Home
  • Networks
    • Small molecules

    • Cancer

    • Tissues

    • Cell lines
  • Analysis
    • Drug repurposing (CLUEreg)
    • Enrichment analysis
    • Upload your network
    • Network comparison
    • CCLE map
  • Help
    • GitHub
    • API
    • Changelog
    • Download
    • Contact
  • Changelog
    v0.1 cell line networks
    v0.2 aggregate tissue networks
    v0.3 TF enrichement tool
    v0.4 single-sample tissue networks
    v0.5 CLUEreg tool
    v0.6 colon cancer networks
    v0.7 drug networks
    v0.7.1 API v1
    v0.8 liver, cervix, and breast cancer networks
    v0.9 miRNA tissue networks
    v0.9.1 bootstrap 5
    v1.0 glioblastoma networks
    v1.0.1 drug combinations
    v1.1 Cell line networks
    v1.2 User upload network
    v1.2.1 Gene targeting table
    v1.2.2 DRAGON miRNA network
    v1.3 Network comparison
    v1.3.1 Guided tours
    v1.4.0 CCLE multi-omic map
    v1.5.0 EGRET networks

    Spleen networks

    Data sets 1 Networks Aggregate 3 Single-sample 118

    To get the full list of phenotypic variables, please check the menu below. Please click on the scatter plot to access the network view page.

    Tool description

    PANDA reconstructs a gene regulatory network using TF PPI, TF DNA binding motif as regulation prior, and gene expression samples. PUMA reconstructs a gene regulatory network with miRNA as regulators using gene expression samples and miRNA predicted targets by miRanda or TargetScan as regulation priors. The Regulator-regulator interaction matrix is set to the identity matrix in the algorithm. LIONESS reconstructs patient-specific PANDA networks for each gene expression sample. To download sample-specific networks, you can check the phenotypic information and select the networks by clinical variables or download all the samples in a single file.

    Publication
    Please check the reference Sonawane et al. (2017) at the following link.
    Publication
    Please check the reference Lopes-Ramos et al. (2020) at the following link.
    Publication
    Please check the reference Kuijjer et al. (2020) at the following link.
    Publication
    Please check the reference Kuijjer et al. (2020) at the following link.
    # Tissue Tool netZoo release Network
    PPI
    Regulation prior Expression
    Regulator
    nReg
    Genes Samples Precision
    Reference
    1 Spleen PANDA netZooM 0.1
    AdjCodeVis
    Motif TF 644 30243 118 D
    2 Spleen PANDA-LIONESS netZooM 0.1
    AdjCodeVis
    Motif TF 644 30243 118 D
    3 Spleen PUMA netZooM 0.3
    AdjCodeVis
    - miRanda miRNA 643 16161 118 D
    4 Spleen PUMA netZooM 0.3
    AdjCodeVis
    - TargetScan miRNA 643 16161 118 D

    Variable description

    You can either download all the networks to get a matrix of size the number of samples by the number of edges. The number of edges is 644 * 30243 (number of miRNA/TFs * number of genes) (~ 106). Otherwise, you can specify the sample network to download and you will get a miRNA/TF-by-gene matrix named after the GTEx sample reference.

    Sample Subject Gender
    Age DTH-HRDY
    SMAT-SSCR
    SMRIN
    SMTS
    SMUBRID
    Isch. time
    Time point
    Net.
    All All - - - - - - - - -
    Edg39 GB
    GTEX-111CU-0426-SM-5GZY1 GTEX-111CU 1 50-59 0 0 7.3 Spleen 2106 71 Actual Death
    Adj369 MBVis
    GTEX-111FC-1326-SM-5N9D9 GTEX-111FC 1 60-69 1 2 5.7 Spleen 2106 1100 Presumed Death
    Adj369 MBVis
    GTEX-1122O-0526-SM-5N9DM GTEX-1122O 2 60-69 0 0 7.8 Spleen 2106 1486 Actual Death
    Adj369 MBVis
    GTEX-117YX-2126-SM-5GIEL GTEX-117YX 1 50-59 0 1 6.5 Spleen 2106 120 Actual Death
    Adj369 MBVis
    GTEX-11DXX-0726-SM-5H12X GTEX-11DXX 2 60-69 0 0 5.8 Spleen 2106 95 Actual Death
    Adj369 MBVis
    GTEX-11EQ9-0426-SM-5A5JY GTEX-11EQ9 1 30-39 2 1 8.1 Spleen 2106 80 Actual Death
    Adj369 MBVis
    GTEX-11LCK-0126-SM-5A5M5 GTEX-11LCK 1 30-39 0 1 7.5 Spleen 2106 184 Actual Death
    Adj369 MBVis
    GTEX-11NSD-0426-SM-5N9CR GTEX-11NSD 1 20-29 0 1 6.5 Spleen 2106 85 Actual Death
    Adj369 MBVis
    GTEX-11P7K-0426-SM-5BC5H GTEX-11P7K 1 30-39 0 1 5.8 Spleen 2106 104 Actual Death
    Adj369 MBVis
    GTEX-11P81-1326-SM-5GU5S GTEX-11P81 2 30-39 0 1 7.1 Spleen 2106 278 Actual Death
    Adj369 MBVis
    GTEX-11VI4-0126-SM-5GU6Z GTEX-11VI4 2 40-49 0 1 7.2 Spleen 2106 102 Actual Death
    Adj369 MBVis
    GTEX-11XUK-0426-SM-5EQML GTEX-11XUK 2 40-49 0 1 6 Spleen 2106 104 Actual Death
    Adj369 MBVis
    GTEX-1211K-0426-SM-5FQTP GTEX-1211K 2 60-69 0 1 7.7 Spleen 2106 72 Actual Death
    Adj369 MBVis
    GTEX-12BJ1-0726-SM-5EGGF GTEX-12BJ1 1 60-69 0 1 6.3 Spleen 2106 114 Actual Death
    Adj369 MBVis
    GTEX-12WSD-1726-SM-5GCN4 GTEX-12WSD 2 60-69 2 2 6 Spleen 2106 532 Actual Death
    Adj369 MBVis
    GTEX-12WSG-0926-SM-5EGIH GTEX-12WSG 2 50-59 0 1 6.1 Spleen 2106 345 Actual Death
    Adj369 MBVis
    GTEX-12WSJ-0526-SM-5GCOZ GTEX-12WSJ 2 40-49 0 0 5.8 Spleen 2106 118 Actual Death
    Adj369 MBVis
    GTEX-12WSK-0126-SM-5GCO7 GTEX-12WSK 2 40-49 0 1 6.9 Spleen 2106 122 Actual Death
    Adj369 MBVis
    GTEX-12WSN-0126-SM-5DUX5 GTEX-12WSN 1 40-49 0 0 6.8 Spleen 2106 148 Actual Death
    Adj369 MBVis
    GTEX-13111-0126-SM-5EGHO GTEX-13111 1 50-59 0 1 7.2 Spleen 2106 266 Actual Death
    Adj369 MBVis
    GTEX-131XE-1126-SM-5EGHW GTEX-131XE 1 50-59 0 1 7.8 Spleen 2106 203 Actual Death
    Adj369 MBVis
    GTEX-131XG-0426-SM-5IFGD GTEX-131XG 2 50-59 0 1 7 Spleen 2106 102 Actual Death
    Adj369 MBVis
    GTEX-132QS-0226-SM-5IFFZ GTEX-132QS 1 60-69 0 1 6.3 Spleen 2106 1535 Actual Death
    Adj369 MBVis
    GTEX-1399R-0226-SM-5IJGG GTEX-1399R 1 30-39 0 1 7.3 Spleen 2106 84 Actual Death
    Adj369 MBVis
    GTEX-1399S-0226-SM-5IFFG GTEX-1399S 2 30-39 0 1 7.1 Spleen 2106 62 Actual Death
    Adj369 MBVis
    GTEX-139T6-0226-SM-5IFGZ GTEX-139T6 1 50-59 0 1 7.3 Spleen 2106 135 Actual Death
    Adj369 MBVis
    GTEX-139YR-0426-SM-5IFFV GTEX-139YR 1 50-59 0 1 7.8 Spleen 2106 163 Actual Death
    Adj369 MBVis
    GTEX-13CF3-0226-SM-5J1NW GTEX-13CF3 2 60-69 0 1 6.5 Spleen 2106 113 Actual Death
    Adj369 MBVis
    GTEX-13FH7-1326-SM-5IFG8 GTEX-13FH7 2 50-59 0 1 8.1 Spleen 2106 136 Actual Death
    Adj369 MBVis
    GTEX-13N11-0126-SM-5KM2Z GTEX-13N11 2 50-59 0 0 6.9 Spleen 2106 153 Actual Death
    Adj369 MBVis
    GTEX-13PL7-1126-SM-5MR5O GTEX-13PL7 2 60-69 0 1 7.3 Spleen 2106 159 Actual Death
    Adj369 MBVis
    GTEX-13PVR-0326-SM-5RQJY GTEX-13PVR 2 60-69 0 1 7.7 Spleen 2106 110 Actual Death
    Adj369 MBVis
    GTEX-13S86-0126-SM-5S2PI GTEX-13S86 1 40-49 0 1 6.9 Spleen 2106 132 Actual Death
    Adj369 MBVis
    GTEX-13U4I-1626-SM-5IFFR GTEX-13U4I 2 40-49 0 1 7.7 Spleen 2106 441 Actual Death
    Adj369 MBVis
    GTEX-13VXT-1326-SM-5LU3Y GTEX-13VXT 2 20-29 0 2 6.4 Spleen 2106 518 Actual Death
    Adj369 MBVis
    GTEX-13X6H-0726-SM-5Q5BX GTEX-13X6H 2 50-59 0 2 7.4 Spleen 2106 196 Actual Death
    Adj369 MBVis
    GTEX-144GN-2126-SM-5O99D GTEX-144GN 1 50-59 0 1 6.7 Spleen 2106 171 Actual Death
    Adj369 MBVis
    GTEX-145MN-0126-SM-5RQHY GTEX-145MN 1 30-39 0 1 7.6 Spleen 2106 105 Actual Death
    Adj369 MBVis
    GTEX-146FQ-0626-SM-5LU9U GTEX-146FQ 1 30-39 0 1 5.8 Spleen 2106 501 Actual Death
    Adj369 MBVis
    GTEX-146FR-1926-SM-5NQA6 GTEX-146FR 2 60-69 0 1 7.5 Spleen 2106 1645 Actual Death
    Adj369 MBVis
    GTEX-147F3-0126-SM-5NQBJ GTEX-147F3 2 50-59 0 1 6.9 Spleen 2106 72 Actual Death
    Adj369 MBVis
    GTEX-14DAR-0326-SM-5S2PS GTEX-14DAR 1 50-59 0 1 7.1 Spleen 2106 112 Actual Death
    Adj369 MBVis
    GTEX-14E6E-1226-SM-5S2R5 GTEX-14E6E 1 30-39 0 1 6.8 Spleen 2106 145 Actual Death
    Adj369 MBVis
    GTEX-NPJ8-0626-SM-48TBO GTEX-NPJ8 1 40-49 4 1 8.2 Spleen 2106 331 Presumed Death
    Adj369 MBVis
    GTEX-O5YT-0926-SM-48TDG GTEX-O5YT 1 20-29 0 0 7 Spleen 2106 118 Actual Death
    Adj369 MBVis
    GTEX-OIZH-0926-SM-48TBR GTEX-OIZH 1 50-59 0 2 6.1 Spleen 2106 133 Actual Death
    Adj369 MBVis
    GTEX-OOBJ-0926-SM-48TDO GTEX-OOBJ 1 60-69 0 2 7.5 Spleen 2106 133 Actual Death
    Adj369 MBVis
    GTEX-P4PP-0926-SM-48TBZ GTEX-P4PP 2 30-39 0 2 8 Spleen 2106 66 Actual Death
    Adj369 MBVis
    GTEX-P4QS-0926-SM-48TBS GTEX-P4QS 1 60-69 0 1 6.7 Spleen 2106 69 Actual Death
    Adj369 MBVis
    GTEX-PLZ6-0126-SM-48TC6 GTEX-PLZ6 1 30-39 0 1 7.9 Spleen 2106 75 Actual Death
    Adj369 MBVis
    GTEX-POMQ-0126-SM-48TD6 GTEX-POMQ 2 20-29 0 1 7.3 Spleen 2106 162 Actual Death
    Adj369 MBVis
    GTEX-PW2O-0126-SM-48TC8 GTEX-PW2O 1 20-29 0 2 7.8 Spleen 2106 115 Actual Death
    Adj369 MBVis
    GTEX-PX3G-0926-SM-48U12 GTEX-PX3G 2 20-29 0 1 7.8 Spleen 2106 105 Actual Death
    Adj369 MBVis
    GTEX-Q2AH-0226-SM-48U1I GTEX-Q2AH 1 40-49 0 1 6.5 Spleen 2106 78 Actual Death
    Adj369 MBVis
    GTEX-Q734-0226-SM-48U1A GTEX-Q734 2 40-49 0 2 7.8 Spleen 2106 43 Actual Death
    Adj369 MBVis
    GTEX-QCQG-0226-SM-48U28 GTEX-QCQG 2 50-59 0 1 6.6 Spleen 2106 152 Actual Death
    Adj369 MBVis
    GTEX-QDVN-0526-SM-48TZ4 GTEX-QDVN 1 50-59 0 1 7.7 Spleen 2106 135 Actual Death
    Adj369 MBVis
    GTEX-QLQW-0126-SM-447BK GTEX-QLQW 1 30-39 0 1 6.2 Spleen 2106 77 Actual Death
    Adj369 MBVis
    GTEX-QMRM-0226-SM-4R1K7 GTEX-QMRM 1 50-59 0 1 7.2 Spleen 2106 90 Actual Death
    Adj369 MBVis
    GTEX-QV31-0126-SM-447BP GTEX-QV31 1 30-39 0 2 6.5 Spleen 2106 153 Actual Death
    Adj369 MBVis
    GTEX-QV44-0126-SM-4R1KH GTEX-QV44 1 50-59 0 1 7.4 Spleen 2106 75 Actual Death
    Adj369 MBVis
    GTEX-R55G-0226-SM-48FEI GTEX-R55G 2 40-49 0 1 7.7 Spleen 2106 75 Actual Death
    Adj369 MBVis
    GTEX-RUSQ-0126-SM-47JWV GTEX-RUSQ 1 50-59 0 1 6 Spleen 2106 167 Actual Death
    Adj369 MBVis
    GTEX-S3XE-0626-SM-4AD6B GTEX-S3XE 1 50-59 0 1 6.2 Spleen 2106 100 Actual Death
    Adj369 MBVis
    GTEX-S4Q7-0126-SM-4AD5P GTEX-S4Q7 1 20-29 0 1 3.1 Spleen 2106 93 Actual Death
    Adj369 MBVis
    GTEX-S4Z8-0226-SM-4AD5K GTEX-S4Z8 1 60-69 0 1 7.4 Spleen 2106 104 Actual Death
    Adj369 MBVis
    GTEX-T5JW-0126-SM-4DM6K GTEX-T5JW 2 20-29 0 1 7.3 Spleen 2106 130 Actual Death
    Adj369 MBVis
    GTEX-U3ZH-0126-SM-4DXUK GTEX-U3ZH 1 30-39 0 1 6.2 Spleen 2106 181 Actual Death
    Adj369 MBVis
    GTEX-U3ZN-0126-SM-4DXUM GTEX-U3ZN 2 30-39 0 1 6.8 Spleen 2106 110 Actual Death
    Adj369 MBVis
    GTEX-U4B1-0526-SM-4DXTK GTEX-U4B1 1 40-49 0 1 6.5 Spleen 2106 125 Actual Death
    Adj369 MBVis
    GTEX-UJHI-0126-SM-4IHLP GTEX-UJHI 2 50-59 0 1 8.1 Spleen 2106 141 Actual Death
    Adj369 MBVis
    GTEX-UPK5-1626-SM-4JBHI GTEX-UPK5 1 40-49 0 1 7.1 Spleen 2106 1005 Actual Death
    Adj369 MBVis
    GTEX-VJYA-0126-SM-4KL1P GTEX-VJYA 1 60-69 0 1 7.5 Spleen 2106 205 Actual Death
    Adj369 MBVis
    GTEX-W5WG-0626-SM-4SOID GTEX-W5WG 2 50-59 0 1 8 Spleen 2106 210 Actual Death
    Adj369 MBVis
    GTEX-WFON-0126-SM-4LVM9 GTEX-WFON 1 40-49 0 1 5.8 Spleen 2106 137 Actual Death
    Adj369 MBVis
    GTEX-WHWD-0126-SM-4OORS GTEX-WHWD 1 50-59 0 1 7.5 Spleen 2106 220 Actual Death
    Adj369 MBVis
    GTEX-WXYG-0126-SM-4OND7 GTEX-WXYG 2 50-59 0 1 6.9 Spleen 2106 118 Actual Death
    Adj369 MBVis
    GTEX-WY7C-0126-SM-4ONCO GTEX-WY7C 1 50-59 0 1 6.1 Spleen 2106 161 Actual Death
    Adj369 MBVis
    GTEX-WYJK-0726-SM-4ONC9 GTEX-WYJK 1 50-59 0 1 6.9 Spleen 2106 754 Actual Death
    Adj369 MBVis
    GTEX-WYVS-0126-SM-4ONDH GTEX-WYVS 2 40-49 0 1 9.7 Spleen 2106 230 Actual Death
    Adj369 MBVis
    GTEX-X3Y1-0126-SM-4PQZA GTEX-X3Y1 1 40-49 0 1 6.4 Spleen 2106 156 Actual Death
    Adj369 MBVis
    GTEX-X4LF-0226-SM-4QAS8 GTEX-X4LF 1 50-59 0 1 6 Spleen 2106 80 Actual Death
    Adj369 MBVis
    GTEX-X585-1826-SM-4QAS3 GTEX-X585 1 50-59 4 2 5.7 Spleen 2106 834 Actual Death
    Adj369 MBVis
    GTEX-XAJ8-0126-SM-47JYG GTEX-XAJ8 1 40-49 0 1 8.1 Spleen 2106 118 Actual Death
    Adj369 MBVis
    GTEX-XGQ4-0126-SM-4AT4H GTEX-XGQ4 1 50-59 0 1 6.4 Spleen 2106 137 Actual Death
    Adj369 MBVis
    GTEX-XMK1-0126-SM-4B65F GTEX-XMK1 1 40-49 0 1 7.2 Spleen 2106 137 Actual Death
    Adj369 MBVis
    GTEX-XPVG-0626-SM-4B65B GTEX-XPVG 1 50-59 0 1 8.8 Spleen 2106 88 Actual Death
    Adj369 MBVis
    GTEX-XQ8I-1726-SM-4BOQB GTEX-XQ8I 1 50-59 0 1 6 Spleen 2106 488 Actual Death
    Adj369 MBVis
    GTEX-XUJ4-0226-SM-4BOP8 GTEX-XUJ4 2 60-69 0 1 7.2 Spleen 2106 87 Actual Death
    Adj369 MBVis
    GTEX-XV7Q-0126-SM-4BRVK GTEX-XV7Q 2 40-49 0 2 8.6 Spleen 2106 51 Actual Death
    Adj369 MBVis
    GTEX-XXEK-0126-SM-4BRVU GTEX-XXEK 1 50-59 0 1 7.2 Spleen 2106 128 Actual Death
    Adj369 MBVis
    GTEX-Y114-0726-SM-4TT6U GTEX-Y114 2 50-59 0 1 8.3 Spleen 2106 103 Actual Death
    Adj369 MBVis
    GTEX-Y3I4-0126-SM-4TT26 GTEX-Y3I4 1 50-59 0 1 6.9 Spleen 2106 103 Actual Death
    Adj369 MBVis
    GTEX-Y3IK-0126-SM-4WWE9 GTEX-Y3IK 2 50-59 0 2 8.4 Spleen 2106 74 Actual Death
    Adj369 MBVis
    GTEX-Y5LM-0326-SM-4VBRN GTEX-Y5LM 2 40-49 0 1 8.8 Spleen 2106 80 Actual Death
    Adj369 MBVis
    GTEX-Y8LW-0126-SM-4VBS1 GTEX-Y8LW 2 50-59 0 2 7.2 Spleen 2106 207 Actual Death
    Adj369 MBVis
    GTEX-YB5E-0426-SM-5IFHR GTEX-YB5E 1 40-49 0 1 7.6 Spleen 2106 165 Actual Death
    Adj369 MBVis
    GTEX-YB5K-1926-SM-4VDT4 GTEX-YB5K 2 40-49 0 2 7.1 Spleen 2106 267 Actual Death
    Adj369 MBVis
    GTEX-YEC4-0126-SM-4W21T GTEX-YEC4 1 40-49 0 1 6.6 Spleen 2106 170 Actual Death
    Adj369 MBVis
    GTEX-YFCO-0926-SM-5LUA5 GTEX-YFCO 1 40-49 0 1 6.9 Spleen 2106 130 Actual Death
    Adj369 MBVis
    GTEX-Z9EW-0726-SM-5HL9H GTEX-Z9EW 1 40-49 0 1 6.1 Spleen 2106 212 Actual Death
    Adj369 MBVis
    GTEX-ZAB5-0526-SM-5CVMU GTEX-ZAB5 1 50-59 0 0 7.4 Spleen 2106 177 Actual Death
    Adj369 MBVis
    GTEX-ZDTT-1026-SM-5KM19 GTEX-ZDTT 1 60-69 0 0 5.9 Spleen 2106 108 Actual Death
    Adj369 MBVis
    GTEX-ZDYS-1026-SM-4WKHC GTEX-ZDYS 1 50-59 0 0 6.7 Spleen 2106 175 Actual Death
    Adj369 MBVis
    GTEX-ZEX8-0726-SM-4WKH8 GTEX-ZEX8 1 50-59 0 1 7.8 Spleen 2106 82 Actual Death
    Adj369 MBVis
    GTEX-ZF29-0626-SM-4WKHD GTEX-ZF29 2 60-69 0 0 8.3 Spleen 2106 101 Actual Death
    Adj369 MBVis
    GTEX-ZF2S-0326-SM-4WKGD GTEX-ZF2S 2 50-59 0 1 8.3 Spleen 2106 98 Actual Death
    Adj369 MBVis
    GTEX-ZLFU-0526-SM-4WWBN GTEX-ZLFU 1 40-49 0 1 6.8 Spleen 2106 105 Actual Death
    Adj369 MBVis
    GTEX-ZLWG-0426-SM-4WWFA GTEX-ZLWG 2 50-59 0 0 8 Spleen 2106 85 Actual Death
    Adj369 MBVis
    GTEX-ZP4G-0326-SM-4YCEF GTEX-ZP4G 2 20-29 0 1 7.8 Spleen 2106 169 Actual Death
    Adj369 MBVis
    GTEX-ZPU1-1026-SM-4YCEQ GTEX-ZPU1 1 40-49 0 0 7.2 Spleen 2106 106 Actual Death
    Adj369 MBVis
    GTEX-ZTTD-1726-SM-57WEL GTEX-ZTTD 1 50-59 3 2 6 Spleen 2106 356 Actual Death
    Adj369 MBVis
    GTEX-ZV6S-0826-SM-5NQ6Z GTEX-ZV6S 2 40-49 0 1 5.7 Spleen 2106 357 Actual Death
    Adj369 MBVis
    GTEX-ZVP2-0526-SM-51MSC GTEX-ZVP2 1 50-59 0 0 6 Spleen 2106 136 Actual Death
    Adj369 MBVis
    GTEX-ZVZP-0726-SM-59HKA GTEX-ZVZP 1 50-59 0 2 7 Spleen 2106 82 Actual Death
    Adj369 MBVis
    GTEX-ZYFG-0726-SM-5GIDX GTEX-ZYFG 2 60-69 0 1 6.5 Spleen 2106 68 Actual Death
    Adj369 MBVis
    GTEX-ZYWO-0226-SM-5GZX3 GTEX-ZYWO 2 40-49 0 0 6.9 Spleen 2106 62 Actual Death
    Adj369 MBVis
    GTEX-ZZPU-0126-SM-5E446 GTEX-ZZPU 2 50-59 0 1 6.2 Spleen 2106 185 Actual Death
    Adj369 MBVis
    Sample Subject Gender Age DTH-HRDY SMAT-SSCR SMRIN SMTS SMUBRID SMTSISCH SMTSTPTREF Network
    Contact

    Department of Biostatistics
    Harvard T.H. Chan School of Public Health

    License
    Share