163353443146,1,1,-1,1,-1,1,-1,1,1,1,-1,-1,-1,1,-1,-1,1,-0.999584794044495,1,-1 412 | "TCGA-E9-A1N6-01",678,1,1,-1,-1,-1,1,-1,1,-0.999936521053314,-1,-1,1,-1,-0.964906752109528,1,-1,-1,1,1,0.985464870929718,-0.999998927116394,-0.99999988079071,1 413 | "TCGA-E9-A1N8-01",1039,0,-1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.999997437000275,1,1,-1,1,1,-1,1,-1,1 414 | "TCGA-E9-A1N9-01",1101,0,-1,0.999920725822449,1,-1,0.99400269985199,-1,-1,-1,1,-1,1,1,0.999911367893219,-0.999706089496613,1,-1,1,1,-1,1,-1,0.99779337644577 415 | "TCGA-E9-A1NA-01",1112,0,-1,0.999285697937012,1,-1,1,0.999942183494568,-1,0.897700488567352,-0.959686636924744,1,1,-1,1,1,1,-0.980998694896698,-0.999999940395355,-0.999915242195129,-0.999926209449768,1,-1,-1 416 | "TCGA-E9-A1ND-01",1266,0,-0.9999920129776,-1,-1,-1,0.914895474910736,-1,1,-1,1,1,1,-1,-1,1,1,-1,1,-0.37817645072937,-1,-0.999985754489899,-1,1 417 | "TCGA-E9-A1NE-01",1088,0,-1,-1,1,-0.998707473278046,-1,-0.99837338924408,-1,-1,-1,-0.999854326248169,0.999810099601746,0.999875903129578,-1,-1,-1,-1,-1,0.999754309654236,1,1,1,1 418 | "TCGA-E9-A1NF-01",1072,1,1,-1,-1,-1,0.99982362985611,-0.994808673858643,-0.999999940395355,-0.999999821186066,1,-1,1,-1,-1,-0.999998152256012,1,-1,-1,-1,1,-1,0.883850872516632,-1 419 | "TCGA-E9-A1NG-01",786,1,-0.999984502792358,-1,1,-1,-1,-1,1,-1,-1,-0.618240475654602,1,-1,-1,-1,-1,1,-1,-1,1,-1,1,1 420 | "TCGA-E9-A1NH-01",576,0,-0.99774843454361,0.133768439292908,1,1,-0.528161585330963,1,-1,-1,-1,1,-1,1,-1,-1,-0.999999284744263,1,-1,0.87220698595047,1,0.999908447265625,1,-1 421 | "TCGA-E9-A1NI-01",300,0,1,1,0.0331632979214191,0.999991893768311,0.990699231624603,1,1,1,0.99969619512558,-1,0.999999701976776,0.999555587768555,1,1,-1,1,-1,-0.999999821186066,-0.99985259771347,1,0.999995648860931,-1 422 | "TCGA-E9-A1QZ-01",755,0,-0.999999523162842,1,1,1,-1,-0.999964773654938,-1,0.99999862909317,-0.999949395656586,1,0.993059933185577,1,-1,-1,-1,1,-1,1,1,1,1,-1 423 | "TCGA-E9-A1R0-01",860,0,-1,1,1,1,-0.999999463558197,1,-1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 424 | "TCGA-E9-A1R2-01",1063,0,1,1,-0.999510645866394,1,-1,1,-1,0.999999940395355,-0.999996781349182,1,1,1,1,1,-0.999999403953552,-1,0.999997317790985,1,0.999893546104431,1,0.999995410442352,-0.759135782718658 425 | "TCGA-E9-A1R3-01",78,0,1,-1,0.999999523162842,-1,-1,1,1,-1,-1,-1,1,-1,-0.999828934669495,-1,-0.968356966972351,1,-1,0.999999642372131,1,-1,1,0.999769330024719 426 | "TCGA-E9-A1R4-01",186,0,-1,-1,-1,0.995556950569153,-1,1,0.998278617858887,-0.996757805347443,1,-1,1,1,-1,-1,0.999906718730927,1,-1,-1,1,-1,1,-0.594959557056427 427 | "TCGA-E9-A1R5-01",92,0,1,1,1,-1,1,1,-0.60234260559082,0.880976259708405,-1,-0.999999403953552,-1,0.99999988079071,1,-1,0.119049251079559,-1,-0.205135986208916,1,1,1,1,-0.999999821186066 428 | "TCGA-E9-A1R6-01",339,0,-0.954232275485992,1,1,1,-1,1,-1,1,1,1,-1,1,1,-1,-1,1,-1,-1,1,1,0.999990880489349,-1 429 | "TCGA-E9-A1R7-01",1467,0,-0.999983787536621,1,1,-0.999992609024048,1,1,-1,-1,-0.999999642372131,0.99999988079071,1,-0.999999642372131,1,-0.409553498029709,-1,-1,1,1,-0.9974325299263,1,-1,-0.999999761581421 430 | "TCGA-E9-A1RA-01",1369,0,-1,-0.999999701976776,1,-0.260923355817795,-1,1,1,-0.999986469745636,-0.999996960163116,1,0.0351394191384315,1,-1,-1,-1,-1,-1,0.734026074409485,1,-1,1,0.872383058071136 431 | "TCGA-E9-A1RB-01",976,1,1,-1,-1,-1,0.999279201030731,1,1,-1,0.999997317790985,-0.999999940395355,1,-1,1,1,-0.99686998128891,-1,-0.99352890253067,1,-1,1,-1,1 432 | "TCGA-E9-A1RC-01",1224,0,1,1,0.999521851539612,1,1,1,-1,1,1,1,-1,1,1,1,1,-0.999999582767487,-1,1,1,1,1,-1 433 | "TCGA-E9-A1RD-01",34,0,-1,1,1,1,0.997069776058197,-0.998348414897919,-1,1,1,1,-1,1,0.999839305877686,-1,1,0.999991297721863,-1,1,0.936220765113831,1,1,-1 434 | "TCGA-E9-A1RE-01",1419,0,0.998266100883484,-0.855885684490204,1,1,-0.999968111515045,-0.999998927116394,-1,1,1,-0.999999761581421,-1,0.999996960163116,1,-1,0.564207792282104,0.998600006103516,1,1,0.920468747615814,-1,-0.886178314685822,-1 435 | "TCGA-E9-A1RF-01",200,0,-0.365016847848892,1,-1,1,0.999995291233063,-0.999999761581421,-1,1,1,1,-1,0.999989569187164,1,1,1,1,-1,0.999999582767487,-1,1,-1,-1 436 | "TCGA-E9-A1RG-01",647,0,1,-1,-1,-0.998139619827271,-0.999999821186066,1,1,1,-0.367804348468781,0.999352693557739,1,-1,1,1,0.987623810768127,1,-1,-1,-1,-0.999253869056702,-1,-1 437 | "TCGA-E9-A1RH-01",1417,0,0.999963879585266,-1,-1,1,-0.999952971935272,-1,-0.997893095016479,-1,1,-0.999999403953552,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 438 | "TCGA-E9-A1RI-01",1449,0,-0.988045573234558,1,1,1,-1,-0.859418332576752,-1,1,-0.992953300476074,-0.996523797512054,0.999044716358185,1,-0.999356269836426,-1,-1,1,-1,-1,1,0.14952164888382,1,-1 439 | "TCGA-E9-A226-01",1048,1,-0.985530614852905,1,-1,1,1,-1,-1,1,1,1,-1,0.965030014514923,1,1,0.640760779380798,-1,-1,1,-1,1,-1,-0.151085466146469 440 | "TCGA-E9-A227-01",975,0,-1,-1,1,-1,-1,0.985376536846161,1,1,-1,-1,-1,-1,-1,-1,-1,1,-1,-0.999999582767487,1,-1,1,0.999911665916443 441 | "TCGA-E9-A228-01",1285,0,0.982682526111603,1,-1,1,1,-1,-1,1,1,1,-1,1,1,-1,1,-0.996422827243805,-1,0.999995946884155,-0.999998509883881,1,-1,-1 442 | "TCGA-E9-A229-01",1148,0,-1,-1,1,0.9888556599617,-1,-0.999285459518433,1,0.999113857746124,-1,-1,1,1,-1,-1,-1,-0.999999761581421,-1,-1,1,-0.999999821186066,1,1 443 | "TCGA-E9-A22A-01",1189,0,-1,1,-1,1,0.99008321762085,-1,-1,1,1,1,-1,-0.98957896232605,1,-1,1,0.99999988079071,-1,1,-0.9998939037323,1,-0.99495655298233,-1 444 | "TCGA-E9-A22B-01",1167,0,-0.999996602535248,1,-1,1,1,-0.999999344348907,-1,1,1,1,-1,0.997154891490936,1,1,1,0.998435437679291,0.956142604351044,0.999876320362091,-1,1,0.164798736572266,-1 445 | "TCGA-E9-A22D-01",1248,0,-1,1,-0.999512851238251,1,1,-1,-1,1,1,1,-1,0.999933362007141,1,-1,1,1,-1,1,-0.999966502189636,1,0.868758738040924,-1 446 | "TCGA-E9-A22E-01",1269,0,0.996562123298645,1,-1,1,1,-1,-1,1,1,1,-1,-0.999934554100037,1,0.47403684258461,1,-0.99999988079071,-1,-0.995873510837555,-1,1,0.860942482948303,-1 447 | "TCGA-E9-A22G-01",1239,0,1,1,-1,-0.999489307403564,1,-1,-1,-1,1,-0.999742567539215,0.584709823131561,-1,1,1,1,0.886739730834961,1,1,-1,1,-0.999999821186066,1 448 | "TCGA-E9-A22H-01",1232,0,-0.999959647655487,1,1,1,-1,0.999873042106628,-1,1,-1,1,-0.999996781349182,1,1,-1,-1,1,-1,-0.995668590068817,0.999998450279236,-1,1,-1 449 | "TCGA-E9-A243-01",612,0,-0.99999988079071,-0.99999988079071,-0.999999403953552,-1,0.999999463558197,-1,-1,-1,1,-0.97158282995224,1,-1,-1,0.999994814395905,1,-1,1,1,1,0.680014967918396,0.998604834079742,1 450 | "TCGA-E9-A244-01",21,0,1,-1,-0.978410005569458,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 451 | "TCGA-E9-A245-01",26,1,-1,-1,1,1,-1,1,1,-1,-0.998573124408722,-0.999942183494568,-1,1,0.999904870986938,-1,-0.981964945793152,1,-1,-0.991045832633972,1,-1,1,-1 452 | "TCGA-E9-A247-01",1186,0,-1,1,1,0.999999403953552,1,1,-1,1,1,1,-1,1,1,0.999996542930603,-1,1,-1,-0.711380958557129,1,1,-0.971477866172791,-1 453 | "TCGA-E9-A248-01",59,0,-1,-0.0707812756299973,-1,1,1,-1,-1,-1,1,-1,1,-1,-1,0.999999284744263,1,-1,1,0.999468982219696,1,1,-1,1 454 | "TCGA-E9-A249-01",217,0,1,0.828060746192932,1,1,-0.999999701976776,1,-1,1,-1,-1,-1,1,1,-1,-0.657003104686737,1,-1,-0.999958515167236,1,-0.999615490436554,1,-0.999999940395355 455 | "TCGA-E9-A24A-01",747,0,-1,-0.943682610988617,1,-0.999969065189362,-1,0.999844074249268,-1,-0.999998390674591,-1,-1,-0.999999940395355,1,-1,-1,-1,1,-1,1,1,-1,1,0.999992430210114 456 | "TCGA-E9-A295-01",375,0,-0.997487783432007,1,1,1,1,1,-1,1,1,0.999991297721863,-1,1,1,-0.997963964939117,-1,1,-1,-1,-0.999996721744537,1,-1,-1 457 | "TCGA-E9-A2JS-01",904,1,1,-0.999999403953552,1,1,1,1,-1,1,-1,1,-1,1,1,1,-0.999997556209564,-0.999999821186066,-1,-1,0.999999821186066,1,-0.999485790729523,-1 458 | "TCGA-E9-A2JT-01",288,0,-1,1,-0.993166387081146,1,-0.999999821186066,0.940197765827179,-1,-1,0.99999988079071,1,-0.976592481136322,0.998049676418304,-1,-1,-0.9753098487854,-1,-1,-1,1,-1,1,-0.999999761581421 459 | "TCGA-E9-A3Q9-01",1001,0,-0.985495626926422,-1,1,0.774766385555267,-1,1,1,0.997649371623993,-1,0.113431192934513,-0.99997752904892,-1,-1,-1,-1,1,-1,-1,1,-1,1,-1 460 | "TCGA-E9-A3QA-01",918,0,-0.999867379665375,-1,-1,-1,-0.999998450279236,-1,1,-1,1,-0.999970734119415,1,-1,-1,1,1,-1,0.999504208564758,1,0.386475205421448,0.999868035316467,-1,1 461 | "TCGA-E9-A3X8-01",926,0,-1,0.999999105930328,0.999993026256561,1,1,1,-1,1,0.999772548675537,-0.99944406747818,-1,1,-1,-1,-1,1,-1,-1,-0.284390240907669,-1,1,0.871825575828552 462 | "TCGA-E9-A54X-01",727,0,-1,1,1,1,-1,1,-0.997604727745056,1,-1,1,-0.999148547649384,1,-1,-1,0.999969482421875,1,-1,-1,0.129870548844337,-1,1,-1 463 | "TCGA-E9-A54Y-01",725,0,1,1,-1,1,1,0.999996483325958,1,1,0.999914467334747,-0.999999642372131,-1,0.942110538482666,1,1,1,1,1,-1,-1,0.967305600643158,-0.99999988079071,-1 464 | "TCGA-E9-A5FK-01",812,0,-1,1,1,0.999769926071167,0.999952673912048,1,1,1,-1,1,-1,0.999999940395355,-1,-0.99672144651413,-1,1,-1,-1,1,-1,1,-0.999281942844391 465 | "TCGA-E9-A5FL-01",24,0,1,-1,-1,-1,-0.999920308589935,-1,1,-1,-0.958565533161163,-1,1,-1,1,0.990797400474548,-1,-1,1,-1,-1,0.997941553592682,-1,1 466 | "TCGA-E9-A5UO-01",785,0,0.999256491661072,1,1,1,-0.999997854232788,1,-1,1,-1,1,-1,1,1,-1,-1,1,1,-1,1,0.999945044517517,0.735530316829681,-1 467 | "TCGA-E9-A5UP-01",803,0,1,1,0.999999284744263,-0.999903559684753,1,1,-1,1,1,0.990204632282257,-1,-0.999944388866425,1,-1,-1,1,1,-0.789415180683136,0.92834746837616,1,-0.999946296215057,-1 468 | "TCGA-E9-A6HE-01",847,0,-0.999998331069946,1,-0.999910056591034,-0.458232164382935,1,1,1,1,-1,1,-1,0.999631345272064,0.999918937683105,-1,-1,1,-1,-1,-0.997885167598724,-1,0.998871862888336,-1 469 | "TCGA-EW-A1IW-01",371,0,-1,1,1,1,0.998041868209839,-1,-1,1,-1,1,-1,1,-1,-1,-1,0.558144807815552,-1,-0.999999821186066,-0.924553990364075,1,1,-1 470 | "TCGA-EW-A1IX-01",1208,0,-1,-1,1,-0.999652504920959,-1,1,1,-1,-0.999998807907104,-1,1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 471 | "TCGA-EW-A1IY-01",258,0,-1,1,1,-1,-1,0.9999920129776,-1,-1,-0.999998807907104,1,0.921212136745453,1,-1,-1,1,-1,-1,1,1,1,1,-1 472 | "TCGA-EW-A1IZ-01",554,0,-1,0.999772727489471,-1,1,-1,1,-0.998017430305481,1,-1,-1,-0.723474502563477,1,-1,-1,-1,0.0300880111753941,-1,-1,1,0.999999523162842,1,1 473 | "TCGA-EW-A1J1-01",575,0,-1,-1,0.999990403652191,-1,-1,1,1,-0.981647431850433,-1,-1,1,-1,-0.999998331069946,-1,-1,1,-1,-1,-1,-1,1,0.999997079372406 474 | "TCGA-EW-A1J2-01",403,0,-1,1,1,0.99971342086792,-1,1,-1,0.999999165534973,-1,1,-1,1,-1,-1,-1,-0.166085287928581,-1,0.999703347682953,1,-1,1,-1 475 | "TCGA-EW-A1J3-01",504,0,1,1,1,0.999503374099731,-1,1,-1,1,-1,-0.965239524841309,0.999633193016052,1,1,-1,0.999999344348907,0.956544578075409,-1,1,1,1,1,-1 476 | "TCGA-EW-A1J5-01",477,0,0.999999821186066,1,1,1,-1,1,-1,1,-1,1,-1,1,1,-1,-1,1,-1,0.999927163124084,1,1,1,-0.999985158443451 477 | "TCGA-EW-A1J6-01",875,0,1,-1,-1,0.999999940395355,-0.997291147708893,-0.996724665164948,0.999999642372131,0.0709061995148659,-0.967074334621429,-0.999371409416199,1,-1,1,-1,1,-1,1,0.999376475811005,-1,-0.990017354488373,-1,1 478 | "TCGA-EW-A1OV-01",789,0,-1,-1,-1,-1,-0.99997091293335,-0.99997353553772,1,-1,-0.999995470046997,-1,1,-1,-1,1,-0.944010615348816,-1,1,-1,-1,-0.999999761581421,-1,1 479 | "TCGA-EW-A1OW-01",694,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.999545872211456,1,1,-1,1,1,-1,-0.997363090515137,-1,1 480 | "TCGA-EW-A1OX-01",911,0,-1,1,-0.478555232286453,1,1,0.999996364116669,-1,1,1,0.99999588727951,-0.999987423419952,1,1,1,-0.999971628189087,1,0.997766256332397,0.999993801116943,1,-0.965980231761932,-1,-1 481 | "TCGA-EW-A1OY-01",908,0,0.999901175498962,-1,0.99999988079071,-1,-0.995846331119537,1,1,1,-0.99999988079071,-1,-0.995489299297333,-1,1,1,0.999990880489349,-0.246078237891197,1,-1,-1,-1,-1,1 482 | "TCGA-EW-A1OZ-01",1229,0,1,0.999767959117889,-1,0.938551783561707,1,0.635854303836823,0.997073948383331,1,1,0.0149003844708204,-1,-1,1,1,-0.999996602535248,1,1,-0.999920845031738,-0.99633663892746,0.999983012676239,-1,-0.999999403953552 483 | "TCGA-EW-A1P0-01",1251,0,1,-1,1,-1,-1,1,0.979635059833527,-0.983499884605408,-1,0.880213856697083,1,1,1,-0.999999165534973,1,-0.257072567939758,-1,-0.924313902854919,-1,-0.999711334705353,-0.999997973442078,-1 484 | "TCGA-EW-A1P1-01",1210,0,-1,1,1,1,-1,-0.999992072582245,-1,-1,-1,-0.898410141468048,-1,1,-1,-1,-1,-1,-1,-0.999999761581421,1,-1,1,0.896416008472443 485 | "TCGA-EW-A1P3-01",1611,0,1,-0.978680849075317,-0.932696461677551,0.999997079372406,1,1,1,1,-1,-0.999999940395355,-0.999758362770081,1,1,-1,-1,1,0.583214938640594,-0.987926185131073,-0.999999225139618,-0.999994575977325,-0.630014955997467,-1 486 | "TCGA-EW-A1P4-01",907,0,-0.995165705680847,-1,-1,-1,0.984626352787018,-1,1,-1,1,-1,1,-1,-1,1,0.999997913837433,-1,1,0.818158745765686,0.999090552330017,1,-1,1 487 | "TCGA-EW-A1P5-01",703,0,0.962169289588928,0.996794700622559,1,1,-1,1,-1,1,-1,1,-1,1,1,-1,-1,0.877260744571686,-1,-1,1,0.955822706222534,1,-1 488 | "TCGA-EW-A1P6-01",562,0,1,-1,-1,-1,-1,1,1,-1,0.999998986721039,-1,1,-1,-1,-1,1,0.999999821186066,1,-0.996267378330231,-0.996282756328583,-1,1,1 489 | "TCGA-EW-A1P7-01",915,0,-1,-1,1,-0.999999046325684,-1,-1,1,-1,-1,-1,1,-0.99999988079071,-1,-1,-1,-0.999996304512024,-1,-0.132988750934601,1,-1,0.999911069869995,0.999999761581421 490 | "TCGA-EW-A1P8-01",239,1,-0.825386703014374,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1,1 491 | "TCGA-EW-A1PA-01",575,0,-1,-1,0.99999326467514,0.999995589256287,0.942178130149841,1,1,0.997044026851654,-1,1,1,-1,1,0.9999960064888,0.89448755979538,0.928102612495422,1,-1,-0.956453740596771,-1,0.746857583522797,-1 492 | "TCGA-EW-A1PB-01",608,0,0.999935567378998,-1,-0.77962601184845,-1,-0.99774843454361,-1,1,-1,1,1,1,-1,-1,1,0.999968767166138,-1,1,1,-0.99999988079071,-1,-0.999998927116394,1 493 | "TCGA-EW-A1PC-01",187,0,1,-1,-1,1,1,-1,0.9999880194664,1,1,-1,1,-0.99999588727951,1,1,1,-1,1,-0.915704071521759,-1,1,-0.999999761581421,-0.999222934246063 494 | "TCGA-EW-A1PD-01",424,0,-1,-1,1,-1,-1,-1,-1,-1,-0.99999988079071,-1,-0.99999988079071,-0.964457750320435,0.984033465385437,1,-1,0.999994158744812,1,-0.999997138977051,-0.999994456768036,-1,-1,-0.999854445457458 495 | "TCGA-EW-A1PE-01",320,0,-1,-1,1,-1,-0.999999821186066,1,1,-1,-1,-1,0.996836364269257,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 496 | "TCGA-EW-A1PF-01",439,0,-1,-1,1,-1,-1,0.975249171257019,-1,-1,-1,1,0.995090961456299,1,-1,-0.999748110771179,-1,-1,-1,-1,0.999975979328156,-0.999933779239655,1,-1 497 | "TCGA-EW-A1PG-01",1051,0,-1,-1,1,-1,-1,-1,-0.998912036418915,-1,-0.99986869096756,-1,-0.996087908744812,1,-1,-1,-0.999943137168884,-0.999999761581421,-1,-0.990906834602356,1,-1,1,1 498 | "TCGA-EW-A1PH-01",607,0,1,-1,-1,-1,-0.865796804428101,-1,1,-1,1,-1,1,-1,1,1,1,-1,1,1,-1,1,-1,1 499 | "TCGA-EW-A2FR-01",1673,0,1,-0.863985478878021,-0.878090918064117,-1,-1,-1,1,-1,-1,-1,1,-1,-1,-0.999714970588684,-1,-1,-1,-1,-1,-1,1,1 500 | "TCGA-EW-A2FS-01",1604,0,-0.999940574169159,1,1,1,-0.999999523162842,-1,-1,1,-0.999999463558197,1,-1,1,1,1,-1,1,-0.999997019767761,1,-0.998253762722015,1,-1,-1 501 | "TCGA-EW-A2FV-01",788,0,0.999986469745636,1,1,1,-1,-0.99717652797699,-1,-1,-1,1,-0.999990165233612,-1,-0.999650955200195,1,-0.17383100092411,-0.999971389770508,0.995329141616821,1,1,1,1,1 502 | "TCGA-EW-A2FW-01",672,0,1,1,1,-0.557746469974518,1,1,1,1,1,-0.999472856521606,-1,0.144780680537224,1,-1,-1,-1,-1,-1,1,0.842391490936279,1,-1 503 | "TCGA-EW-A3E8-01",1035,0,-1,1,1,1,-1,1,-0.999999403953552,1,0.999962329864502,1,-1,1,-1,-1,-1,1,-1,-1,1,-0.999998509883881,1,-1 504 | "TCGA-EW-A3U0-01",532,0,-0.999980807304382,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-1,1,-0.996979713439941,-0.99999988079071,-1,-1,1 505 | "TCGA-EW-A423-01",533,0,-0.999998509883881,0.991304159164429,-1,-1,1,1,1,1,-1,-1,-1,-0.999940752983093,1,1,0.999243199825287,0.999993681907654,1,-1,-1,-0.99999988079071,-1,-0.999999701976776 506 | "TCGA-EW-A424-01",715,0,-1,0.999996781349182,1,-0.991799056529999,0.726514279842377,1,1,-1,0.996448755264282,-1,-1,1,-0.999999701976776,0.999996721744537,0.684356212615967,1,-0.817193925380707,-0.968383252620697,0.999432802200317,-0.887736141681671,-0.999999761581421,-1 507 | "TCGA-EW-A6S9-01",463,0,-1,0.99999612569809,1,1,-0.947226285934448,-0.846054077148438,-1,1,-1,-0.999994516372681,-0.999989867210388,-0.997165620326996,-0.999380230903625,1,0.999036490917206,1,-1,1,-0.999999523162842,-1,-0.994641065597534,-0.999998033046722 508 | "TCGA-EW-A6SA-01",510,0,1,1,-1,1,1,0.999999523162842,-1,1,1,-1,-1,1,1,0.999311923980713,-1,1,1,1,-1,-0.997658908367157,-1,-0.966684937477112 509 | "TCGA-EW-A6SB-01",760,0,0.963008999824524,-1,-1,-1,1,-1,1,-1,1,-1,0.948774814605713,-1,-1,1,1,-1,1,1,-1,-0.900825083255768,-1,1 510 | "TCGA-EW-A6SC-01",952,0,-0.999992787837982,0.190031915903091,0.99970817565918,1,-1,1,-0.999993622303009,1,-0.999631404876709,0.999991774559021,-1,0.999535441398621,-1,-1,-1,1,-0.988708078861237,-1,1,-1,0.999996602535248,-1 511 | "TCGA-EW-A6SD-01",1010,0,1,0.238555952906609,-1,-1,-1,-1,-1,-1,0.99999988079071,1,1,-1,-1,1,-1,-1,1,1,-1,1,-1,1 512 | "TCGA-GI-A2C8-01",225,0,0.972512066364288,1,1,1,-1,1,-1,0.999999463558197,1,1,-0.585648834705353,1,-0.999949336051941,0.99999988079071,-1,-1,-1,1,1,1,1,-1 513 | "TCGA-GI-A2C9-01",3342,0,1,-1,-1,-1,1,-1,1,-1,1,-1,1,-1,-0.999121785163879,1,1,-1,1,1,-1,1,-1,1 514 | "TCGA-GM-A2D9-01",1812,1,-1,1,0.99999988079071,1,-1,1,-1,1,-1,1,-1,1,-0.999999821186066,-1,-1,1,-1,-1,0.96832674741745,1,1,-0.860060095787048 515 | "TCGA-GM-A2DA-01",6593,1,-1,-1,0.999804794788361,0.999749064445496,-1,1,-1,1,-1,0.999975383281708,-1,-0.934275567531586,-1,-1,-1,1,-1,-0.923505246639252,0.672209858894348,-1,1,-1 516 | "TCGA-GM-A2DB-01",2406,0,1,0.999995827674866,0.999961256980896,0.999930918216705,1,-1,1,1,1,0.999999821186066,0.979186475276947,-1,0.598063051700592,1,1,1,-1,-1,-1,1,-1,0.999987900257111 517 | "TCGA-GM-A2DC-01",2535,0,1,1,0.999985694885254,0.999998927116394,1,1,-1,1,-0.99998927116394,1,-1,1,1,0.0754300504922867,-1,0.999829053878784,-1,0.999999463558197,-1,1,0.999985575675964,-1 518 | "TCGA-GM-A2DD-01",2282,0,-1,1,0.999999761581421,1,1,-1,-1,1,1,1,-1,1,-1,1,1,-1,-1,-1,0.999999821186066,1,-0.999999761581421,-0.999876022338867 519 | "TCGA-GM-A2DF-01",2155,0,-1,-1,-1,-1,1,-0.99999988079071,0.999998331069946,-0.772375166416168,1,0.999772906303406,-1,-1,-1,1,1,-1,1,-0.999999701976776,-1,-1,-1,0.999999821186066 520 | "TCGA-GM-A2DH-01",2193,0,-1,1,-1,-1,0.995535969734192,-1,-0.851098716259003,-1,1,-1,0.999999821186066,0.314452081918716,-1,1,1,-0.528437972068787,1,1,-1,1,-0.997553050518036,0.999999523162842 521 | "TCGA-GM-A2DI-01",2590,0,-1,1,1,1,-1,1,-1,-0.794471800327301,-0.999893367290497,1,0.99999988079071,0.999540865421295,-1,-1,-0.996236264705658,-1,-1,-1,1,-1,1,-1 522 | "TCGA-GM-A2DK-01",2645,0,-1,-1,1,1,-1,0.999999165534973,-1,0.999998331069946,-1,1,-1,1,-1,-1,-1,-0.997150778770447,-1,-1,1,0.99999988079071,1,-1 523 | "TCGA-GM-A2DL-01",3519,0,-1,1,1,1,0.996737062931061,0.99999338388443,-1,0.99991512298584,-1,1,0.999999284744263,1,-1,-1,0.999997317790985,1,-1,-1,-1,0.999998927116394,1,-1 524 | "TCGA-GM-A2DM-01",3226,0,-1,1,1,1,-1,1,0.952909171581268,-1,-1,-0.999995291233063,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,-1 525 | "TCGA-GM-A2DN-01",3091,0,-1,1,0.99999988079071,1,0.999999940395355,0.999413371086121,-1,1,-0.276844918727875,1,-1,0.999417901039124,-1,-1,-1,1,-1,-0.997037053108215,1,1,1,-0.999999225139618 526 | "TCGA-GM-A2DO-01",2596,0,-1,1,-0.780750930309296,1,-0.987640142440796,-0.854004979133606,-1,1,0.990537047386169,1,-1,1,-1,-0.999651193618774,0.999764263629913,-0.99999988079071,-1,-1,1,-1,-0.236121132969856,-0.771469831466675 527 | "TCGA-GM-A3NW-01",3361,0,0.608451664447784,1,1,0.999999821186066,-0.999998331069946,1,-1,1,-1,0.999982237815857,-1,1,0.999992907047272,-1,-0.995885372161865,1,-0.999998569488525,-0.530284762382507,1,-1,1,-1 528 | "TCGA-GM-A3NY-01",1162,0,1,1,1,1,-1,1,1,1,-1,-0.999999642372131,-1,0.997895479202271,1,-1,-1,1,-1,-1,1,-0.999986231327057,1,-1 529 | "TCGA-GM-A3XG-01",1330,0,-0.999998331069946,-0.999999940395355,1,-1,-1,-1,1,-1,-1,-1,-1,1,-1,-1,-1,-0.0995167270302773,-0.99996429681778,-1,1,-1,1,0.807391107082367 530 | "TCGA-GM-A3XL-01",2108,0,-0.999999940395355,-1,-1,-1,1,-1,1,-1,1,1,1,-1,0.999972999095917,1,1,-1,1,0.996199786663055,-1,1,-1,1 531 | "TCGA-GM-A3XN-01",2019,0,-1,1,1,-0.999970018863678,-1,1,0.999767661094666,1,-1,0.999834895133972,-1,1,-1,-1,0.855622410774231,0.999991059303284,-1,-0.955761551856995,1,-1,1,-1 532 | "TCGA-GM-A4E0-01",2191,0,-1,1,1,1,-1,1,-1,1,-1,1,-1,1,-1,-1,-0.992158353328705,1,-1,-1,1,-1,1,-1 533 | "TCGA-GM-A5PV-01",412,0,-1,-0.99999988079071,1,1,-1,1,1,1,-1,-1,-1,1,-1,-1,-1,1,-1,-0.378673732280731,1,-1,1,-1 534 | "TCGA-GM-A5PX-01",551,0,-1,-0.991802871227264,0.999909460544586,-0.990779340267181,-0.999988853931427,0.998778939247131,1,1,-1,1,-1,1,-1,-1,-1,1,-1,-0.957852423191071,0.996446430683136,-1,1,-1 535 | "TCGA-HN-A2NL-01",79,0,1,-1,-1,0.998544275760651,-0.998303890228271,-1,1,-1,1,-1,1,-1,1,1,1,1,1,1,-1,1,-0.999993920326233,1 536 | "TCGA-HN-A2OB-01",1900,1,-1,-1,1,-1,-1,0.9990394115448,1,-1,-1,-1,0.731746077537537,1,-1,-1,-1,-0.999966382980347,-1,-1,1,-1,1,1 537 | "TCGA-JL-A3YW-01",360,0,0.866523146629333,-0.999999284744263,-0.999994039535522,-1,-0.999999761581421,-1,1,-1,-1,1,-1,1,-1,1,1,-1,-1,-1,0.269015520811081,-0.999999761581421,1,1 538 | "TCGA-JL-A3YX-01",352,0,1,-0.909585237503052,-0.999935567378998,-0.99999988079071,-1,0.999644219875336,1,1,-0.999999403953552,-1,-1,1,1,1,-0.990716099739075,1,-1,1,-1,1,1,1 539 | "TCGA-LD-A66U-01",646,0,-1,0.425419002771378,-1,-0.779353678226471,0.938934028148651,1,1,1,-1,-0.986518859863281,-1,-1,-1,-1,-1,1,-1,-1,0.999999046325684,-1,1,-1 540 | "TCGA-LD-A74U-01",402,0,-1,-1,1,-1,-1,-0.999999642372131,1,-1,-1,0.96831226348877,-1,1,-1,-1,-1,0.999999523162842,1,-1,1,-1,1,-1 541 | "TCGA-LD-A7W5-01",216,0,-0.999997019767761,0.999813079833984,-1,0.999999165534973,-1,-1,-1,1,-1,1,-1,1,-1,-1,-0.999974846839905,1,-1,-1,1,0.999385893344879,1,-1 542 | "TCGA-LD-A7W6-01",404,0,-1,0.971673488616943,1,1,-1,1,0.999780297279358,1,-1,1,-1,1,-0.999996721744537,-1,-1,1,-1,-1,1,-1,1,-1 543 | "TCGA-LD-A9QF-01",323,0,-1,1,0.999895453453064,1,-0.999997675418854,-1,-1,-1,-0.999984979629517,1,-1,0.799227595329285,-1,-1,1,-1,-1,-1,0.991914868354797,-1,1,-0.999811768531799 544 | "TCGA-LL-A440-01",759,0,-1,-0.999999523162842,1,-0.999673008918762,-0.994936883449554,-0.922448992729187,1,-1,-1,-1,-1,1,-1,-1,-1,-0.996464967727661,-1,-1,1,-1,1,0.999999225139618 545 | "TCGA-LL-A441-01",996,0,-1,-1,-1,-1,0.999999701976776,-1,1,-1,1,0.81830894947052,1,-1,-1,1,1,-1,1,0.999999821186066,1,-0.999999701976776,-0.999998271465302,1 546 | "TCGA-LL-A442-01",889,0,-1,-1,1,0.988703370094299,-1,1,0.995969712734222,-1,-1,-1,-0.870010197162628,1,-1,-1,-0.999997973442078,1,-1,-1,1,-1,1,-1 547 | "TCGA-LL-A50Y-01",762,0,1,1,0.999998688697815,1,1,1,1,1,-1,1,-1,1,-0.662409901618958,-0.999999046325684,-0.999990701675415,1,-1,-1,0.999996840953827,0.941202938556671,1,-1 548 | "TCGA-LL-A5YL-01",519,0,-1,1,-0.999999821186066,1,1,-1,-0.999736189842224,1,-0.980218410491943,1,-1,0.999991714954376,1,0.999731540679932,-1,-0.987104892730713,-1,-1,-0.999703288078308,1,0.999943554401398,-1 549 | "TCGA-LL-A5YM-01",466,0,0.999975681304932,1,-1,1,1,1,-1,1,1,1,-1,1,1,1,-1,1,0.999988675117493,-1,0.999771118164062,1,-0.999995231628418,-1 550 | "TCGA-LL-A5YN-01",447,0,-1,-1,-1,1,-0.00120413233526051,0.999881863594055,1,0.999347507953644,0.998266696929932,-1,1,-0.763761281967163,-1,1,-1,1,-0.999654650688171,-0.999364495277405,-1,1,-0.699283480644226,-1 551 | "TCGA-LL-A5YO-01",440,0,-0.999637007713318,1,-1,-0.974468588829041,0.941852271556854,-1,0.201785862445831,-1,0.999940812587738,0.999866425991058,0.987715423107147,-1,-1,1,-0.98493093252182,-1,-1,-1,1,0.999949753284454,-0.998746931552887,1 552 | "TCGA-LL-A5YP-01",450,0,1,-1,-1,-1,1,-1,1,-1,1,1,1,-1,-1,1,1,-1,1,0.998857498168945,-1,1,-1,1 553 | "TCGA-LL-A6FP-01",677,0,1,-0.999951899051666,-1,0.999900221824646,1,1,1,1,-1,-1,0.799973547458649,-1,1,1,-1,1,0.99994432926178,-1,-1,-1,-1,-0.999870181083679 554 | "TCGA-LL-A6FQ-01",80,0,1,-1,-0.999943554401398,1,0.960362434387207,1,1,1,-1,-0.954707264900208,-1,-1,1,0.999977648258209,-1,1,0.999939322471619,-1,-1,-1,-1,-1 555 | "TCGA-LL-A6FR-01",489,0,1,-1,-1,-1,1,-1,1,-1,-0.0765950903296471,-1,1,-1,1,1,1,-1,1,1,-1,-1,-1,1 556 | "TCGA-LL-A73Y-01",477,0,1,-1,-1,-1,-0.999999165534973,-1,1,-1,0.99998939037323,-1,1,-1,-1,1,1,-1,1,0.999047160148621,-1,0.99999874830246,-1,1 557 | "TCGA-LL-A73Z-01",227,1,0.998301088809967,-1,0.920522511005402,-1,1,-1,1,-1,0.710231125354767,-1,-0.999879360198975,-0.999999761581421,-1,-1,1,-0.999999463558197,1,-1,-1,-1,-1,1 558 | "TCGA-LL-A740-01",441,0,-0.999997198581696,1,1,1,1,-0.999961376190186,0.999999165534973,0.999992311000824,-0.999943852424622,1,-1,-0.99962443113327,1,-1,-1,1,-1,-1,-1,1,-0.99999988079071,1 559 | "TCGA-LL-A7SZ-01",594,0,-0.802966356277466,-1,-1,0.413964241743088,1,1,1,1,1,-1,1,-1,1,1,-0.999607861042023,0.310055911540985,0.999989807605743,-1,-1,0.999999761581421,-1,-1 560 | "TCGA-LL-A7T0-01",376,0,1,-1,-0.796647012233734,1,1,1,1,1,0.999639570713043,-1,0.999996423721313,1,1,1,-0.990559697151184,-1,1,-1,1,1,-1,-1 561 | "TCGA-LL-A8F5-01",596,0,1,-1,-1,-1,1,-1,1,0.999978482723236,1,1,1,-1,-0.927479803562164,1,1,-1,1,-1,-1,0.994648933410645,-1,1 562 | "TCGA-LL-A9Q3-01",532,0,1,1,-0.990225672721863,0.999960601329803,1,1,1,1,1,1,-1,1,1,1,-1,1,0.99968022108078,-1,-1,-0.999999940395355,-1,-1 563 | "TCGA-LQ-A4E4-01",849,0,-1,1,-1,1,1,1,-1,1,-1,1,-1,1,1,-1,-1,1,-0.946865141391754,-0.999956905841827,-0.999982416629791,1,-0.999999940395355,-1 564 | "TCGA-MS-A51U-01",681,0,-1,0.999997138977051,1,1,-1,-0.63007777929306,-0.999459445476532,0.999391317367554,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,-1,1,0.99651026725769 565 | "TCGA-OK-A5Q2-01",64,0,-1,1,-1,1,0.978372156620026,1,-1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,1,0.983430922031403,1,-0.999518513679504 566 | "TCGA-OL-A5D6-01",1104,1,-1,1,1,-1,-0.999810636043549,1,1,-1,-1,1,-1,0.86116635799408,-1,0.998896896839142,-1,0.999990999698639,-1,-1,0.999999225139618,-0.999862670898438,0.0526362061500549,0.969659864902496 567 | "TCGA-OL-A5D7-01",1780,0,1,-0.985020041465759,-1,-0.999995648860931,1,-1,0.999989628791809,-1,1,0.999021828174591,1,-1,1,1,1,-1,1,1,-1,1,-1,1 568 | "TCGA-OL-A5D8-01",973,0,-1,0.983625948429108,1,1,1,0.999795734882355,-1,1,-1,1,-1,1,0.998911261558533,1,-1,1,-1,1,-1,1,1,-1 569 | "TCGA-OL-A5DA-01",1783,0,-0.618973612785339,1,1,-0.999954462051392,0.997944951057434,1,1,1,-1,-0.999999821186066,1,0.99992823600769,-0.990025460720062,-1,1,0.999883830547333,1,-0.99999988079071,1,0.299299120903015,0.939346849918365,-1 570 | "TCGA-OL-A5RU-01",1219,0,-1,1,-0.997326910495758,1,-0.999884963035583,0.371742427349091,0.996555089950562,1,-1,1,-1,1,-1,-1,0.99993360042572,1,-1,-1,0.983987927436829,-1,1,-0.904371917247772 571 | "TCGA-OL-A5RV-01",1062,0,-1,0.995858728885651,1,0.798492550849915,-1,1,1,0.999956429004669,-1,-1,-1,1,-1,-1,-0.999996721744537,1,-1,-0.99999988079071,1,-1,1,-1 572 | "TCGA-OL-A5RW-01",1106,0,0.971799910068512,-0.999997138977051,-1,-1,1,-1,0.999640107154846,-1,-1,-1,1,-1,0.999593138694763,1,0.999999046325684,0.999999701976776,1,-1,-1,1,-1,1 573 | "TCGA-OL-A5RX-01",878,0,-1,1,0.955031096935272,-0.998662650585175,-1,-0.999407112598419,-1,1,-1,1,-1,1,-1,-1,-1,1,-1,0.867043197154999,1,-1,1,0.999999821186066 574 | "TCGA-OL-A5RY-01",752,0,-1,1,1,-1,-1,-1,-0.934976518154144,-1,-1,1,-1,0.994812965393066,-1,-0.999999761581421,-1,-1,0.613009870052338,-1,1,-1,1,1 575 | "TCGA-OL-A5RZ-01",679,0,0.999914407730103,-1,-1,-0.999967336654663,0.999988853931427,-0.999975502490997,1,-1,1,-1,1,-1,1,1,1,-1,1,-0.99999988079071,-1,1,-1,1 576 | "TCGA-OL-A5S0-01",620,0,1,-0.999978125095367,-1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,-0.999999165534973,1,1,-1,1,-1,1 577 | "TCGA-OL-A66H-01",0,0,-1,-1,1,-1,-1,1,1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,-0.999381124973297,-1,1,-1 578 | "TCGA-OL-A66I-01",714,0,-0.752324938774109,-1,-1,-1,1,-1,1,-1,1,0.642463266849518,0.997955143451691,0.999998688697815,-1,1,-0.998515605926514,0.999255537986755,1,0.999808073043823,-0.99918931722641,1,-1,-0.999999821186066 579 | "TCGA-OL-A66J-01",1996,0,-1,1,1,1,1,1,0.999999523162842,1,-1,1,-1,1,-1,-1,-0.999999821186066,1,-1,-1,1,-1,1,-1 580 | "TCGA-OL-A66K-01",1275,1,0.998611986637115,1,-1,-1,1,1,1,1,1,-1,-1,1,1,1,0.658281564712524,1,1,0.99999988079071,-1,-1,1,-1 581 | "TCGA-OL-A66L-01",1301,0,-0.87919819355011,1,-1,0.99999988079071,-1,1,1,1,-1,1,-1,1,-1,-1,-1,1,-1,-1,-0.230371326208115,-1,1,-0.999982833862305 582 | "TCGA-OL-A66N-01",792,0,1,0.999998688697815,-1,-1,0.999983489513397,1,1,1,-1,1,-1,1,0.999999761581421,-1,-0.998974800109863,1,-1,-1,-1,-1,-0.999997854232788,-1 583 | "TCGA-OL-A66O-01",528,0,0.99999988079071,-0.511881172657013,1,1,-0.999998450279236,1,-1,1,-1,1,-1,1,1,-0.999998331069946,-1,1,-1,-1,-0.909908771514893,0.999999701976776,1,-1 584 | "TCGA-OL-A66P-01",428,0,0.86919379234314,-1,0.949814021587372,-1,-0.381917208433151,-0.99999862909317,1,-0.999316155910492,-1,-1,-1,-1,-1,1,-1,-1,0.999994575977325,-1,-1,0.95067948102951,-1,1 585 | "TCGA-OL-A6VO-01",858,0,1,-1,-1,-1,0.999999761581421,-1,1,-1,1,-1,1,-1,0.999853432178497,1,1,-1,1,1,-1,1,-1,1 586 | "TCGA-OL-A6VQ-01",600,0,-1,0.999914824962616,-0.999999761581421,1,-1,1,1,1,-1,1,-1,1,-1,-1,-1,1,-1,0.999842643737793,1,-1,1,0.999983370304108 587 | "TCGA-OL-A6VR-01",1220,0,1,0.999961495399475,1,1,-1,1,-0.999999821186066,1,-1,1,-1,1,0.999999821186066,-1,-1,1,-1,-0.99999862909317,1,-1,1,-1 588 | "TCGA-OL-A97C-01",271,0,-1,-1,1,-1,-1,-1,1,-1,1,-1,1,1,-1,0.626658082008362,1,-1,1,-1,0.997445166110992,-1,-1,-0.468810170888901 589 | "TCGA-PE-A5DC-01",1430,1,-1,-1,-0.99999988079071,1,-1,1,1,1,-1,-0.997773170471191,1,-0.999249875545502,1,0.999812602996826,0.993147611618042,1,-1,-1,-1,0.970740258693695,-0.999994158744812,-1 590 | "TCGA-PE-A5DD-01",1953,0,-1,1,0.999999821186066,1,1,1,1,1,-1,1,-1,1,-1,1,-1,1,-1,-1,1,1,0.998069643974304,-1 591 | "TCGA-PE-A5DE-01",2645,0,-0.999966084957123,1,-1,-1,-0.999999046325684,1,1,1,-1,-0.0233308915048838,1,1,-1,-0.999997437000275,-0.998470067977905,1,-1,-1,1,-0.995777130126953,1,-1 592 | "TCGA-PL-A8LV-01",7,0,1,-1,-1,-1,-1,-1,1,-1,-1,0.999998688697815,1,-1,0.999996066093445,1,1,-1,1,1,-1,-1,-1,1 593 | "TCGA-PL-A8LX-01",5,0,-1,0.999999403953552,1,-0.134723424911499,-1,1,1,1,-1,-1,-1,1,0.810872614383698,-1,-1,-1,0.997227013111115,-1,1,-0.999999642372131,1,0.999997973442078 594 | "TCGA-PL-A8LY-01",8,0,-0.999999940395355,-1,1,0.999974071979523,-1,-1,1,-1,-1,-1,0.999911487102509,1,-1,-1,-0.966836750507355,-0.721880674362183,-0.999995470046997,-1,1,-1,1,-0.999996185302734 595 | "TCGA-PL-A8LZ-01",302,0,-1,-1,-1,-1,1.00000011920929,-1,1,-1,1,-1,1,-1,-1,0.368972539901733,1,0.998735368251801,-0.843705892562866,1,-1,-1,-1,1 596 | "TCGA-S3-A6ZF-01",572,0,1,-1,-1,-1,1,1,0.999984383583069,1,1,0.999613285064697,1,-1,1,0.99355012178421,1,-0.999986350536346,1,-1,-1,1,-1,0.999997556209564 597 | "TCGA-S3-A6ZG-01",562,0,0.998889982700348,1,-0.995636403560638,1,1,1,-1,1,-0.999999940395355,1,-1,1,1,-1,-1,1,-1,0.987550973892212,0.995996057987213,0.999899983406067,-0.997462868690491,-1 598 | "TCGA-S3-A6ZH-01",641,0,1,-1,-0.999997317790985,0.988016664981842,-1,1,1,1,-1,-1,0.999998331069946,-1,1,1,1,1,1,-1,-1,1,-1,1 599 | "TCGA-S3-AA0Z-01",629,0,1,-1,-1,0.466923177242279,1,-1,0.999894917011261,-1,-1,-1,1,-1,0.999876856803894,1,1,-1,1,-0.930831551551819,-1,1,-1,1 600 | "TCGA-S3-AA10-01",586,0,0.975420236587524,-1,-1,-1,-0.932192981243134,-1,1,-1,1,-1,-1,-1,-1,1,1,-1,1,0.999999046325684,-1,0.999999344348907,-1,1 601 | "TCGA-S3-AA11-01",421,0,-1,1,1,1,-0.999989986419678,-0.9926837682724,-1,1,-1,1,-1,1,1,1,-1,1,-1,0.999398231506348,-0.00576526904478669,1,1,-1 602 | "TCGA-S3-AA12-01",574,0,1,-0.999991238117218,-0.99999988079071,1,-1,1,1,1,-1,-0.999945163726807,-1,1,0.999720633029938,-1,-1,1,0.991768836975098,-1,1,-1,1,0.996413230895996 603 | "TCGA-S3-AA14-01",529,0,-0.99351841211319,0.99999326467514,1,1,-0.999999403953552,0.0908245518803596,-1,1,-1,0.996341645717621,-1,1,-1,-1,1,1,-1,1,1,-1,1,-1 604 | "TCGA-S3-AA15-01",525,0,-1,-1,-0.999999821186066,1,-0.998636960983276,-1,-0.999984800815582,-1,0.999999821186066,0.74756520986557,-1,-1,-1,-0.99999612569809,-0.999918460845947,-1,-0.99999874830246,-1,-0.999972283840179,-1,-0.838282525539398,1 605 | "TCGA-UL-AAZ6-01",518,0,1,1,-1,1,1,1,-1,1,1,0.999994218349457,-1,-0.915748834609985,1,1,-0.999261915683746,0.999998331069946,0.99999988079071,-1,-1,1,-1,-1 606 | "TCGA-UU-A93S-01",116,1,1,0.999949514865875,-1,-1,0.999999940395355,-1,1,-1,1,-1,1,-1,1,1,-0.355152249336243,-1,1,1,-1,1,-1,1 607 | "TCGA-V7-A7HQ-01",2033,0,0.900105953216553,-1,1,1,-1,1,1,1,-1,1,-1,-1,-1,-1,-1,1,-1,-1,0.688389658927917,-1,1,-1 608 | "TCGA-W8-A86G-01",347,0,0.997400104999542,0.999983191490173,0.999999821186066,-0.999879717826843,-0.243377104401588,1,1,1,-1,-1,-1,1,-0.999999761581421,-1,-0.99995493888855,1,-1,-1,1,-1,0.999918520450592,-1 609 | "TCGA-WT-AB41-01",1611,0,0.999997556209564,1,-1,1,1,-0.95095282793045,1,1,0.813463568687439,1,0.0427886173129082,-0.999998509883881,1,1,0.362304776906967,-1,-1,1,-1,1,-0.895851731300354,1 610 | "TCGA-WT-AB44-01",883,0,1,1,-1,1,1,0.973210692405701,1,1,0.889146387577057,0.999949097633362,-1,-0.188870906829834,1,1,0.0338844209909439,1,-0.653208136558533,-0.999999940395355,0.999999642372131,-1,-0.999999761581421,-1 611 | "TCGA-XX-A899-01",467,0,-1,1,1,1,-1,0.998472094535828,-1,-1,-1,-1,-1,1,-1,-1,-1,-1,-1,-1,1,-1,1,1 612 | "TCGA-XX-A89A-01",488,0,-1,-0.999996960163116,0.999999761581421,-0.999999701976776,-1,1,1,0.988070011138916,-1,-1,1,-0.996797323226929,-1,-1,-0.744093894958496,-0.976434051990509,-0.999999761581421,-1,-0.942558944225311,-1,1,-0.372612625360489 613 | "TCGA-Z7-A8R5-01",3287,0,-1,1,-1,1,-0.992371141910553,0.999999284744263,-1,1,0.99999612569809,1,-1,1,-1,0.999251127243042,-1,1,-1,-1,-0.995563924312592,-1,1,-0.999878227710724 614 | "TCGA-Z7-A8R6-01",3256,0,1,-1,-1,0.999996840953827,0.242684572935104,1,1,1,-1,-1,1,-0.99999862909317,0.998952329158783,-1,-1,1,0.127326041460037,-1,-0.892609715461731,-1,1,1 615 | -------------------------------------------------------------------------------- /brca_multitest.csv: -------------------------------------------------------------------------------- 1 | GeneSymbol,TCGA-3C-AAAU-01,TCGA-3C-AALI-01,TCGA-3C-AALJ-01,TCGA-3C-AALK-01,TCGA-4H-AAAK-01,TCGA-5L-AAT0-01,TCGA-5T-A9QA-01,TCGA-A1-A0SB-01,TCGA-A1-A0SF-01,TCGA-A1-A0SG-01 2 | A1BGcopyNumber,0.1513,0.2507,0.038,-0.0173,0.2094,0.0201,-0.064,0.0143,0.1805,-0.007 3 | A1BGgeneExp,197.0897,237.3844,423.2366,191.0178,268.8809,203.7718,314.1841,49.1992,326.0194,168.8309 4 | A1BGmethylation,0.643079608,0.880189069,0.84142049,0.821475582,0.828328828,0.638135542,0.888757923,0.89579653,0.7369306,0.860262636 5 | A1BG-AS1copyNumber,0.1513,0.2507,0.038,-0.0173,0.2094,0.0201,-0.064,0.0143,0.1805,-0.007 6 | A1BG-AS1geneExp,147.5553,288.8635,197.5521,139.2511,205.9447,160.4517,118.6611,75.0039,187.298,148.6599 7 | A1BG-AS1methylation,0.643079608,0.880189069,0.84142049,0.821475582,0.828328828,0.638135542,0.888757923,0.89579653,0.7369306,0.860262636 8 | A1CFcopyNumber,-0.2015,-0.3155,0.0661,0.0031,0.0112,-0.0059,0.3714,0.016,0.2051,-0.0011 9 | A1CFgeneExp,0,0,0.9066,0,0.4255,0,0.523,0,0,0 10 | A1CFmethylation,,0.486560435,,0.489612445,,,0.665746039,0.632599688,0.513556682,0.442433766 11 | A2McopyNumber,0.2061,0.0322,0.054,-0.01,-0.2571,-0.4616,-0.0211,0.0151,0.2312,0.0259 12 | A2MgeneExp,5798.3746,7571.9793,8840.3989,10960.2193,9585.4426,12331.3213,3182.4843,31626.949,15583.9901,12472.9871 13 | A2Mmethylation,0.704462294,0.084947404,0.428228408,0.577717061,0.553690674,0.199388879,0.577891245,0.199684815,0.126475723,0.092899668 14 | A2ML1copyNumber,0.2061,0.0322,0.054,-0.01,-0.2571,-0.4616,-0.0211,0.0151,0.2312,0.0259 15 | A2ML1geneExp,1.3786,4.3502,0,1.6549,3.4043,1.1732,0,3.1535,3.4272,1.8 16 | A2ML1methylation,0.633692137,0.685413676,0.643626892,0.67602514,0.648158701,0.717025857,0.684029124,0.549694851,0.608472025,0.659739472 17 | A4GALTcopyNumber,-0.3746,-0.3984,-0.5817,0.0057,-0.0111,0.0139,0.5627,0.0191,-0.0423,-0.174 18 | A4GALTgeneExp,68.2424,157.6944,573.8894,506.4129,342.1277,370.1422,411.6109,337.4254,441.2557,619.5662 19 | A4GALTmethylation,0.043635038,0.052533493,0.076322008,0.109997618,0.044317172,0.058199021,0.037480155,0.031044178,0.053004997,0.038472652 20 | A4GNTcopyNumber,0.3052,0.3422,-0.0555,-0.0112,0.0181,0.0022,0.0351,0.0168,-0.027,-0.004 21 | A4GNTgeneExp,8.6165,0.5438,0,0,0.4255,4.1062,3.6611,0.901,0.8568,0.72 22 | A4GNTmethylation,0.416098582,0.652867059,0.470022998,0.353603261,0.453930906,0.500432613,0.625209334,0.905906995,0.583524561,0.368256527 23 | AAAScopyNumber,-0.2881,0.0327,-0.2098,-0.0122,-7.00E-04,-0.0031,0.0152,0.0148,0.2267,0.0107 24 | AAASgeneExp,649.3372,887.9826,723.4814,776.9963,819.1489,954.3921,873.431,711.7919,1005.4632,718.9272 25 | AAASmethylation,0.153639259,0.056005284,0.064451814,0.06474162,0.063210385,0.065299265,0.245827732,0.044087852,0.049161408,0.054861158 26 | AACScopyNumber,-0.2949,0.0235,0.2808,-0.0021,0.0078,0.0166,0.0175,0.018,-0.3375,0.0107 27 | AACSgeneExp,1087.3986,836.3241,1533.0916,858.0885,840,833.5533,1198.2218,2184.0297,442.9693,1721.1772 28 | AACSmethylation,0.039804689,0.032788507,0.036785039,0.031540863,0.035812584,0.033641279,0.044470263,0.026614335,0.024538091,0.021294651 29 | AACSP1copyNumber,0.2047,0.0055,0.0607,0.0075,0.0164,0.0042,-0.003,0.0134,-0.0359,0.0036 30 | AACSP1geneExp,1.3786,35.3453,2.7199,0,0.4255,0,0,820.3627,0,0 31 | AACSP1methylation,0.839495519,0.809946531,0.786439135,0.805374771,0.83934796,0.804572447,0.867673107,0.865306083,0.816790234,0.783979981 32 | -------------------------------------------------------------------------------- /brcatest_go.csv: -------------------------------------------------------------------------------- 1 | TCGA.3C.AAAU.01,TCGA.3C.AALI.01,TCGA.3C.AALJ.01,TCGA.3C.AALK.01,TCGA.4H.AAAK.01,TCGA.5L.AAT0.01,TCGA.5T.A9QA.01,TCGA.A1.A0SB.01,TCGA.A1.A0SF.01,TCGA.A1.A0SG.01 2 | 0.671388664,1.576897935,-0.360746148,-0.86451539,1.20066521,-0.523810695,-1.289940772,-0.576647252,0.9373934,-0.770684953 3 | -0.399289045,-0.005637673,1.810009882,-0.458607312,0.302061366,-0.334009546,0.744642321,-1.844077026,0.860265023,-0.675357992 4 | -1.652211654,0.790789861,0.391346933,0.185849269,0.256460076,-1.703151674,0.879077031,0.951597661,-0.685240051,0.585482549 5 | 0.671388664,1.576897935,-0.360746148,-0.86451539,1.20066521,-0.523810695,-1.289940772,-0.576647252,0.9373934,-0.770684953 6 | -0.33525425,2.110643341,0.530138223,-0.478991293,0.675405378,-0.112031014,-0.835382723,-1.591043331,0.352650445,-0.316134776 7 | -1.652211654,0.790789861,0.391346933,0.185849269,0.256460076,-1.703151674,0.879077031,0.951597661,-0.685240051,0.585482549 8 | -1.14272496,-1.744742824,0.270432761,-0.062261321,-0.019486368,-0.109789047,1.882678846,0.005861753,1.004472086,-0.084440927 9 | 1.097434644,0.247842494,0.354346858,0.041673496,-1.16553881,-2.16462791,-0.01255579,0.16430008,1.220061227,0.21706371 10 | -0.766664946,-0.539926332,-0.377770862,-0.10677184,-0.28252406,0.068510605,-1.101081822,2.535274416,0.484333599,0.08662124 11 | 1.472239128,-1.134255149,0.310036161,0.93898201,0.837895432,-0.652763817,0.939714857,-0.651518721,-0.959532431,-1.10079747 12 | 1.097434644,0.247842494,0.354346858,0.041673496,-1.16553881,-2.16462791,-0.01255579,0.16430008,1.220061227,0.21706371 13 | -0.360499396,0.743073596,-0.148523351,0.542752125,-0.051828973,1.417576904,0.713531664,-2.152734082,-0.8986163,0.195267814 14 | -0.879039908,-0.954695893,-1.537374138,0.329866456,0.276462231,0.355932805,2.100470834,0.372462684,0.177282955,-0.241368026 15 | -1.83131827,-1.310599771,1.112156962,0.719362372,-0.236975582,-0.073897413,0.167500423,-0.264348638,0.340068903,1.378051014 16 | -0.465933046,-0.084353927,0.935733334,2.379794082,-0.436682115,0.158592425,-0.729863675,-1.005848038,-0.064135127,-0.687303913 17 | 1.731036252,1.994598827,-0.838342687,-0.522779929,-0.314066863,-0.427327537,-0.192970545,-0.32332717,-0.635328272,-0.471492077 18 | -0.703078372,0.721093865,-0.378720767,-1.078990327,-0.475515369,-0.195805668,0.554731499,2.243139606,0.303995856,-0.990850323 19 | -1.909302089,0.387129038,-1.348795365,0.065714582,0.14803677,0.130856487,0.261856143,0.258992762,1.77586856,0.229643113 20 | -1.400648627,0.653065433,-0.762584847,-0.302050923,0.060702297,1.224566597,0.527838525,-0.863181341,1.664069877,-0.80177699 21 | 1.053384408,-0.470020555,-0.33822744,-0.333705531,-0.357597737,-0.325004471,2.491821974,-0.655970938,-0.576807098,-0.487872612 22 | -1.539610917,0.283145519,1.756120491,0.136592238,0.19326714,0.24364483,0.248797094,0.251659463,-1.783484737,0.209868879 23 | -0.127234437,-0.610618681,0.730841448,-0.568716504,-0.60354161,-0.615953197,0.086129281,1.984067965,-1.367929808,1.092955544 24 | 0.999146699,0.008398673,0.57274495,-0.167779885,0.435425555,0.128817753,1.657967726,-0.863449965,-1.156634298,-1.614637209 25 | 2.662463249,-0.334105366,0.496269069,-0.304019336,-0.170136501,-0.353661286,-0.461970995,-0.215265547,-0.956886193,-0.362687095 26 | 0.589279211,-0.399907945,-1.186845698,-0.552952993,0.5843395,-0.579811733,1.532557139,1.453318224,-0.170806931,-1.269168773 27 | -------------------------------------------------------------------------------- /km_plot.R: -------------------------------------------------------------------------------- 1 | library("ipred") 2 | library("survival") 3 | library("survivalROC") 4 | library("glmnet") 5 | library('kernlab') 6 | library('caret') 7 | setwd('D:/pan-cancer/brca') 8 | par(mfrow = c(3, 4)) 9 | ########################LIHC######################### 10 | kx2=read.csv('brca_cox2.csv',row.names= 1) 11 | ind=5 12 | results_fin<-matrix(nrow = ind, ncol=6) 13 | j=6 14 | set.seed(j) 15 | k=10 16 | folds <- createFolds(as.data.frame(t(kx2)),k) 17 | results<-matrix(nrow = k, ncol=4) 18 | eva<-matrix(nrow = nrow(kx2), ncol=k) 19 | count=0 20 | for(i in 1:k){ 21 | testset <- kx2[folds[[i]],] 22 | trainset <- kx2[-folds[[i]],] 23 | x=trainset[,-c(1:2)] 24 | x=as.matrix(x) 25 | tc=trainset$time 26 | tc[tc==0]=0.001 27 | y=Surv(tc,trainset$status) 28 | cv.fit<-cv.glmnet(x,y,family="cox",maxit=10000,alpha=0,nfold=5) 29 | fit<-glmnet(x,y,family="cox",alpha=0) 30 | tt=predict(fit,x,s=cv.fit$lambda.min) 31 | x2=testset[,-c(1:2)] 32 | x2=as.matrix(x2) 33 | tc2=testset$time 34 | tc2[tc2==0]=0.001 35 | y2=Surv(tc2,testset$status) 36 | tt2=predict(fit,x2,s=cv.fit$lambda.min) 37 | ci_k2=survConcordance(formula = y2~ tt2) 38 | 39 | 40 | results[i,1]<-ci_k2$concordance 41 | eva[(count+1):(count+nrow(tt2)),1]<-tc2 42 | eva[(count+1):(count+nrow(tt2)),2]<-testset$status 43 | eva[(count+1):(count+nrow(tt2)),3]=tt2 44 | count=count+nrow(tt2) 45 | 46 | } 47 | 48 | tc3=eva[,1]/365 49 | st3=eva[,2] 50 | rk3=eva[,3] 51 | rk4=eva[,4] 52 | y3=Surv(tc3,st3) 53 | ci_k3=survConcordance(formula = y3~ rk3) 54 | ci_k3$concordance 55 | mm=median(rk3) 56 | for (p in 1:length(rk3)){ 57 | if (rk3[p]>mm){ 58 | rk3[p]=1 59 | } else 60 | {rk3[p]=-1} 61 | } 62 | q2=survdiff(y3~rk3) 63 | p.val <- 1 - pchisq(q2$chisq, length(q2$n) - 1) 64 | p.val 65 | sd11=survfit(y3~rk3) 66 | 67 | 68 | 69 | 70 | ################################################ 71 | kt2=kx2[,-(1:2)] 72 | cl <- kmeans(kt2, 2) 73 | riskk=cl$cluster 74 | yy=Surv((kx2$time)/365,kx2$status) 75 | sp=survdiff(yy~riskk) 76 | p.valk2 <- 1 - pchisq(sp$chisq, length(sp$n) - 1) 77 | p.valk2 78 | riskk[riskk==2]=0 79 | #riskk_bl=riskk 80 | sd12=survfit(yy~riskk_bl) 81 | 82 | 83 | plot(sd11,conf.int=FALSE,mark.time=T,col=c("green","red"),lty=1,main="BRCA", 84 | cex.main=1.5,xlab="Year",ylab = "Survival Probablity",cex.lab=1.4,cex.axis=1.2,lwd=2) 85 | lines(sd12,mark.time=T,col=c("grey","grey"),lty=2,lwd=2) 86 | legend('topright',c('DCAP-low risk','DCAP-high risk'),lty=c(1,1),col=c(3,2),cex=1.2) -------------------------------------------------------------------------------- /uni_cox.R: -------------------------------------------------------------------------------- 1 | setwd('D:/brca') 2 | library('plyr') 3 | library("ipred") 4 | library("survival") 5 | library("survivalROC") 6 | library("glmnet") 7 | kx=read.csv("brca_cox.csv",row.names= 1) 8 | mysurv=Surv(kx$time,kx$status) 9 | 10 | 11 | Unicox <- function(x){ 12 | #cat("aa:",x,"\n") 13 | fml <- as.formula(paste0('mysurv~', x)) 14 | gcox <- coxph(fml, kx) 15 | cox_sum <- summary(gcox) 16 | HR <- round(cox_sum$coefficients[,2],2) 17 | PValue <- round(cox_sum$coefficients[,5],4) 18 | CI <- paste0(round(cox_sum$conf.int[,3:4],2),collapse='-') 19 | Uni_cox <- data.frame('Characteristics' = x, 20 | 'Hazard Ratio' = HR, 21 | 'CI95' = CI, 22 | 'P value' = PValue) 23 | return(Uni_cox) 24 | } 25 | VarNames <-colnames(kx)[3:ncol(kx)] 26 | Univar <- lapply(VarNames, Unicox) 27 | Univar <- ldply(Univar, data.frame) 28 | 29 | Univar[,5]=p.adjust(Univar$P.value, method ="fdr", n=dim(Univar)[1])# 30 | colnames(Univar)<-c("Characteristics", "Hazard.Ratio", "CI95", "P.value", "adj.p") 31 | dd=matrix(0,1,ncol(kx)) 32 | dd[1,3:ncol(kx)]=Univar$P.value 33 | dd=data.frame(dd) 34 | colnames(dd)=colnames(kx) 35 | ee=rbind(dd,kx) 36 | ff=ee[,ee[1,]<0.05] 37 | gg=ee[,ee[1,]<0.01] 38 | cox2=ff[-1,] 39 | write.csv(cox2,'brca_cox2.csv') 40 | -------------------------------------------------------------------------------- /workflow.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/Hua0113/DCAP/022f244f1639d538ff19427fa86df27da8439dba/workflow.png --------------------------------------------------------------------------------