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Table 1 Data source

From: Mining breast cancer genes with a network based noise-tolerant approach

Data categories

Volume of input data

Original sources/tools

Volume of original data

Download date

PPI network

156,459 PPIs

HPRD

39,240 PPIs

Mar. 3, 2013

  

BioGRID

129,180 PPIs

Mar. 3, 2013

  

homoMINT

33,502 PPIs

Mar. 3, 2013

  

IntAct

95,746 PPIs

Mar. 3, 2013

  

Human Signalling Network

59,111 PPIs

Mar. 3, 2013

Gene expression data

53 GDSes

GEO

57 GDSes

Apr. 7, 2011

Known cancer genes

37 genes

OMIM

30 genes

Mar. 3, 2013

  

CGC

19 genes

Mar. 3, 2013

GO term (BP)

80 terms

DAVID*

50 terms

Mar. 3, 2013

  

GOEAST*

50 terms

Mar. 3, 2013

  

GOstats*

50 terms

Mar. 3, 2013

  

Cancer-hallmark GO terms

9 terms

Mar. 3, 2013

  1. * For the known breast cancer gene set, three tools were used to perform the enrichment analyses of GO terms in the BP sub-ontology: DAVID (http://david.abcc.ncifcrf.gov/home.jsp), GOEAST (http://omicslab.genetics.ac.cn/GOEAST/), and GOstats (R package in Bioconductor). DAVID and GOEAST are web tools; GOstats is an R package from Bioconductor. Cancer-hallmark GO terms were extracted from Table 1 of [37].