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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.
| # | Tissue | Tool | netZoo release | Network |
PPI |
Regulation prior | Expression |
Regulator |
nReg |
Genes | Samples | Precision |
Reference |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | Minor salivary gland | PANDA | netZooM 0.1 | Motif | TF | 644 | 30243 | 70 | D | ||||
| 2 | Minor salivary gland | PUMA | netZooM 0.3 | - | miRanda | miRNA | 643 | 16161 | 70 | D | |||
| 3 | Minor salivary gland | PUMA | netZooM 0.3 | - | TargetScan | miRNA | 643 | 16161 | 70 | D |
Variable description
PANDA-LIONESS networks are single-sample networks generated by first estimating an aggregate PANDA network then deriving patient-specific LIONESS networks. 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 |
SMUBRID |
Isch. time |
Time point |
|---|---|---|---|---|---|---|---|---|---|---|
| GTEX-1117F-3026-SM-5GZYU | GTEX-1117F | 2 | 60-69 | 4 | 1 | 8.3 | Salivary Gland | 6330 | 1343 | Actual Death |
| GTEX-111FC-2926-SM-5GZY7 | GTEX-111FC | 1 | 60-69 | 1 | 1 | 8.1 | Salivary Gland | 6330 | 1143 | Presumed Death |
| GTEX-1192X-2926-SM-5N9BA | GTEX-1192X | 1 | 50-59 | 4 | 1 | 8 | Salivary Gland | 6330 | 958 | Actual Death |
| GTEX-11EMC-2526-SM-5PNVU | GTEX-11EMC | 2 | 60-69 | 2 | 1 | 9.1 | Salivary Gland | 6330 | 746 | Actual Death |
| GTEX-11EQ9-2026-SM-5P9JI | GTEX-11EQ9 | 1 | 30-39 | 2 | 1 | 8 | Salivary Gland | 6330 | 141 | Actual Death |
| GTEX-11NV4-1926-SM-5N9D4 | GTEX-11NV4 | 1 | 60-69 | 2 | 1 | 8.2 | Salivary Gland | 6330 | 1191 | Presumed Death |
| GTEX-11P81-2026-SM-5P9GT | GTEX-11P81 | 2 | 30-39 | 0 | 1 | 8.2 | Salivary Gland | 6330 | 315 | Actual Death |
| GTEX-11P82-0926-SM-5986X | GTEX-11P82 | 1 | 20-29 | 1 | 0 | 9.2 | Salivary Gland | 6330 | 164 | Actual Death |
| GTEX-11TUW-2426-SM-5EQKB | GTEX-11TUW | 1 | 60-69 | 2 | 1 | 8.1 | Salivary Gland | 6330 | 794 | Actual Death |
| GTEX-11WQK-2926-SM-5EQKT | GTEX-11WQK | 1 | 50-59 | 2 | 1 | 8.7 | Salivary Gland | 6330 | 817 | Actual Death |
| GTEX-11ZTS-3026-SM-5EQM7 | GTEX-11ZTS | 2 | 60-69 | 2 | 1 | 8.5 | Salivary Gland | 6330 | 719 | Actual Death |
| GTEX-11ZTT-2226-SM-5CVLP | GTEX-11ZTT | 2 | 60-69 | 0 | 0 | 7.3 | Salivary Gland | 6330 | 234 | Actual Death |
| GTEX-12BJ1-2226-SM-5BC6G | GTEX-12BJ1 | 1 | 60-69 | 0 | 1 | 9.4 | Salivary Gland | 6330 | 182 | Actual Death |
| GTEX-12WSL-2126-SM-5GCNG | GTEX-12WSL | 1 | 50-59 | 0 | 0 | 8.2 | Salivary Gland | 6330 | 329 | Actual Death |
| GTEX-12WSM-1826-SM-5BC64 | GTEX-12WSM | 1 | 60-69 | 2 | 1 | 7.2 | Salivary Gland | 6330 | 1019 | Actual Death |
| GTEX-12WSN-2226-SM-5DUXT | GTEX-12WSN | 1 | 40-49 | 0 | 1 | 6.7 | Salivary Gland | 6330 | 265 | Actual Death |
| GTEX-13111-2326-SM-5LZUQ | GTEX-13111 | 1 | 50-59 | 0 | 1 | 8.1 | Salivary Gland | 6330 | 344 | Actual Death |
| GTEX-13113-1526-SM-5EGHV | GTEX-13113 | 2 | 60-69 | 0 | 1 | 8.6 | Salivary Gland | 6330 | 270 | Actual Death |
| GTEX-1314G-2026-SM-5LZUM | GTEX-1314G | 1 | 30-39 | 0 | 0 | 8 | Salivary Gland | 6330 | 526 | Actual Death |
| GTEX-131XF-2826-SM-5EGKH | GTEX-131XF | 1 | 60-69 | 0 | 0 | 7.5 | Salivary Gland | 6330 | 418 | Actual Death |
| GTEX-131XH-2626-SM-5GCNP | GTEX-131XH | 1 | 50-59 | 2 | 1 | 7.8 | Salivary Gland | 6330 | 1256 | Actual Death |
| GTEX-1339X-2326-SM-5HL5B | GTEX-1339X | 1 | 40-49 | 0 | 0 | 8.1 | Salivary Gland | 6330 | 197 | Actual Death |
| GTEX-13CF2-2426-SM-5LZYL | GTEX-13CF2 | 1 | 60-69 | 2 | 1 | 6.8 | Salivary Gland | 6330 | 1419 | Actual Death |
| GTEX-13G51-2426-SM-5LZY8 | GTEX-13G51 | 1 | 60-69 | 2 | 1 | 7.7 | Salivary Gland | 6330 | 829 | Actual Death |
| GTEX-13JVG-2926-SM-5J2N9 | GTEX-13JVG | 1 | 60-69 | 2 | 0 | 6.9 | Salivary Gland | 6330 | 901 | Actual Death |
| GTEX-13NYB-2426-SM-5IFF4 | GTEX-13NYB | 1 | 40-49 | 2 | 1 | 7.5 | Salivary Gland | 6330 | 1088 | Presumed Death |
| GTEX-13NYC-2626-SM-5K7VN | GTEX-13NYC | 1 | 60-69 | 2 | 1 | 6.1 | Salivary Gland | 6330 | 1070 | Actual Death |
| GTEX-13O21-1926-SM-5MR39 | GTEX-13O21 | 1 | 50-59 | 0 | 1 | 7.6 | Salivary Gland | 6330 | 220 | Actual Death |
| GTEX-13O3Q-2826-SM-5KM2N | GTEX-13O3Q | 1 | 50-59 | 2 | 1 | 6.8 | Salivary Gland | 6330 | 1167 | Presumed Death |
| GTEX-13OVI-2326-SM-5KM47 | GTEX-13OVI | 2 | 60-69 | 0 | 1 | 7.2 | Salivary Gland | 6330 | 244 | Actual Death |
| GTEX-13OVL-2926-SM-5IFG3 | GTEX-13OVL | 1 | 50-59 | 2 | 1 | 7.8 | Salivary Gland | 6330 | 1021 | Actual Death |
| GTEX-13QBU-2126-SM-5KLZN | GTEX-13QBU | 2 | 40-49 | 0 | 0 | 8.9 | Salivary Gland | 6330 | 253 | Actual Death |
| GTEX-13QJC-2326-SM-5Q5CD | GTEX-13QJC | 2 | 60-69 | 2 | 1 | 6.8 | Salivary Gland | 6330 | 1123 | Actual Death |
| GTEX-13VXT-1726-SM-5IFF5 | GTEX-13VXT | 2 | 20-29 | 0 | 0 | 8.1 | Salivary Gland | 6330 | 541 | Actual Death |
| GTEX-1445S-2926-SM-5O993 | GTEX-1445S | 1 | 60-69 | 3 | 1 | 7.6 | Salivary Gland | 6330 | 860 | Actual Death |
| GTEX-145ME-1626-SM-5RQI3 | GTEX-145ME | 2 | 40-49 | 0 | 0 | 8.1 | Salivary Gland | 6330 | 283 | Actual Death |
| GTEX-146FR-1226-SM-5SIA7 | GTEX-146FR | 2 | 60-69 | 0 | 1 | 8.1 | Salivary Gland | 6330 | 1634 | Actual Death |
| GTEX-14B4R-1426-SM-5Q5CG | GTEX-14B4R | 1 | 30-39 | 0 | 0 | 8 | Salivary Gland | 6330 | 265 | Actual Death |
| GTEX-WFJO-2026-SM-4LVM3 | GTEX-WFJO | 1 | 30-39 | 0 | 1 | 8.9 | Salivary Gland | 6330 | 297 | Actual Death |
| GTEX-WH7G-2126-SM-4M1XU | GTEX-WH7G | 1 | 40-49 | 0 | 1 | 7.9 | Salivary Gland | 6330 | 358 | Actual Death |
| GTEX-WHSB-2326-SM-4M1XK | GTEX-WHSB | 1 | 50-59 | 0 | 0 | 8.8 | Salivary Gland | 6330 | 320 | Actual Death |
| GTEX-WOFM-2126-SM-4OOSR | GTEX-WOFM | 1 | 20-29 | 0 | 1 | 7.6 | Salivary Gland | 6330 | 274 | Actual Death |
| GTEX-WY7C-1426-SM-4OND1 | GTEX-WY7C | 1 | 50-59 | 0 | 1 | 8.9 | Salivary Gland | 6330 | 198 | Actual Death |
| GTEX-WYVS-2026-SM-4PQZ4 | GTEX-WYVS | 2 | 40-49 | 0 | 1 | 8.8 | Salivary Gland | 6330 | 304 | Actual Death |
| GTEX-WYVS-2026-SM-4RGNS | GTEX-WYVS | 2 | 40-49 | 0 | 1 | 8.8 | Salivary Gland | 6330 | 304 | Actual Death |
| GTEX-X15G-2126-SM-4PQZR | GTEX-X15G | 2 | 50-59 | 0 | 0 | 8.1 | Salivary Gland | 6330 | 334 | Actual Death |
| GTEX-X261-2426-SM-4PQZU | GTEX-X261 | 1 | 50-59 | 4 | 1 | 7.5 | Salivary Gland | 6330 | 894 | Actual Death |
| GTEX-X3Y1-1926-SM-4PQZO | GTEX-X3Y1 | 1 | 40-49 | 0 | 1 | 7.8 | Salivary Gland | 6330 | 168 | Actual Death |
| GTEX-X5EB-1726-SM-4E3J7 | GTEX-X5EB | 1 | 40-49 | 0 | 1 | 8.5 | Salivary Gland | 6330 | 254 | Actual Death |
| GTEX-XGQ4-2626-SM-4AT6B | GTEX-XGQ4 | 1 | 50-59 | 0 | 1 | 7.8 | Salivary Gland | 6330 | 219 | Actual Death |
| GTEX-XMK1-2626-SM-4B65R | GTEX-XMK1 | 1 | 40-49 | 0 | 1 | 8.1 | Salivary Gland | 6330 | 238 | Actual Death |
| GTEX-XV7Q-2426-SM-4BRV8 | GTEX-XV7Q | 2 | 40-49 | 0 | 1 | 8.7 | Salivary Gland | 6330 | 139 | Actual Death |
| GTEX-XYKS-2926-SM-4E3IA | GTEX-XYKS | 2 | 60-69 | 0 | 1 | 7.4 | Salivary Gland | 6330 | 246 | Actual Death |
| GTEX-Y111-2626-SM-4TT24 | GTEX-Y111 | 1 | 50-59 | 1 | 1 | 7.9 | Salivary Gland | 6330 | 1567 | Actual Death |
| GTEX-Y3I4-1926-SM-4TT8L | GTEX-Y3I4 | 1 | 50-59 | 0 | 0 | 9.2 | Salivary Gland | 6330 | 164 | Actual Death |
| GTEX-Y5LM-1826-SM-4VDT9 | GTEX-Y5LM | 2 | 40-49 | 0 | 0 | 9.5 | Salivary Gland | 6330 | 179 | Actual Death |
| GTEX-Y5V6-2226-SM-4VDTC | GTEX-Y5V6 | 1 | 60-69 | 0 | 1 | 8.1 | Salivary Gland | 6330 | 197 | Actual Death |
| GTEX-YB5K-1726-SM-5IFIZ | GTEX-YB5K | 2 | 40-49 | 0 | 1 | 8.1 | Salivary Gland | 6330 | 244 | Actual Death |
| GTEX-YF7O-2226-SM-5CVN8 | GTEX-YF7O | 1 | 50-59 | 0 | 1 | 7.6 | Salivary Gland | 6330 | 210 | Actual Death |
| GTEX-ZA64-1726-SM-5CVMF | GTEX-ZA64 | 1 | 20-29 | 0 | 1 | 7.5 | Salivary Gland | 6330 | 177 | Actual Death |
| GTEX-ZAB5-2326-SM-5IJFR | GTEX-ZAB5 | 1 | 50-59 | 0 | 1 | 7.2 | Salivary Gland | 6330 | 248 | Actual Death |
| GTEX-ZC5H-2726-SM-5KLZW | GTEX-ZC5H | 2 | 40-49 | 0 | 1 | 7.3 | Salivary Gland | 6330 | 341 | Actual Death |
| GTEX-ZE7O-2926-SM-51MSG | GTEX-ZE7O | 2 | 50-59 | 2 | 1 | 7 | Salivary Gland | 6330 | 1240 | Presumed Death |
| GTEX-ZF29-2126-SM-4WWB8 | GTEX-ZF29 | 2 | 60-69 | 0 | 0 | 9.3 | Salivary Gland | 6330 | 167 | Actual Death |
| GTEX-ZP4G-1926-SM-57WDZ | GTEX-ZP4G | 2 | 20-29 | 0 | 1 | 9.4 | Salivary Gland | 6330 | 249 | Actual Death |
| GTEX-ZPU1-2326-SM-57WEP | GTEX-ZPU1 | 1 | 40-49 | 0 | 1 | 8.2 | Salivary Gland | 6330 | 158 | Actual Death |
| GTEX-ZQG8-2126-SM-4YCF1 | GTEX-ZQG8 | 2 | 60-69 | 0 | 2 | 8.4 | Salivary Gland | 6330 | 190 | Actual Death |
| GTEX-ZQUD-2126-SM-51MSY | GTEX-ZQUD | 1 | 30-39 | 0 | 1 | 7.6 | Salivary Gland | 6330 | 258 | Actual Death |
| GTEX-ZT9W-2126-SM-51MSF | GTEX-ZT9W | 1 | 50-59 | 0 | 0 | 8.9 | Salivary Gland | 6330 | 158 | Actual Death |
| GTEX-ZXG5-2826-SM-5NQ8T | GTEX-ZXG5 | 1 | 60-69 | 3 | 1 | 7.6 | Salivary Gland | 6330 | 1288 | Actual Death |
| Sample | Subject | Gender | Age | DTH-HRDY | SMAT-SSCR | SMRIN | SMTS | SMUBRID | SMTSISCH | SMTSTPTREF |