Mercurial > repos > moneycat > mysort
changeset 0:e3afe097e80a draft default tip
First commit
| author | moneycat |
|---|---|
| date | Thu, 27 Jul 2017 22:24:59 -0400 |
| parents | |
| children | |
| files | nusvm.xml plot.r svr_without_rmse_corr.r test-data/barplot.png test-data/clusterplot.png test-data/mixture.csv test-data/result.csv test-data/signature_matrix.csv |
| diffstat | 8 files changed, 35533 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/nusvm.xml Thu Jul 27 22:24:59 2017 -0400 @@ -0,0 +1,139 @@ +<tool id="svr0" name="MySort" version="2017.07.24.8"> + <requirements> + </requirements> + <stdio> + <exit_code range="1:" /> + </stdio> + <command><![CDATA[ + Rscript "${script}" + ]]></command> + <configfiles> + <configfile name="script"><![CDATA[ +mixture <- read.csv("$input_mixture", header=T, row.names=1) +signature_matrix = read.csv("$input_signature", header=T, row.names=1) + +source("$__tool_directory__/svr_without_rmse_corr.r") +source("$__tool_directory__/plot.r") + +result <- SVR(signature_matrix, mixture) +clusterplot <- cluster_plot(result) +barplot <- bar_plot(result) + +write.csv(result, "$output_result") +png("$output_clusterplot", width=800, height=800) +clusterplot +invisible(dev.off()) +png("$output_barplot", width=800, height=800) +barplot +invisible(dev.off()) + ]]></configfile> + </configfiles> + <inputs> + <param type="data" name="input_mixture" format="csv" label="Mixture"/> + <param type="data" name="input_signature" format="csv" label="Signature matrix"/> + </inputs> + <outputs> + <data name="output_result" format="csv" label="Result of ${tool.name} on ${on_string}"/> + <data name="output_clusterplot" format="png" label="Cluster-plot of ${tool.name} on ${on_string}"/> + <data name="output_barplot" format="png" label="Bar-plot of ${tool.name} on ${on_string}"/> + </outputs> + <tests> + <test> + <param name="input_mixture" value="mixture.csv"/> + <param name="input_signature" value="signature_matrix.csv"/> + <output name="output_result" file="result.csv"/> + <output name="output_clusterplot" file="clusterplot.png"/> + <output name="output_barplot" file="barplot.png"/> + </test> + </tests> + <help><![CDATA[ + +**What it does** + + | MySort is a R program to estimate the fraction and abundance of immune cells based on gene expression profile in heterogeneous mixture tissues. + | + | Citation: MySort - A Gene Profiling Deconvolution Approach to Estimating Immune Cell Composition from Complex Tissues. + + +---- + +**Inputs** + + .. class:: warningmark + + | Comma-separated values (CSV) files ONLY! + +* **Mixture file** + + | Mixture file contains the gene expression profiles of samples. Each column refers to different experimental conditions. Each row represents the expression level of the gene symbol. + | + +* Example:: + + 17-002 17-006 17-019 17-023 17-026 17-027 17-030 17-034 17-040 + 7A5 22.31589866 25.28132198 27.09585 22.00866909 28.05138308 19.97328878 23.58830748 22.31589866 24.5900029 + A1BG 22.16175149 36.25228433 23.26356028 27.6651914 25.8125363 25.28132198 24.7610399 25.63423608 22.47111801 + A1CF 24.25146506 21.25897303 22.31589866 25.45716748 23.75237713 29.24260641 22.47111801 23.91758798 23.58830748 + A26C3 22.78480313 23.91758798 21.85664411 30.48441594 24.5900029 25.99207668 19.97328878 27.85761803 23.75237713 + A2BP1 42.51794605 22.627417 21.25897303 20.96629446 22.78480313 26.35491255 21.55573723 25.10669113 22.00866909 + +* **Signature Matrix file** + + | Signature matrix file is the gene expression signature profiles of each cell type. Each column refers to a single immune cell type. Each row represents the expression value of selected signature genes, which are used to estimate the abundance of immune cells. + | + + +* Example:: + + B cells naive B cells memory Plasma cells T cells CD8 T cells CD4 naive T cells CD4 memory resting T cells CD4 memory activated T cells follicular helper T cells gamma delta T cells regulatory (Tregs) + TCL1A 11762.9329863964 762.792841906926 502.833875600303 117.986529083727 146.531410192506 116.955378976466 69.9673544104057 151.861066666539 117.846466554419 86.5298778848906 + ABCB4 564.157988776832 13.2126403514086 9.26333899427403 5.97542505311934 6.31286755665178 9.4956471407396 10.249430943865 8.46885165495616 11.1449931559612 9.09238846544857 + AIM2 343.391399738098 4326.07933616138 1381.15051817772 309.918863346619 64.3615794973278 266.515332409956 3191.32538714028 1101.14371410434 397.275565779613 327.315303371804 + ZBTB32 12.24039385599 205.845379902139 15.6385731015393 31.3998897051428 33.7819675891862 9.96626463470093 202.575397976579 28.9208257029714 27.0139061691596 77.8965632518407 + CD27 402.562878492026 3939.40425295768 6600.97908386608 5292.27278301393 3885.54504835221 4026.06694012145 1110.92273824715 5495.01448261848 1685.96543960432 6725.22726617645 + + | + +---- + +**Outputs** + +* **Bar plot** + + | Bar plot where the x-axis is each experiment and y-axis is the proportion of immune cells. + + | + +* **Cluster plot** + + | Cluster plot shows the hierarchical clustering results of each sample according to the immune cell composition. + + | + +* **Output file** + + | Output file is the immune cell proportions of each experiment. Each column refers to a single immune cell type. Each row represents different experimental conditions. + + | + +* Example:: + + B cells naive B cells memory Plasma cells T cells CD8 T cells CD4 naive T cells CD4 memory resting T cells CD4 memory activated T cells follicular helper T cells gamma delta T cells regulatory (Tregs) + 17-002 5.86519116086516 5.78172185517755 0 28.0456263712606 0 12.3463700780668 3.70682402906826 2.55582761241995 0 0 + 17-006 7.96659407050384 0 0 34.3437301458475 0 21.6379512374475 0.410130270925141 6.40140829275814 0 4.06406539184987 + 17-019 12.1880447552976 4.4170765639818 0 13.6844979546959 0.439003816720928 15.3209721030027 0 0 5.01299153386902 0 + 17-023 9.29323882302043 4.11131568640441 0 1.61292111594947 0 32.1031844996338 0 2.02029369036927 0 2.03783408522463 + 17-026 3.64445891248583 8.34951887822622 0 28.1694480957887 0 12.2910782773502 0 3.11105683498932 0 0 + 17-027 7.14710082306742 8.58148089134017 0 26.1872213672226 4.6902671438807 8.44373238507345 0 3.4328987286918 0 0 + 17-030 2.11818136872382 8.59539494368935 0 16.3872716875959 0 14.912550920905 0 1.8127028236438 7.58859854878188 0 + 17-034 7.25696740663024 0 0.543172049350818 4.13758563880151 9.28035161185525 18.7470450023791 0 1.36823975273019 8.49903967754987 0 + 17-040 11.6655203206611 0 0.328516427461942 10.7770898907558 0 11.8748718361016 4.08443320076682 4.81389646437365 0.994290664613396 0 + + | + + ]]></help> + <citations> + <citation type="bibtex"> + </citation> + </citations> +</tool>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/plot.r Thu Jul 27 22:24:59 2017 -0400 @@ -0,0 +1,20 @@ +cluster_plot <- function(result){ + library(ggdendro) + library(ggplot2) + hc=hclust(dist(as.matrix(rbind(result)))) + cluster_plot=ggdendrogram(hc, theme_dendro = FALSE)+ labs(title="Cluster Dendrogram",x=NULL,y=NULL) + cluster_plot +} + +bar_plot <- function(result){ + library(ggplot2) + library(reshape2) + library(plyr) + df.m <- melt(result) + df.m <- rename(df.m, c(Var1 = "Sample", Var2 = "Cell_type")) + a <- ggplot(df.m,aes(x=Sample,y=value,fill=Cell_type))+labs(x=NULL, y="Cell %",fill = NULL,title = "Barplot") + bar_plot <- a + geom_bar(stat = "identity", position = "stack") + immigration_theme <- theme_update(axis.text.x = element_text(angle = 90)) + bar_plot +} +
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/svr_without_rmse_corr.r Thu Jul 27 22:24:59 2017 -0400 @@ -0,0 +1,54 @@ +SVR <- function(sig_matrix, mixture){ + library("e1071") + library("preprocessCore") + X <- sig_matrix + Y <- mixture + + X <- data.matrix(X) + Y <- data.matrix(Y) + + tmpc <- colnames(Y) + tmpr <- rownames(Y) + Y <- normalize.quantiles(Y) + colnames(Y) <- tmpc + rownames(Y) <- tmpr + + inter_gene <- intersect(rownames(X), rownames(Y)) + X <- X[inter_gene, ] + Y <- Y[inter_gene, ] + + X <- (X-mean(X))/sd(as.vector(X)) + + rmse_svm <- rep(0,3) + corr_svm <- rep(0,3) + rmse_mix <- c() + corr_mix <- c() + for(i in 1:ncol(Y)){ + t <- 1 + y <- Y[,i] + y <- (y-mean(y))/sd(y) + for(j in seq(0.25, 0.75, 0.25)){ + model <- svm(X, y, scale = F, type = "nu-regression", kernel = "linear", nu = j) + weights <- t(model$coefs) %*% model$SV + weights[which(weights<0)] <- 0 + w <- weights/sum(weights) + u <- sweep(X, MARGIN=2, w, '*') + k <- apply(u, 1, sum) + rmse_svm[t] <- sqrt((mean((k-y)^2))) + t <- t+1 + } + mn <- which.min(rmse_svm) + if(mn==1) model <- svm(X, y, scale=F, type="nu-regression", kernel="linear", nu=0.25) + if(mn==2) model <- svm(X, y, scale=F, type="nu-regression", kernel="linear", nu=0.5) + if(mn==3) model <- svm(X, y, scale=F, type="nu-regression", kernel="linear", nu=0.75) + q <- t(model$coefs) %*% model$SV + q[which(q<0)] <- 0 + if(i==1) f <- (q/sum(q)) + else f <- rbind(f, (q/sum(q))) + } + f=f*100 + result <- f + colnames(result) <- c(colnames(X)) + rownames(result) <- colnames(Y) + result +} \ No newline at end of file
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+ATP12A,20.11221399,25.10669113,22.627417,21.70566924,26.53822547,27.6651914,20.96629446,22.00866909,28.4429658,26.53822547,21.55573723,25.8125363,24.42014734,20.53481436,26.72281342,24.42014734,22.47111801,27.6651914,19.97328878,33.8245773 +ATP13A1,46.52712055,33.12847756,53.07645093,60.12945595,51.62507259,61.81992505,47.83517596,29.44600482,47.83517596,45.254834,44.63179732,38.58585049,51.62507259,66.71780869,78.24897777,37.27147477,33.59093388,53.44562684,33.8245773,38.58585049 +ATP13A2,22.94328397,22.00866909,31.34144952,25.8125363,25.63423608,34.2967508,36.50443891,29.44600482,27.6651914,30.48441594,20.96629446,32,23.75237713,27.09585,41.93258892,29.44600482,37.27147477,29.85705573,27.28431654,30.48441594 +ATP13A3,22.47111801,29.24260641,21.55573723,22.00866909,25.45716748,22.31589866,22.31589866,26.35491255,26.72281342,25.8125363,29.65081798,24.7610399,23.58830748,27.09585,24.08394796,34.7755156,27.85761803,24.5900029,24.25146506,23.91758798 +ATP13A4,28.05138308,23.75237713,25.8125363,23.26356028,19.15965927,21.85664411,22.47111801,23.10286713,20.96629446,21.55573723,25.10669113,22.16175149,23.58830748,19.42711815,21.25897303,24.5900029,22.627417,25.45716748,25.99207668,20.2521055 +ATP13A5,20.53481436,18.63573738,18.76535919,19.97328878,19.69831061,21.11212657,19.56224444,21.11212657,20.67764529,19.02731384,19.69831061,18.89588258,19.02731384,20.11221399,20.11221399,19.29292524,19.97328878,19.56224444,18.76535919,21.25897303 +ATP1A1,487.750655,515.5612416,362.038672,515.5612416,484.3815151,393.4400464,324.0336881,968.7630302,995.9986662,797.8645296,608.8740429,1052.788558,797.8645296,814.6293594,948.8261754,739.2917481,552.5648571,592.2243502,584.0710225,675.5880503 +ATP1A2,18.63573738,21.40684088,19.56224444,21.11212657,21.55573723,19.56224444,18.76535919,19.29292524,18.89588258,19.8353232,19.42711815,19.42711815,19.56224444,19.56224444,20.39297004,19.15965927,19.15965927,19.97328878,18.63573738,20.39297004 +ATP1A3,22.47111801,32.89964245,30.2738447,30.69645182,29.85705573,41.06962872,23.91758798,36.50443891,22.47111801,28.24649588,24.7610399,22.78480313,22.31589866,24.08394796,28.05138308,24.93326655,23.26356028,39.94657756,33.12847756,25.45716748 +ATP1A4,19.56224444,20.82146969,21.11212657,21.70566924,20.67764529,19.97328878,20.39297004,19.15965927,19.15965927,18.89588258,18.63573738,19.69831061,19.69831061,19.8353232,20.11221399,20.11221399,19.97328878,19.42711815,18.63573738,20.11221399 +ATP1B1,85.0358921,54.56863307,38.31931855,49.1800058,85.62736351,72.00374302,63.55791971,82.71058116,70.03479688,67.6491546,149.0858991,120.2589119,58.08122594,81.00842201,65.79928491,107.6347412,61.39290364,56.10276616,97.68058937,74.02804377 +ATP1B2,23.75237713,20.39297004,19.97328878,22.94328397,20.2521055,22.47111801,20.2521055,19.56224444,24.5900029,28.8400148,21.40684088,21.11212657,22.00866909,20.39297004,19.97328878,20.67764529,21.25897303,22.00866909,20.53481436,21.11212657 +ATP1B3,398.9322648,464.6498075,276.2824285,340.1435684,552.5648571,254.2316788,344.8917957,564.1754193,530.055641,367.0925435,497.9993331,552.5648571,481.0356476,617.3736078,975.50131,451.9439341,734.185087,699.4126115,461.4402369,455.0874528 +ATP1B4,19.29292524,19.97328878,20.2521055,21.40684088,21.11212657,19.97328878,20.2521055,19.56224444,19.02731384,20.11221399,23.75237713,19.42711815,19.8353232,19.42711815,20.67764529,19.97328878,19.56224444,23.10286713,19.15965927,19.8353232 +ATP2A1,20.39297004,21.55573723,28.4429658,28.4429658,41.93258892,19.8353232,27.47409397,23.10286713,22.47111801,21.25897303,39.94657756,24.25146506,28.4429658,25.63423608,22.78480313,24.7610399,22.78480313,20.2521055,25.28132198,26.72281342 +ATP2A2,76.10925536,85.62736351,76.10925536,53.44562684,45.254834,36.75834736,66.71780869,78.79324245,103.9683067,90.50966799,95.00950852,74.54294953,65.79928491,75.06143675,105.4196502,98.3600116,88.64700596,81.00842201,60.54768939,77.17170097 +ATP2A3,34.2967508,55.3303828,82.71058116,24.08394796,28.8400148,31.34144952,42.51794605,44.63179732,83.28587875,60.96883187,51.62507259,44.63179732,73.51669472,45.254834,64.89340671,56.10276616,62.68289905,64.89340671,49.52207979,72.00374302 +ATP2B1,40.78594007,58.08122594,33.12847756,28.8400148,26.90868529,32.2225776,26.90868529,63.55791971,71.50637684,65.34477605,43.41133848,60.12945595,55.71523605,67.18186775,60.54768939,92.41146851,34.2967508,102.5369443,76.6386371,61.81992505 +ATP2B2,24.25146506,20.39297004,21.40684088,23.26356028,21.70566924,21.25897303,22.47111801,20.96629446,20.82146969,20.11221399,20.2521055,20.53481436,23.58830748,22.627417,20.39297004,22.00866909,24.42014734,22.16175149,21.11212657,25.63423608 +ATP2B3,24.42014734,20.82146969,22.00866909,23.58830748,20.39297004,21.25897303,21.70566924,22.00866909,24.25146506,24.42014734,29.85705573,27.85761803,22.00866909,22.47111801,27.09585,25.28132198,20.82146969,24.93326655,26.90868529,20.53481436 +ATP2B4,88.64700596,73.00887782,168.8970126,91.77313587,103.2501452,79.89315513,125.3657981,65.34477605,51.98415337,99.7330662,92.41146851,89.26359465,121.9376637,106.1529019,71.50637684,109.1372661,77.17170097,54.19169999,71.01244621,103.9683067 +ATP2C1,28.4429658,25.8125363,43.71328822,22.78480313,20.2521055,32.2225776,33.35890435,33.59093388,30.90996253,35.26096371,38.8542363,34.53530357,29.65081798,31.12495832,30.48441594,32.2225776,25.63423608,25.99207668,23.26356028,29.65081798 +ATP2C2,26.17286587,21.70566924,23.91758798,42.22425314,21.70566924,26.53822547,23.75237713,22.31589866,23.58830748,22.31589866,24.08394796,21.85664411,23.10286713,25.99207668,20.96629446,20.67764529,21.85664411,22.16175149,25.8125363,29.44600482 +ATP4A,20.39297004,21.25897303,20.11221399,20.2521055,19.29292524,19.29292524,22.627417,20.2521055,20.39297004,19.97328878,19.97328878,20.67764529,19.29292524,18.76535919,19.8353232,20.67764529,19.69831061,19.8353232,20.53481436,20.53481436 +ATP4B,27.28431654,22.78480313,23.26356028,29.65081798,21.25897303,29.24260641,23.26356028,21.85664411,24.5900029,23.58830748,26.17286587,27.85761803,25.99207668,25.45716748,21.11212657,28.8400148,23.42537114,20.67764529,24.93326655,20.2521055 +ATP5A1,670.9214228,592.2243502,1105.129714,556.4082496,519.1472537,699.4126115,942.2721542,714.1087572,670.9214228,781.444715,744.4339289,685.0189081,826.0011614,630.3459396,617.3736078,634.7303424,694.5814157,552.5648571,680.2871368,754.8258393 +ATP5B,1820.349811,1698.44643,1978.237602,1398.825223,1296.134752,1314.228119,1541.372669,2368.897401,2817.109644,2336.28409,2241.1135,2194.992051,1897.652351,1584.706553,2164.772947,1710.260059,2179.830134,1584.706553,1520.152136,1964.572916 +ATP5C1,168.8970126,128.8903104,164.2785149,121.9376637,172.4458978,158.6825856,195.3611787,170.0717842,114.5632091,187.4029691,181.019336,195.3611787,190.019017,294.0667789,167.7303557,215.2694823,141.0438548,172.4458978,266.8712348,164.2785149 +ATP5D,259.5736268,308.6868039,393.4400464,393.4400464,288.0149721,362.038672,380.0380341,324.0336881,308.6868039,224.4110647,464.6498075,163.1437603,407.3146797,252.4755724,340.1435684,321.7954239,324.0336881,357.0543786,254.2316788,330.8423246 +ATP5E,410.1477773,458.2528363,625.9918222,481.0356476,359.5378882,494.5594004,512,781.444715,560.278375,564.1754193,843.3572017,814.6293594,533.7424696,855.1300295,342.509454,568.0995697,494.5594004,508.4633577,1120.55675,560.278375 +ATP5EP2,2503.967289,2418.672971,4211.154234,2091.032833,1897.652351,2702.352201,2998.447505,5367.371382,3848.285181,3717.19846,3902.00524,4770.74877,3666.022691,4389.984103,3104.187528,3373.428807,2797.650446,2628.456238,4153.178029,3666.022691 +ATP5F1,484.3815151,421.6786008,484.3815151,382.6814077,464.6498075,427.5650147,364.5568501,639.145241,404.5011517,436.5490646,564.1754193,568.0995697,548.7480128,401.7070581,401.7070581,515.5612416,362.038672,352.1387054,639.145241,491.1432291 +ATP5G1,127.1158394,95.00950852,108.3834,140.0695938,107.6347412,166.5717575,149.0858991,116.1624519,115.3600592,159.7863103,196.7200232,143.0127537,138.1412143,158.6825856,121.0953788,103.9683067,126.2377862,118.6032719,119.4282229,88.64700596 +ATP5G2,734.185087,831.7464539,1562.88943,867.0671999,820.2955547,968.7630302,929.299615,1144.102029,995.9986662,1438.151553,1552.093764,1136.199139,1060.111282,1052.788558,1024,1296.134752,1260.691879,1176.267116,1089.915067,1089.915067 +ATP5G3,19.15965927,21.85664411,20.11221399,19.15965927,20.53481436,20.53481436,20.2521055,20.11221399,21.70566924,19.02731384,28.05138308,20.11221399,20.39297004,20.96629446,20.11221399,21.11212657,19.56224444,20.53481436,20.11221399,19.29292524 +ATP5H,580.0365493,652.5750412,541.1932368,560.278375,608.8740429,685.0189081,572.0510147,891.4437768,548.7480128,765.3628153,910.1749055,1082.386474,922.8804737,765.3628153,803.4141162,749.6118763,564.1754193,661.6846493,861.0779292,729.1137001 +ATP5I,600.491494,754.8258393,1152.059888,781.444715,891.4437768,891.4437768,734.185087,1541.372669,1112.816499,1128.350839,1120.55675,1389.162831,879.1710069,1389.162831,820.2955547,982.2864582,861.0779292,621.6677808,1438.151553,1398.825223 +ATP5J,393.4400464,337.7940252,548.7480128,424.6116075,445.7218884,477.7128917,494.5594004,699.4126115,359.5378882,541.1932368,477.7128917,564.1754193,501.4631924,439.5855035,328.5570298,445.7218884,385.3431673,401.7070581,497.9993331,484.3815151 +ATP5J2,227.5437264,196.7200232,324.0336881,261.3791042,265.0278205,352.1387054,410.1477773,237.2065438,263.1971396,248.9996665,364.5568501,298.1717981,257.7806208,206.5002904,243.8753275,312.9959111,237.2065438,225.9719671,276.2824285,298.1717981 +ATP5L,903.8878682,995.9986662,1552.093764,1024,867.0671999,1176.267116,1192.687193,1686.714403,1226.218194,1618.004607,1595.729059,1686.714403,1618.004607,1652.002323,1128.350839,962.0712952,1606.828232,1200.982988,2435.496172,1770.57225 +ATP5O,519.1472537,639.145241,843.3572017,484.3815151,639.145241,760.0760682,588.1335578,849.2232149,576.0299442,916.5056726,652.5750412,831.7464539,776.0468821,885.2861249,729.1137001,625.9918222,699.4126115,699.4126115,1067.484939,814.6293594 +ATP5S,77.17170097,64.89340671,53.44562684,92.41146851,70.03479688,101.1252879,83.86517785,68.11969168,72.50456866,69.07060714,54.56863307,63.11889309,44.94223602,86.82267696,65.34477605,73.00887782,72.00374302,69.5510312,97.00586026,60.12945595 +ATP5SL,64,70.52192742,80.44885597,77.17170097,53.81737058,83.86517785,77.7084726,77.17170097,68.5935016,58.89200964,64.89340671,70.03479688,65.34477605,36.00187151,60.96883187,76.6386371,82.13925744,85.62736351,71.01244621,70.52192742 +ATP6AP1,497.9993331,272.4787667,497.9993331,455.0874528,421.6786008,445.7218884,424.6116075,519.1472537,442.6430624,404.5011517,572.0510147,347.2907078,357.0543786,224.4110647,388.023441,484.3815151,396.1766383,300.245747,254.2316788,533.7424696 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+CLEC3B,23.58830748,24.5900029,25.63423608,22.47111801,29.24260641,22.00866909,27.09585,29.24260641,27.85761803,22.94328397,30.90996253,28.24649588,31.34144952,25.10669113,28.24649588,29.04061297,24.5900029,32,22.94328397,24.93326655 +CLEC4A,165.4211623,108.3834,160.8977119,156.4979555,160.8977119,153.2772742,192.6715837,330.8423246,181.019336,122.7858073,333.143515,243.8753275,174.8531529,143.0127537,119.4282229,280.1391875,76.6386371,65.34477605,186.1084822,148.0560875 +CLEC4C,22.94328397,24.42014734,28.24649588,27.47409397,56.88593159,40.50421101,35.75318842,21.11212657,21.25897303,29.65081798,22.47111801,23.42537114,27.09585,25.28132198,29.04061297,28.4429658,23.58830748,22.00866909,26.53822547,37.01402188 +CLEC4D,24.08394796,36.75834736,27.6651914,20.53481436,26.72281342,32,30.69645182,32.67238802,23.42537114,20.2521055,24.08394796,26.72281342,30.48441594,23.42537114,21.85664411,27.09585,21.40684088,22.47111801,24.5900029,28.24649588 +CLEC4E,24.08394796,37.79176517,24.08394796,31.12495832,25.28132198,29.24260641,31.55944654,26.17286587,24.5900029,29.44600482,24.5900029,23.91758798,24.7610399,25.99207668,24.42014734,30.06472797,33.12847756,34.7755156,24.5900029,24.08394796 +CLEC4F,29.85705573,23.58830748,24.08394796,21.55573723,27.09585,21.70566924,24.7610399,25.99207668,19.69831061,24.7610399,22.00866909,20.39297004,19.97328878,21.40684088,20.11221399,19.97328878,26.53822547,19.69831061,22.31589866,21.70566924 +CLEC4G,25.28132198,23.26356028,28.64080227,27.09585,41.93258892,21.70566924,22.31589866,22.31589866,27.09585,21.70566924,34.2967508,28.4429658,23.42537114,21.70566924,25.63423608,32,24.42014734,28.24649588,26.17286587,21.85664411 +CLEC4GP1,23.42537114,20.96629446,19.69831061,21.25897303,19.42711815,22.00866909,22.00866909,19.8353232,20.2521055,20.82146969,19.97328878,19.56224444,20.96629446,23.10286713,21.40684088,22.78480313,22.47111801,20.39297004,22.31589866,20.53481436 +CLEC4M,29.85705573,23.42537114,19.42711815,23.75237713,22.00866909,23.91758798,22.00866909,28.05138308,19.56224444,27.6651914,20.39297004,23.42537114,21.70566924,24.08394796,21.11212657,27.09585,22.47111801,25.99207668,54.19169999,22.94328397 +CLEC5A,20.2521055,19.69831061,19.42711815,24.25146506,22.16175149,22.00866909,20.96629446,24.93326655,34.2967508,20.53481436,40.78594007,21.70566924,21.11212657,19.97328878,21.40684088,32,19.69831061,19.56224444,25.45716748,25.99207668 +CLEC6A,26.53822547,24.7610399,24.08394796,25.28132198,25.45716748,26.35491255,25.10669113,24.7610399,26.53822547,22.00866909,25.10669113,22.78480313,24.08394796,22.47111801,25.28132198,23.91758798,27.09585,35.26096371,29.85705573,21.40684088 +CLEC7A,93.70148454,49.8665331,28.05138308,120.2589119,163.1437603,95.00950852,100.4267645,87.42657643,108.3834,63.55791971,284.0497848,66.71780869,29.24260641,29.24260641,109.8963759,177.2940119,59.71411146,64.89340671,150.1228735,50.56264396 +CLEC9A,31.12495832,33.59093388,30.69645182,43.71328822,62.24991663,29.24260641,25.10669113,32,24.42014734,30.90996253,26.72281342,24.7610399,26.72281342,38.58585049,27.47409397,23.58830748,23.10286713,40.50421101,22.627417,24.25146506 +CLECL1,29.85705573,32,54.56863307,32.44670335,45.254834,25.28132198,32.2225776,31.55944654,46.52712055,49.8665331,29.44600482,63.11889309,23.91758798,28.64080227,41.06962872,28.05138308,34.2967508,48.16789592,69.07060714,55.71523605 +CLGN,22.94328397,21.25897303,22.16175149,23.75237713,22.47111801,22.78480313,20.96629446,21.11212657,21.70566924,25.45716748,24.25146506,22.16175149,21.55573723,24.5900029,21.25897303,27.28431654,21.25897303,22.16175149,30.48441594,32.2225776 +CLIC1,760.0760682,461.4402369,625.9918222,689.7835914,451.9439341,689.7835914,885.2861249,714.1087572,643.5908478,458.2528363,760.0760682,634.7303424,477.7128917,512,552.5648571,689.7835914,404.5011517,308.6868039,734.185087,675.5880503 +CLIC2,21.25897303,19.42711815,21.70566924,20.67764529,20.39297004,20.39297004,19.42711815,20.2521055,24.93326655,20.67764529,21.55573723,22.16175149,19.8353232,20.2521055,20.67764529,20.11221399,20.39297004,22.47111801,19.29292524,20.82146969 +CLIC3,85.0358921,40.22442798,222.8609442,78.79324245,71.50637684,141.0438548,127.1158394,70.52192742,78.79324245,79.3412928,76.6386371,59.71411146,81.00842201,95.00950852,33.8245773,58.08122594,54.19169999,34.7755156,26.90868529,75.58353033 +CLIC4,65.79928491,78.24897777,45.56960626,49.52207979,30.06472797,71.50637684,57.68002961,43.11147446,59.71411146,61.81992505,59.71411146,58.48521281,49.8665331,62.24991663,53.81737058,48.84029469,42.51794605,49.52207979,52.70982511,53.44562684 +CLIC5,19.97328878,20.11221399,19.29292524,19.8353232,21.70566924,20.2521055,19.69831061,18.76535919,19.56224444,19.15965927,18.76535919,19.97328878,19.56224444,19.69831061,19.15965927,19.8353232,19.56224444,18.63573738,19.42711815,19.97328878 +CLIC6,21.55573723,21.40684088,22.627417,27.47409397,21.11212657,22.31589866,21.25897303,21.70566924,21.85664411,20.96629446,20.82146969,22.16175149,20.82146969,21.11212657,25.28132198,20.82146969,24.5900029,19.97328878,19.29292524,24.08394796 +CLINT1,104.6914635,92.41146851,222.8609442,78.79324245,94.35322991,119.4282229,137.1870032,119.4282229,147.0333894,171.254727,127.1158394,163.1437603,162.016844,171.254727,146.0177556,138.1412143,138.1412143,159.7863103,135.2983092,141.0438548 +CLIP1,116.9704256,71.50637684,93.70148454,90.50966799,74.54294953,68.5935016,122.7858073,147.0333894,72.00374302,110.6607656,99.7330662,132.5139103,116.1624519,101.1252879,126.2377862,119.4282229,132.5139103,76.6386371,124.4998333,110.6607656 +CLIP2,26.72281342,32.67238802,27.6651914,30.48441594,20.96629446,25.99207668,31.77895985,39.12448889,39.94657756,29.85705573,35.50622311,27.28431654,31.55944654,35.26096371,27.28431654,31.12495832,25.63423608,21.55573723,26.17286587,50.56264396 +CLIP3,26.17286587,19.8353232,19.42711815,19.42711815,19.42711815,19.97328878,19.97328878,20.39297004,19.97328878,20.96629446,22.31589866,19.69831061,22.627417,20.82146969,20.39297004,20.2521055,20.53481436,19.97328878,18.89588258,21.25897303 +CLIP4,24.93326655,24.25146506,34.05984584,22.78480313,40.22442798,29.65081798,23.26356028,30.06472797,23.10286713,40.22442798,25.45716748,31.55944654,27.85761803,26.72281342,32.44670335,31.34144952,34.7755156,22.00866909,24.93326655,35.75318842 +CLK1,1016.926715,989.1188008,548.7480128,760.0760682,879.1710069,891.4437768,744.4339289,1052.788558,1120.55675,1606.828232,929.299615,1618.004607,1314.228119,1686.714403,1408.554822,1082.386474,1243.335562,1144.102029,1002.926385,826.0011614 +CLK2,69.07060714,47.17661495,27.09585,66.71780869,89.88447205,67.6491546,39.39662123,65.34477605,58.48521281,51.26847217,74.02804377,41.93258892,41.35529058,75.58353033,55.71523605,99.7330662,54.19169999,71.50637684,56.88593159,68.11969168 +CLK2P,23.42537114,31.55944654,22.16175149,20.67764529,23.91758798,23.10286713,24.08394796,20.2521055,26.35491255,24.7610399,22.16175149,23.58830748,23.91758798,24.42014734,20.67764529,25.10669113,29.65081798,23.42537114,25.10669113,20.39297004 +CLK3,218.2745323,206.5002904,121.0953788,159.7863103,141.0438548,184.822937,132.5139103,116.9704256,183.5462717,165.4211623,143.0127537,124.4998333,112.9859835,149.0858991,181.019336,121.9376637,240.5178238,219.7927517,126.2377862,206.5002904 +CLK4,23.42537114,24.08394796,31.77895985,25.28132198,28.64080227,24.42014734,26.53822547,22.00866909,28.64080227,40.50421101,20.39297004,43.11147446,24.08394796,28.64080227,33.35890435,22.78480313,33.59093388,33.12847756,32.2225776,28.4429658 +CLLU1,27.09585,20.53481436,25.28132198,34.2967508,28.05138308,23.91758798,22.00866909,22.00866909,23.91758798,22.627417,25.8125363,24.08394796,22.78480313,24.93326655,20.96629446,20.67764529,23.91758798,20.53481436,21.55573723,23.75237713 +CLLU1OS,19.42711815,19.56224444,19.42711815,19.8353232,19.56224444,20.67764529,20.53481436,21.55573723,19.69831061,19.15965927,22.00866909,20.67764529,19.42711815,21.11212657,20.39297004,19.97328878,20.53481436,19.29292524,19.56224444,20.67764529 +CLMN,28.4429658,25.28132198,24.25146506,26.90868529,27.85761803,23.75237713,23.10286713,32.89964245,34.7755156,24.93326655,21.70566924,24.25146506,28.05138308,27.09585,24.7610399,25.63423608,20.82146969,25.28132198,30.69645182,28.64080227 +CLN3,26.35491255,29.85705573,49.8665331,51.62507259,34.05984584,42.22425314,39.12448889,37.79176517,61.39290364,40.22442798,49.8665331,37.01402188,30.69645182,32.89964245,34.53530357,42.51794605,36.25228433,35.01739844,26.17286587,36.50443891 +CLN5,20.67764529,21.40684088,24.93326655,22.31589866,19.15965927,22.627417,20.82146969,29.24260641,20.96629446,26.35491255,21.70566924,30.90996253,25.10669113,21.85664411,25.45716748,21.25897303,26.17286587,23.42537114,19.69831061,22.94328397 +CLN6,21.70566924,22.78480313,23.91758798,29.44600482,21.70566924,22.47111801,22.31589866,25.8125363,19.69831061,22.00866909,23.58830748,19.69831061,20.2521055,21.25897303,21.70566924,20.39297004,20.39297004,20.2521055,20.82146969,24.25146506 +CLN8,23.10286713,29.85705573,23.10286713,25.63423608,29.44600482,26.53822547,22.94328397,23.26356028,28.24649588,24.5900029,25.28132198,25.28132198,35.26096371,25.10669113,21.85664411,24.5900029,24.93326655,37.01402188,25.8125363,21.70566924 +CLNK,24.7610399,25.99207668,23.10286713,25.63423608,28.24649588,23.91758798,25.28132198,21.40684088,22.78480313,23.42537114,21.40684088,20.96629446,22.31589866,21.70566924,21.11212657,22.31589866,20.96629446,21.40684088,20.96629446,24.93326655 +CLNS1A,137.1870032,127.1158394,183.5462717,198.0883192,103.2501452,141.0438548,198.0883192,124.4998333,88.64700596,112.9859835,159.7863103,167.7303557,160.8977119,121.9376637,112.2055323,129.7868134,114.5632091,136.2393834,176.0693527,125.3657981 +CLOCK,32.89964245,44.63179732,43.11147446,35.01739844,20.39297004,31.34144952,32.67238802,47.17661495,36.25228433,32.2225776,45.254834,37.53071838,26.53822547,35.75318842,38.8542363,46.52712055,33.35890435,40.50421101,34.7755156,30.2738447 +CLP1,46.20573426,45.254834,34.7755156,40.78594007,33.59093388,48.16789592,25.99207668,54.19169999,50.56264396,46.20573426,39.39662123,50.21338227,42.81368175,54.56863307,60.54768939,40.78594007,54.19169999,79.3412928,62.68289905,65.34477605 +CLPB,22.94328397,20.39297004,20.53481436,22.00866909,20.53481436,20.11221399,21.55573723,19.69831061,19.69831061,22.94328397,19.56224444,19.02731384,20.2521055,21.25897303,21.25897303,20.53481436,20.67764529,20.2521055,20.53481436,22.78480313 +CLPP,51.98415337,58.08122594,38.05462768,40.50421101,40.22442798,60.96883187,55.71523605,52.34573175,49.52207979,40.50421101,46.52712055,54.94818793,61.81992505,39.6706464,52.34573175,40.78594007,52.70982511,54.56863307,42.81368175,51.62507259 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