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Table 2 Description of top 50 (based on sorted Odds ratio) cross-talks among all 168 potential drug-resistant cross-talks between EGFR/ErbB signaling and other pathways from all the analyses using Reactome, KEGG and WikiPathway databases in GSE38376

From: Prediction of signaling cross-talks contributing to acquired drug resistance in breast cancer cells by Bayesian statistical modeling

gene i ::gene j

EGFR/ErbB ::

\({Pr\left ({Y}_{ij}^{R }=1 \right)}\)

\({Pr\left ({ Y }_{ij }^{P }=1 \right)}\)

Odds ratio

Avg \(\left ({{GE}_{i}^{P}}\right)\) :

Avg \(\left ({{GE}_{i}^{R}}\right)\) :

 

Signaling pathway j

   

Avg \(\left ({{GE}_{j}^{P}}\right)\)

Avg \(\left ({{GE}_{j}^{R}}\right)\)

AKT2::MAML2 §,¶

Notch signaling

0.5

0.03

16.67

87.71::76.59

96.84::78.6

MDM2::APC §,$

Wnt signaling

0.5

0.03

16.67

76.33::82.43

77.9::86.76

KIT::CDC73 §

Wnt signaling

0.5

0.03

16.67

82.14::104.01

82.68::110.88

MDM2::CDC73 §

Wnt signaling

0.5

0.03

16.67

76.33::104.01

77.9::110.88

KIT::GNAQ §

GPCR signaling

0.5

0.03

16.67

82.14::130

82.68::139.33

MDM2::GNAQ §,$

GPCR signaling

0.5

0.03

16.67

76.33::130

77.9::139.33

KIT::TSHR §

GPCR signaling

0.5

0.03

16.67

82.14::71.32

82.68::71.66

MDM2::TSHR §

GPCR signaling

0.5

0.03

16.67

76.33::71.32

77.9::71.66

AKT2::APC ¶

Wnt signaling

0.5

0.03

16.67

87.71::82.43

96.84::86.76

AKT2::APC ¶

Hippo signaling

0.5

0.03

16.67

87.71::82.43

96.84::86.76

AKT2::CDH1 ¶

Hippo signaling

0.5

0.03

16.67

87.71::74.2

96.84::79.8

AKT2::GNAQ ¶

Gnrh signaling

0.5

0.03

16.67

87.71::130

96.84::139.33

AKT2::GNAQ ¶

Calcium signaling

0.5

0.03

16.67

87.71::130

96.84::139.33

AKT2::MDM2 ¶

p53 signaling

0.5

0.03

16.67

87.71::76.33

96.84::77.9

MDM2::AKT2 $

Regulation of toll-like

0.5

0.03

16.67

76.33::87.71

77.9::96.84

 

receptor signaling

     

MDM2::AKT2 $

insulin signaling

0.5

0.03

16.67

76.33::87.71

77.9::96.84

MDM2::AKT2 $

RANKL/RANK signaling

0.5

0.03

16.67

76.33::87.71

77.9::96.84

MDM2::AKT2 $

AMPK signaling

0.5

0.03

16.67

76.33::87.71

77.9::96.84

MDM2::AKT2 $

MAPK signaling

0.5

0.03

16.67

76.33::87.71

77.9::96.84

MDM2::AKT2 $

Tweak signaling

0.5

0.03

16.67

76.33::87.71

77.9::96.84

MDM2::AKT2 $

Toll-like

0.5

0.03

16.67

76.33::87.71

77.9::96.84

 

receptor signaling

     

MDM2::APC $

BDNF signaling

0.5

0.03

16.67

76.33::82.43

77.9::86.76

MDM2::APC $

Wnt signaling Netpath

0.5

0.03

16.67

76.33::82.43

77.9::86.76

MDM2::APC $

Wnt signaling

0.5

0.03

16.67

76.33::82.43

77.9::86.76

 

and Pluripotency

     

MDM2::COL1A1 $

Nanoparticle-mediated

0.5

0.03

16.67

76.33::91.44

77.9::102.54

 

activation of receptor

     
 

signaling

     

MDM2::COL1A1 $

Osteoblast signaling

0.5

0.03

16.67

76.33::91.44

77.9::102.54

MDM2::GNAQ $

TSH signaling

0.5

0.03

16.67

76.33::130

77.9::139.33

MDM2::GNAQ $

Serotonin Receptor 2

0.5

0.03

16.67

76.33::130

77.9::139.33

 

and STAT3 signaling

     

MDM2::GNAQ $

Serotonin Receptor 2

0.5

0.03

16.67

76.33::130

77.9::139.33

 

and ELK-SRF/GATA4

     
 

signaling

     

MDM2::ITK $

T-Cell Receptor and

0.5

0.03

16.67

76.33::89.86

77.9::93.27

 

Co-stimulatory signaling

     

MDM2::ITK $

Tcr signaling

0.5

0.03

16.67

76.33::89.86

77.9::93.27

MDM2::KIT $

Kit receptor signaling

0.5

0.03

16.67

76.33::82.14

77.9::82.68

MDM2::PAX5 $

ID signaling

0.5

0.03

16.67

76.33::68.91

77.9::71.02

MDM2::TSHR $

TSH signaling

0.5

0.03

16.67

76.33::71.32

77.9::71.66

AKT2::TP53 §

Notch signaling

0.5

0.04

12.5

87.71::128.73

96.84::155.09

KIT::APC §

Wnt signaling

0.5

0.04

12.5

82.14::82.43

82.68::86.76

KIT::MAML2 §

Notch signaling

0.5

0.04

12.5

82.14::76.59

82.68::78.6

KIT::STK11 §

IGF1R signaling

0.5

0.04

12.5

82.14::71.97

82.68::74.95

KIT::STK11 §

insulin receptor signaling

0.5

0.04

12.5

82.14::71.97

82.68::74.95

KIT::TP53 §

Notch signaling

0.5

0.04

12.5

82.14::128.73

82.68::155.09

MDM2::MAML2 §,$

Notch signaling

0.5

0.04

12.5

76.33::76.59

77.9::78.6

MDM2::STK11 §

IGF1R signaling

0.5

0.04

12.5

76.33::71.97

77.9::74.95

MDM2::STK11 §

insulin receptor signaling

0.5

0.04

12.5

76.33::71.97

77.9::74.95

MDM2::TP53 §

Notch signaling

0.5

0.04

12.5

76.33::128.73

77.9::155.09

AKT2::GNAS ¶

Gnrh signaling

0.5

0.04

12.5

87.71::5465.46

96.84::6212.43

AKT2::GNAS ¶

Calcium signaling

0.5

0.04

12.5

87.71::5465.46

96.84::6212.43

AKT2::NF2 ¶

Hippo signaling

0.5

0.04

12.5

87.71::85.75

96.84::87.36

AKT2::TP53 ¶

P53 signaling

0.5

0.04

12.5

87.71::128.73

96.84::155.09

AKT2::TP53 ¶

Wnt signaling

0.5

0.04

12.5

87.71::128.73

96.84::155.09

CBL::CDH1 ¶

RAP1 signaling

0.5

0.04

12.5

194.46::74.2

208.45::79.8

  1. Cross-talks found using signaling pathways from §Reactome, ¶KEGG, and $xx−xxWikiPathway Databases; Pathway j is the pathway containing gene j ; \(Pr\left ({ Y }_{ij }^{R }=1 \right) \) and \(Pr\left ({ Y }_{ij }^{P}=1 \right) \) are the posterior probabilities of gene i :gene j in Resistant and Parental networks, respectively; Avg\(\left ({GE}_{i}^{P}\right)\) is the average GE value of all Parental conditions (each of which is an average of 3 samples) for gene i , Avg\(\left ({GE}_{i}^{R}\right)\) is similar but with Resistant conditions, and others are likewise similar.
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BMC Systems Biology

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