Chi-Co-Express: A database of human co-expression networks from global cell states

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#ProbeRowTitleSymbolIs TFCnx (X2>20)TF.Cnx (X2>10)JetSet_BMeanSD
11487_at12estrogen-related receptor alphaESRRATF:Yes46006441.16610.73510.187
21556156_at2818estrogen-related receptor betaESRRBTF:Yes1111071.12310.30230.208
31565765_x_at7987mesenteric estrogen-dependent adipogenesisMEDAGTF:No157NA0.54850.244
41569554_at9291estrogen receptor 2 (ER beta) ///ESR2 /// RP11-544I20.2TF:Yes1740352NA0.31130.209
5203193_at12642estrogen-related receptor alphaESRRATF:Yes2342031.08070.62180.202
6204032_at13480breast cancer anti-estrogen resistance 3BCAR3TF:No28595191.31330.58780.251
7204274_at13722estrogen receptor binding site associated, antigen, 9EBAG9TF:No982212771.26250.77550.244
8204278_s_at13726estrogen receptor binding site associated, antigen, 9EBAG9TF:No67419821.16090.66970.247
9205225_at14673estrogen receptor 1ESR1TF:Yes52461.23150.46610.275
10205862_at15310growth regulation by estrogen in breast cancer 1GREB1TF:No15603811.29050.35530.307
11207726_at17168estrogen-related receptor betaESRRBTF:Yes95241412NA0.21780.195
12207981_s_at17413estrogen-related receptor gammaESRRGTF:Yes14002881.35530.42190.287
13209966_x_at19373estrogen-related receptor gammaESRRGTF:Yes239951.03260.44620.238
14210562_at19951growth regulation by estrogen in breast cancer 1GREB1TF:No50177771.00870.20970.2
15210640_s_at20026G protein-coupled estrogen receptor 1GPER1TF:No60611.38910.48230.251
16210780_at20161estrogen receptor 2 (ER beta)ESR2TF:Yes741321.05540.46590.212
17210855_at20235growth regulation by estrogen in breast cancer 1GREB1TF:No2112881.14270.40380.216
18211117_x_at20482estrogen receptor 2 (ER beta)ESR2TF:Yes38851.19010.31260.208
19211118_x_at20483estrogen receptor 2 (ER beta)ESR2TF:Yes5543201.0150.31920.219
20211119_at20484estrogen receptor 2 (ER beta)ESR2TF:Yes4411713NA0.19790.202
21211120_x_at20485estrogen receptor 2 (ER beta)ESR2TF:Yes931571.13710.33140.204
22211233_x_at20592estrogen receptor 1ESR1TF:Yes4422171.10910.410.231
23211234_x_at20593estrogen receptor 1ESR1TF:Yes13894431.01820.40440.234
24211235_s_at20594estrogen receptor 1ESR1TF:Yes27646811.20.35020.21
25211627_x_at20953estrogen receptor 1ESR1TF:Yes1889331NA0.3130.24
26211829_s_at21146G protein-coupled estrogen receptor 1GPER1TF:No12684391.01730.25310.223
27215551_at24845estrogen receptor 1ESR1TF:Yes245150NA0.44770.21
28215552_s_at24846estrogen receptor 1ESR1TF:Yes411741.03480.35280.204
29217163_at26451estrogen receptor 1ESR1TF:Yes9743690.36360.26370.196
30217190_x_at26478estrogen receptor 1ESR1TF:Yes8464050.67120.39370.233
31219934_s_at29219sulfotransferase family 1E, estrogen-preferring, member 1SULT1E1TF:No129901.01040.34110.228
32220340_at29625growth regulation by estrogen in breast cancer-likeGREB1LTF:No56570.80230.4670.235
33222940_at32220sulfotransferase family 1E, estrogen-preferring, member 1SULT1E1TF:No3411541.21010.34450.252
34223116_at32395breast cancer anti-estrogen resistance 1BCAR1TF:No89701.04550.60120.224
35223858_at33135estrogen-related receptor betaESRRBTF:Yes17095751.13650.43150.228
36227058_at36314mesenteric estrogen-dependent adipogenesisMEDAGTF:No304921.21580.57430.251
37227758_at37013RAS-like, estrogen-regulated, growth inhibitorRERGTF:No10102541.03220.4710.286
38230854_at40109breast cancer anti-estrogen resistance 4 (non-protein coding)BCAR4TF:No3862901.46060.36230.255
39232442_at41697breast cancer anti-estrogen resistance 1BCAR1TF:No190226NA0.32230.221
40233977_at43228growth regulation by estrogen in breast cancer-likeGREB1LTF:No19199NA0.52110.205
41241475_at50725breast cancer estrogen-induced apoptosis 2BREA2TF:No39708541.27320.30920.219
42243907_at53157growth regulation by estrogen in breast cancer-likeGREB1LTF:No281050.87720.44960.241
43244745_at53996RAS-like, estrogen-regulated, growth inhibitorRERGTF:No84871.21150.30870.236
Gene Symbols:

Per sample keyword assignation (.txt.zip)

Rdata file of probes and basic information

Rdata file of genes whose X2min > 20 (or top 100)

Rdata file of TF whose X2min > 10 (or top 100)

Rdata file of all X2min estimations (simplified matrix in an R vector, needs R code for interpreting)

Rdata file from one of the 20 Global-Cell-State X2 estimations

R code to load the whole matrix and get the X2min values.     ### This code is for loading data from chi2

getIJ <- function(n, i, j) { #i=row, j=col, THIS FUNCTION IS ONLY DEFINED FOR I > J
        return ((j-1)*n+i-((j^2+j)/2))
}

getGeneChis <- function(i) {
        # the resulting vector will NOT include self-correlation (set to 0 in position i)

        l <- length(schi2)
        n <- (1+sqrt(1+4*1*2*l))/(2)
        x2 <- numeric(n)

        if (i < n) {
                from <- getIJ(n,(i+1),i)
                to <- getIJ(n,n,i)
                x2[(i+1):n] <- schi2[from:to] # quicker
        }
        if (i > 1) {
                k <- 1:(i-1)
                x2[k] <- chi2[getIJ(n,i,k)]
        }
        return (x2)
}

    ##This file is saved in integer format to save storage space.
    ##The value is stored as x2 * 100 (to include 2 decimals in the integer part).
    print(load(chi.datafile))
    x1 <- getGeneChis(1)
    x2 <- getGeneChis(200)
    hist(x1)
    hist(x2)
    #real x2min values needs to be divided by 100
    hist(x1 / 100)