HotNet pathway analysis of mutation and copy number data
Kidney Renal Papillary Cell Carcinoma (Primary solid tumor)
21 April 2013
|
analyses__2013_04_21
Maintainer Information
Citation Information
Maintained by Hailei Zhang
(Broad Institute)
Cite as
Broad Institute TCGA Genome Data Analysis Center
(2013):
Kidney Renal Papillary Cell Carcinoma (Primary solid tumor cohort) - 21 April 2013: HotNet pathway analysis of mutation and copy number data.
Broad Institute of MIT and Harvard.
doi:10.7908/C1KD1VVD
Overview
Introduction
Summary
There were 17 significant subnetworks identified in HotNet analysis.
Results
Significant subnetworks
HotNet identifies 17 altered subnetworks based on the matched somatic mutation and copy number alterations data. Table 1 showes the top 10 significant subnetworks.
Table 1. Get Full Table Top 10 out of 17 subnetworks in ranked by p value. The last column of RepeatTimes shows how many times the subnetwork was picked up in differenct delta values.
| Network | No.ofgenes | p-value | RepeatTimes |
|---|---|---|---|
| AP2M1(34),MCF2L2(34),MEGF10(1) | 3 | 0.0000 | 1 |
| EGLN2(1),HDLBP(9),TBX4(74) | 3 | 0.0000 | 1 |
| LCP2(16),SH2B2(65),CSF1R(1) | 3 | 0.0000 | 1 |
| PPP1R15A(11),RELB(1),SMARCB1(5) | 3 | 0.0000 | 1 |
| RAB11A(1),PPP2R1A(11),EEF2(2) | 3 | 0.0000 | 1 |
| SYT3(11),SYT5(11),NRXN1(1) | 3 | 0.0000 | 1 |
| U2AF2(11),TCERG1(3),SF3A1(4) | 3 | 0.0000 | 1 |
| XPO1(1),BIRC5(74),NSUN2(4) | 3 | 0.0000 | 1 |
| FDXR(74),HMGB2(2),SLC22A2(1),POU2AF1(24) | 4 | 0.0345 | 1 |
| PCDH18(1),PCDHA6(1),RELN(66),PCDHA4(1) | 4 | 0.0345 | 1 |
Methods & Data
Copyright © 2013
Broad Institute TCGA GDAC as part of the TCGA Research Network.
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