UVM cancer networks

Hover over the bar plot to get the GO term. Differentially targeted genes and TFs were computed by comparing a cancer network to all other cancers.

Tool description

PANDA reconstructs a gene regulatory network using TF PPI, TF DNA binding motif, and gene expression samples. You can check the phenotypic information for the clinical variables of the samples that were used to reconstruct the network.
The variable Samples indicates the number of samples used for network reconstruction. For single-sample networks, clicking the number of samples links to the phenotypic variable table and the individual networks. The number in the Sample variable and the phenotypic variable table may be different because the table can include samples from other studies. For example, in colon cancer, 444 TCGA samples were used to build LIONESS networks in a first study and 445 samples were used for a more recent study. The superset of both TCGA samples is comprised of 487 samples, which is the size of the pheotypic variables table. This discrepancy is due to different pre-processinng techniques, inclusion/exclusion criteria, and sample quality-control.

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
GenderRaceStage
Vital statusAge
Days to last follow upTumor ID
TCGA-YZ-A983-01A FEMALE WHITE Stage IIB Alive 51 154 UVM
TCGA-V4-A9EK-01A FEMALE WHITE Stage IIB Alive 37 567 UVM
TCGA-VD-A8KL-01A FEMALE [Not Evaluated] Stage IIB Alive 77 3 UVM
TCGA-V4-A9E5-01A FEMALE WHITE Stage IIIB Alive 51 1906 UVM
TCGA-VD-A8K8-01A FEMALE [Not Evaluated] Stage IIB Alive 56 20 UVM
TCGA-YZ-A982-01A FEMALE WHITE Stage IIIB Alive 79 159 UVM
TCGA-V4-A9EY-01A FEMALE WHITE Stage IIIA Alive 66 405 UVM
TCGA-WC-A883-01A FEMALE WHITE Stage IIIA Dead 76 [Not Available] UVM
TCGA-V4-A9EU-01A FEMALE WHITE Stage IIIC Alive 83 709 UVM
TCGA-V4-A9F2-01A FEMALE WHITE Stage IIIA Alive 78 371 UVM
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