Difference between revisions of "CNKB Data"

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Revision as of 15:08, 18 June 2010

The Cellular Networks Knowledge Base (CNKB) component in geWorkbench 2.0.0 lists the following interactomes for query. However, some data has not yet be released and is password protected, and other data sets are not yet ready for query.

Data that is currently available for query is shown in light green.

CNKB Data Summary

Name Version Interaction Types Availability Date of release Number of interactions Data source
BCi 1.0 protein-DNA (transcriptional) open date number Califano lab
BioGRID 2.0.61 Interaction Types open date number Data source
DIP 2.4 protein-protein not ready date number Data source
Geneways 6.0 Interaction Types open date number Rzhetsky lab
HGi_Phillips 1.0 protein-DNA (transcriptional) open date number Califano lab
HGi_Sun 1.0 protein-DNA (transcriptional) pending publication date number Califano lab
HGi_TCGA 1.0 protein-DNA (transcriptional) open date number Califano lab
HGi_TCGA 2.0 protein-protein (post-translational) pending publication date number Califano lab
HPRD 8.0 Interaction Types open date number Data source


IntAct 2.0.0 Interaction Types not ready date number Data source
MINT 2.6 Interaction Types not ready date number Data source
Reactome 31 Interaction Types open date number Data source

Local abbreviations used

  • BCi - B-Cell interactome, produced by an ARACNe run on B-Cell microarray data from the lab of Dr. Ricardo Dalla-Favera.
  • HGi - Human High-Grade Glioma interactome, produced by analysis of microarray data from several sources:
    • Phillips - data published by Phillips et al. ...
    • Sun - data published by Sun et al. ...
    • TCGA - data obtained from The Cancer Genome Atlas project (NCI).


Notes

  • HGi version 1.0 - interactome derived from ARACNe runs (transcriptional).
  • HGi version 2.0 - interactome derived from a MINDy run (TCGA data only) (post-translational).