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    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

    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. Check the phenotypic information for the clinical variables of the samples that were used to reconstruct the network.

    Publication
    Please check the reference Sonawane et al. (2017) 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
    		 Reg. prior Expr.
    		 Reg.
    		 nReg
    		 Genes Samples Precision
    		 Reference
    1 Uterus PANDA netZooM 0.1
    coR
    		 Motif TF 644 30243 90 D
    2 Uterus PUMA netZooM 0.3
    coR
    		 - miRanda miRNA 643 16161 90 D
    3 Uterus PUMA netZooM 0.3
    coR
    		 - TargetScan miRNA 643 16161 90 D

    Variable description

    This is a description of the primary clinical variables of the gene expression samples that were used to generate the gene regulatory network.

    Sample Subject Gender
    		Age DTH-HRDY
    		 SMAT-SSCR
    		 SMRIN
    		 SMTS
    		 SMTSD
    		 SMUBRID
    		 SMTSISCH
    GTEX-1117F-2426-SM-5EGGH GTEX-1117F 2 60-69 4 1 6.3 Uterus Uterus 995 1332
    GTEX-113JC-2226-SM-5EGJG GTEX-113JC 2 50-59 2 1 6.3 Uterus Uterus 995 676
    GTEX-11DXX-1526-SM-5H115 GTEX-11DXX 2 60-69 0 1 7.7 Uterus Uterus 995 118
    GTEX-11EM3-1926-SM-5987U GTEX-11EM3 2 20-29 0 0 8.2 Uterus Uterus 995 203
    GTEX-11EMC-1826-SM-5A5JT GTEX-11EMC 2 60-69 2 1 6.6 Uterus Uterus 995 732
    GTEX-11GSP-2426-SM-5N9BD GTEX-11GSP 2 60-69 2 2 6.5 Uterus Uterus 995 802
    GTEX-11I78-2126-SM-5A5K8 GTEX-11I78 2 50-59 0 1 8.3 Uterus Uterus 995 145
    GTEX-11P81-1626-SM-5BC52 GTEX-11P81 2 30-39 0 0 8.3 Uterus Uterus 995 289
    GTEX-11ZTS-2326-SM-5EQMY GTEX-11ZTS 2 60-69 2 2 5.8 Uterus Uterus 995 701
    GTEX-11ZTT-1726-SM-5EQL4 GTEX-11ZTT 2 60-69 0 1 7.9 Uterus Uterus 995 204
    GTEX-12WSD-2826-SM-59HKT GTEX-12WSD 2 60-69 2 1 7 Uterus Uterus 995 553
    GTEX-12WSG-2126-SM-5EGJ7 GTEX-12WSG 2 50-59 0 0 7.7 Uterus Uterus 995 382
    GTEX-12WSK-2026-SM-5CVNB GTEX-12WSK 2 40-49 0 1 6.5 Uterus Uterus 995 194
    GTEX-12ZZX-2126-SM-5LZVL GTEX-12ZZX 2 40-49 1 1 6.4 Uterus Uterus 995 683
    GTEX-1313W-2826-SM-5P9G1 GTEX-1313W 2 50-59 2 1 6.4 Uterus Uterus 995 731
    GTEX-131XG-2026-SM-5GCN5 GTEX-131XG 2 50-59 0 1 8.9 Uterus Uterus 995 152
    GTEX-131YS-2326-SM-5IJFJ GTEX-131YS 2 60-69 2 1 5.8 Uterus Uterus 995 1009
    GTEX-132AR-1526-SM-5KM1L GTEX-132AR 2 50-59 0 0 7 Uterus Uterus 995 107
    GTEX-1399S-2226-SM-5IFEW GTEX-1399S 2 30-39 0 1 8.4 Uterus Uterus 995 144
    GTEX-1399U-1326-SM-5IJET GTEX-1399U 2 50-59 0 1 6.2 Uterus Uterus 995 203
    GTEX-139D8-2526-SM-5N9G3 GTEX-139D8 2 30-39 0 1 5.7 Uterus Uterus 995 468
    GTEX-13D11-1226-SM-5IFGA GTEX-13D11 2 50-59 0 1 8 Uterus Uterus 995 122
    GTEX-13FTX-1026-SM-5J2O5 GTEX-13FTX 2 20-29 0 0 7.5 Uterus Uterus 995 177
    GTEX-13N11-1126-SM-5KM41 GTEX-13N11 2 50-59 0 0 7.6 Uterus Uterus 995 172
    GTEX-13OVI-1026-SM-5L3EM GTEX-13OVI 2 60-69 0 1 8.4 Uterus Uterus 995 173
    GTEX-13OVJ-2326-SM-5IJGA GTEX-13OVJ 2 50-59 2 1 6.5 Uterus Uterus 995 1165
    GTEX-13PL7-2026-SM-5IFGK GTEX-13PL7 2 60-69 0 1 7.8 Uterus Uterus 995 172
    GTEX-13QBU-1626-SM-5LU4S GTEX-13QBU 2 40-49 0 1 7.5 Uterus Uterus 995 217
    GTEX-13S7M-1726-SM-5RQK3 GTEX-13S7M 2 60-69 2 1 5.9 Uterus Uterus 995 614
    GTEX-13U4I-1926-SM-5LU39 GTEX-13U4I 2 40-49 0 1 6.8 Uterus Uterus 995 450
    GTEX-13VXT-1626-SM-5IJES GTEX-13VXT 2 20-29 0 1 6.5 Uterus Uterus 995 538
    GTEX-13W3W-1426-SM-5LU56 GTEX-13W3W 2 60-69 0 1 7.9 Uterus Uterus 995 232
    GTEX-145ME-1326-SM-5O98Q GTEX-145ME 2 40-49 0 1 8.5 Uterus Uterus 995 299
    GTEX-14BIM-2226-SM-5SI8Y GTEX-14BIM 2 60-69 3 1 6.9 Uterus Uterus 995 1273
    GTEX-14BMU-1826-SM-5RQII GTEX-14BMU 2 20-29 0 1 8.7 Uterus Uterus 995 1587
    GTEX-N7MT-0726-SM-3TW8S GTEX-N7MT 2 60-69 4 0 5.5 Uterus Uterus 995 512
    GTEX-OHPK-2026-SM-3MJH7 GTEX-OHPK 2 50-59 0 1 6.6 Uterus Uterus 995 321
    GTEX-OHPL-2026-SM-3TW8R GTEX-OHPL 2 60-69 0 1 7.6 Uterus Uterus 995 154
    GTEX-P4PP-2026-SM-3P61N GTEX-P4PP 2 30-39 0 1 8.1 Uterus Uterus 995 151
    GTEX-P4QT-2026-SM-3NMCJ GTEX-P4QT 2 50-59 0 1 7.8 Uterus Uterus 995 175
    GTEX-P78B-2526-SM-3P5ZY GTEX-P78B 2 40-49 1 8 Uterus Uterus 995 615
    GTEX-POMQ-1226-SM-3P61F GTEX-POMQ 2 20-29 0 1 8.4 Uterus Uterus 995 265
    GTEX-PWCY-1426-SM-48TCT GTEX-PWCY 2 20-29 0 0 6.7 Uterus Uterus 995 255
    GTEX-PWN1-2026-SM-48TD9 GTEX-PWN1 2 40-49 0 1 8.3 Uterus Uterus 995 162
    GTEX-PWOO-1526-SM-48TCK GTEX-PWOO 2 40-49 0 1 8.1 Uterus Uterus 995 214
    GTEX-PX3G-2026-SM-48U1H GTEX-PX3G 2 20-29 0 1 8.3 Uterus Uterus 995 199
    GTEX-Q734-1626-SM-48U1B GTEX-Q734 2 40-49 0 1 7.1 Uterus Uterus 995 117
    GTEX-QCQG-1326-SM-48U24 GTEX-QCQG 2 50-59 0 1 8 Uterus Uterus 995 234
    GTEX-R55G-1626-SM-48FF4 GTEX-R55G 2 40-49 0 1 8.8 Uterus Uterus 995 147
    GTEX-RTLS-2426-SM-46MUO GTEX-RTLS 2 60-69 4 1 7.1 Uterus Uterus 995 693
    GTEX-RU1J-1026-SM-46MUR GTEX-RU1J 2 20-29 0 1 8.7 Uterus Uterus 995 243
    GTEX-RU72-2626-SM-4GIE1 GTEX-RU72 2 50-59 2 2 6.7 Uterus Uterus 995 530
    GTEX-RU72-2626-SM-4TT75 GTEX-RU72 2 50-59 2 2 6.7 Uterus Uterus 995 530
    GTEX-RWS6-1326-SM-47JXB GTEX-RWS6 2 60-69 0 1 7.5 Uterus Uterus 995 197
    GTEX-S32W-1426-SM-4AD66 GTEX-S32W 2 50-59 0 1 7.3 Uterus Uterus 995 331
    GTEX-S341-1026-SM-4AD71 GTEX-S341 2 40-49 0 1 7.1 Uterus Uterus 995 190
    GTEX-S4UY-1226-SM-4AD51 GTEX-S4UY 2 40-49 0 1 8 Uterus Uterus 995 427
    GTEX-S7SF-0826-SM-4AD4W GTEX-S7SF 2 20-29 0 0 7.9 Uterus Uterus 995 298
    GTEX-T2IS-2226-SM-4DM65 GTEX-T2IS 2 20-29 1 2 8.4 Uterus Uterus 995 1214
    GTEX-T5JW-1526-SM-4DM5E GTEX-T5JW 2 20-29 0 1 8.1 Uterus Uterus 995 235
    GTEX-T6MO-1526-SM-4DM57 GTEX-T6MO 2 40-49 0 1 8.1 Uterus Uterus 995 162
    GTEX-TMMY-2226-SM-4DXTN GTEX-TMMY 2 40-49 0 1 7.5 Uterus Uterus 995 456
    GTEX-TSE9-2626-SM-4DXV2 GTEX-TSE9 2 60-69 0 1 5.8 Uterus Uterus 995 1202
    GTEX-U3ZN-0726-SM-4DXT5 GTEX-U3ZN 2 30-39 0 1 8.8 Uterus Uterus 995 123
    GTEX-UPIC-1526-SM-4IHLU GTEX-UPIC 2 20-29 0 1 7.6 Uterus Uterus 995 245
    GTEX-W5WG-1326-SM-4LMI9 GTEX-W5WG 2 50-59 0 1 7 Uterus Uterus 995 244
    GTEX-WEY5-0726-SM-4LMID GTEX-WEY5 2 40-49 0 1 8.4 Uterus Uterus 995 221
    GTEX-WI4N-2426-SM-4OOSC GTEX-WI4N 2 40-49 0 2 6.7 Uterus Uterus 995 782
    GTEX-WWYW-2826-SM-4MVOQ GTEX-WWYW 2 50-59 3 2 6.1 Uterus Uterus 995 853
    GTEX-WXYG-1326-SM-4ONCN GTEX-WXYG 2 50-59 0 1 7.4 Uterus Uterus 995 172
    GTEX-WYVS-1226-SM-4ONCL GTEX-WYVS 2 40-49 0 1 8.2 Uterus Uterus 995 268
    GTEX-XUJ4-1526-SM-4BONU GTEX-XUJ4 2 60-69 0 1 8.6 Uterus Uterus 995 136
    GTEX-XUW1-0226-SM-4BOOS GTEX-XUW1 2 50-59 0 0 8.8 Uterus Uterus 995 284
    GTEX-XUZC-0926-SM-4BOQF GTEX-XUZC 2 30-39 0 1 8.5 Uterus Uterus 995 120
    GTEX-XV7Q-1526-SM-4BRWB GTEX-XV7Q 2 40-49 0 1 7.2 Uterus Uterus 995 102
    GTEX-XYKS-1626-SM-4BRUQ GTEX-XYKS 2 60-69 0 1 8.2 Uterus Uterus 995 208
    GTEX-Y114-1826-SM-4TT87 GTEX-Y114 2 50-59 0 1 8.9 Uterus Uterus 995 182
    GTEX-Y3IK-2126-SM-4YCDS GTEX-Y3IK 2 50-59 0 1 8 Uterus Uterus 995 127
    GTEX-YFC4-2826-SM-5P9FR GTEX-YFC4 2 40-49 1 1 5.9 Uterus Uterus 995 839
    GTEX-YJ8O-1126-SM-5P9IS GTEX-YJ8O 2 40-49 1 1 7.4 Uterus Uterus 995 733
    GTEX-ZAJG-2826-SM-5HL8D GTEX-ZAJG 2 50-59 3 2 5.9 Uterus Uterus 995 850
    GTEX-ZAK1-2526-SM-5S2N7 GTEX-ZAK1 2 50-59 2 1 6.7 Uterus Uterus 995 821
    GTEX-ZLWG-1026-SM-4WWC4 GTEX-ZLWG 2 50-59 0 0 7.7 Uterus Uterus 995 106
    GTEX-ZP4G-0726-SM-4WWF2 GTEX-ZP4G 2 20-29 0 1 8.9 Uterus Uterus 995 190
    GTEX-ZTPG-2026-SM-5O999 GTEX-ZTPG 2 20-29 0 1 8.1 Uterus Uterus 995 274
    GTEX-ZV6S-1526-SM-5NQ7O GTEX-ZV6S 2 40-49 0 1 5.8 Uterus Uterus 995 393
    GTEX-ZVT2-0426-SM-5E44S GTEX-ZVT2 2 50-59 0 1 7.9 Uterus Uterus 995 91
    GTEX-ZXES-0726-SM-5E451 GTEX-ZXES 2 30-39 0 0 8.1 Uterus Uterus 995 96
    GTEX-ZYVF-0526-SM-5E43E GTEX-ZYVF 2 50-59 0 1 5.9 Uterus Uterus 995 623
    GTEX-ZYWO-2126-SM-5GZXF GTEX-ZYWO 2 40-49 0 0 8.4 Uterus Uterus 995 161
    Contact

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

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