Kidney cortex networks

Data sets 1 Networks Aggregate 3

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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.

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.

SampleSubjectGender
AgeDTH-HRDY
SMAT-SSCR
SMRIN
SMTS
SMUBRID
Isch. time
Time point
GTEX-11GS4-2326-SM-5A5KS GTEX-11GS4 1 60-69 2 2 6.1 Kidney 1225 910 Actual Death
GTEX-11OF3-1326-SM-5N9FJ GTEX-11OF3 1 60-69 2 2 5.7 Kidney 1225 800 Presumed Death
GTEX-11PRG-2226-SM-5GU5R GTEX-11PRG 1 50-59 2 3 6 Kidney 1225 931 Actual Death
GTEX-11TTK-1926-SM-5PNW8 GTEX-11TTK 2 60-69 4 2 6.2 Kidney 1225 1154 Actual Death
GTEX-12696-0926-SM-5FQTV GTEX-12696 1 60-69 3 1 7.8 Kidney 1225 521 Actual Death
GTEX-12WSG-0826-SM-5EQ5A GTEX-12WSG 2 50-59 0 2 7.3 Kidney 1225 341 Actual Death
GTEX-13112-2126-SM-5GCO4 GTEX-13112 1 50-59 2 2 6.2 Kidney 1225 1261 Actual Death
GTEX-1399S-0526-SM-5IJG8 GTEX-1399S 2 30-39 0 1 5.9 Kidney 1225 75 Actual Death
GTEX-13NYB-1726-SM-5N9G2 GTEX-13NYB 1 40-49 2 2 5.7 Kidney 1225 1056 Presumed Death
GTEX-13O1R-2526-SM-5N9FW GTEX-13O1R 1 60-69 2 2 5.7 Kidney 1225 864 Actual Death
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