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Table 4 Pathway analysis performed using topologyGSA statistical test on graphite networks.

From: graphite - a Bioconductor package to convert pathway topology to gene network

  Name FDR Database BCR ABL
1 CDO in myogenesis 0.00 Reactome  
2 Regulation of cytoskeletal remodeling and cell spreading by IPP complex components 0.00 Reactome   
3 Role of Abl in Robo-Slit signaling 0.00 Reactome  
4 NF-kB activation through FADD/RIP-1 pathway mediated by caspase-8 and -10 0.01 Reactome   
5 TNF signaling 0.01 Reactome   
6 G1 Phase 0.02 Reactome   
7 mTOR signalling 0.02 Reactome   
8 PI3K Cascade 0.02 Reactome   
9 Cyclin D associated events in G1 0.02 Reactome   
10 PI-3K cascade 0.03 Reactome   
11 E2F mediated regulation of DNA replication 0.04 Reactome   
12 Cyclin A/B1 associated events during G2/M transition 0.04 Reactome   
13 Intrinsic Pathway for Apoptosis 0.04 Reactome   
14 Extrinsic Pathway for Apoptosis 0.05 Reactome   
15 Lissencephaly gene (LIS1) in neuronal migration and development 0.00 NCI  
16 ErbB4 signaling events 0.01 NCI   
17 Regulation of retinoblastoma protein 0.00 NCI  
18 Canonical NF-kappaB pathway 0.01 NCI   
19 p73 transcription factor network 0.01 NCI  
20 Atypical NF-kappaB pathway 0.02 NCI   
21 Neurotrophic factor-mediated Trk receptor signaling 0.00 NCI  
22 Pathogenic Escherichia coli infection 0.00 KEGG  
23 Chronic myeloid leukeamia 0.00 KEGG
24 Cell cycle 0.0 KEGG  
25 Axon guidance 0.00 KEGG  
26 Neurotrophin signaling pathway 0.00 KEGG  
27 mtor signaling pathway 0.01 Biocarta   
28 nf-kb signaling pathway 0.01 Biocarta   
29 tnf/stress related signaling 0.02 Biocarta   
30 p53 signaling pathway 0.03 Biocarta   
31 tnfr1 signaling pathway 0.02 Biocarta   
32 integrin signaling pathway 0.02 Biocarta   
33 erk and pi-3 kinase are necessary for collagen binding in corneal epithelia 0.02 Biocarta   
34 rb tumor suppressor/checkpoint signaling in response to dna damage 0.03 Biocarta   
35 egf signaling pathway 0.04 Biocarta   
36 tgf beta signaling pathway 0.04 Biocarta   
37 role of mitochondria in apoptotic signaling 0.04 Biocarta   
38 inhibition of cellular proliferation by gleevec 0.04 Biocarta   
39 atm signaling pathway 0.05 Biocarta  
40 influence of ras and rho proteins on g1 to s transition 0.05 Biocarta