Vagina 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-1117F-2526-SM-5GZY6 GTEX-1117F 2 60-69 4 2 6.5 Vagina 996 1329 Actual Death
GTEX-113JC-1926-SM-5N9GE GTEX-113JC 2 50-59 2 1 5.7 Vagina 996 669 Actual Death
GTEX-11DXX-1726-SM-5H11T GTEX-11DXX 2 60-69 0 1 7.4 Vagina 996 125 Actual Death
GTEX-11EM3-1826-SM-5A5KO GTEX-11EM3 2 20-29 0 0 7.8 Vagina 996 201 Actual Death
GTEX-11EMC-1926-SM-5A5JU GTEX-11EMC 2 60-69 2 2 6.5 Vagina 996 735 Actual Death
GTEX-11GSP-2226-SM-5HL5Q GTEX-11GSP 2 60-69 2 2 6.6 Vagina 996 790 Actual Death
GTEX-11I78-2026-SM-5987C GTEX-11I78 2 50-59 0 1 8.7 Vagina 996 143 Actual Death
GTEX-11P81-2126-SM-5HL6N GTEX-11P81 2 30-39 0 1 7.3 Vagina 996 337 Actual Death
GTEX-11TTK-2726-SM-5GU58 GTEX-11TTK 2 60-69 4 1 5.9 Vagina 996 1170 Actual Death
GTEX-11VI4-0726-SM-5GU5B GTEX-11VI4 2 40-49 0 0 8.7 Vagina 996 135 Actual Death
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