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DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod168

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod168 Module size 29 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 5271 HMSD serpin family B member 8 8492 PRSS12 serine protease 12 51156 SERPINA10 serpin family A member 10 327657 SERPINA11 serpin family A member 9 145264 SERPINA12 serpin family A member 12 12 SERPINA3 serpin family A member 3 5267 SERPINA4 serpin family A member 4 5104 SERPINA5 serpin family A member 5 866 SERPINA6 serpin family A member 6 6906 SERPINA7 serpin family A member 7 327657 SERPINA9 serpin family A member 9 1992 SERPINB1 serpin family B member 1 5273 SERPINB10 serpin family B member 10 89777 SERPINB12 serpin family B member 12 5275 SERPINB13 serpin family B member 13 5055 SERPINB2 serpin family B member 2 6317 SERPINB3 serpin family B member 3 6318 SERPINB4 serpin family B member 4 5268 SERPINB5 serpin family B member 5 5269 SERPINB6 serpin family B member 6 8710 SERPINB7 serpin family B member 7 5271 SERPINB8 serpin family B member 8 5272 SERPINB9 serpin family B member 9 3053 SERPIND1 serpin family D member 1 5270 SERPINE2 serpin family E member 2 647174 SERPINE3 serpin family E member 3 5176 SERPINF1 serpin family F member 1 5274 SERPINI1 serpin family I member 1 5276 SERPINI2 serpin family I member 2

Functional annotation

Modules were tested for enrichment in functional and pathway annotations using two complementary approaches:
1. To select a small number of specific / non-redundant annotations for each module, a regression-based approach was used;
2. To obtain the complete set of enriched annotations, an extension of Fisher’s exact test that takes annotation bias into account was employed (Wallenius’ non-central hypergeometric distribution).

Most specific annotations for this module

Coeff.1 P-value.2 Source.3 Term.4 Class.5 1.73e-01 1.99e-61 GO serine-type endopeptidase inhibitor activity molecular_function 5.82e-02 2.14e-09 Reactome Dissolution of Fibrin Clot Hemostasis 5.10e-02 1.18e-60 GO negative regulation of endopeptidase activity biological_process

¹Regression coefficient

²Fisher’s exact test nominal P-value

³Annotation source (Reactome, GO biological process (BP), molecular function (MF) and cellular component (CC))

⁴GO category or Reactome pathway

⁵High-level branch of annotation tree

Gene membership

All enriched annotations

Gene Ontology

P-value1 FDR2 Term 0.00e+00 0.00e+00 regulation of proteolysis 0.00e+00 0.00e+00 negative regulation of proteolysis 0.00e+00 0.00e+00 negative regulation of hydrolase activity 0.00e+00 0.00e+00 negative regulation of endopeptidase activity 0.00e+00 0.00e+00 regulation of endopeptidase activity 0.00e+00 0.00e+00 negative regulation of peptidase activity 0.00e+00 0.00e+00 regulation of peptidase activity 0.00e+00 0.00e+00 peptidase inhibitor activity 0.00e+00 0.00e+00 serine-type endopeptidase inhibitor activity 0.00e+00 0.00e+00 endopeptidase inhibitor activity 0.00e+00 0.00e+00 enzyme inhibitor activity 2.12e-08 9.18e-06 protease binding 2.11e-07 6.81e-05 secretory granule 1.95e-05 7.02e-03 seminal vesicle development 5.96e-05 1.87e-02 bioluminescence 1.21e-04 3.44e-02 protection from natural killer cell mediated cytotoxicity 1.40e-04 2.63e-02 ficolin-1-rich granule membrane 1.45e-04 4.00e-02 exocytosis 1.91e-04 5.04e-02 leukocyte mediated immunity 1.99e-04 3.76e-02 heparin binding

¹1Nominal enrichment p-value (Wallenius’ noncentral hypergeometric distribution)

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 9.78e-05 2.23e-01 abnormal circulating cytokine level 3.46e-04 4.87e-01 abnormal pancreatic acinar cell morphology 1.87e-03 1.00e+00 decreased respiratory mucosa goblet cell number 4.55e-03 1.00e+00 decreased lymphocyte cell number 5.61e-03 1.00e+00 vascular smooth muscle cell hyperplasia 5.61e-03 1.00e+00 enlarged pancreas 5.78e-03 1.00e+00 abnormal motor capabilities/coordination/movement 6.04e-03 1.00e+00 decreased neutrophil cell number 7.47e-03 1.00e+00 abnormal acute phase protein level 7.47e-03 1.00e+00 decreased Schwann cell number 7.47e-03 1.00e+00 exocrine pancreatic insufficiency 7.48e-03 1.00e+00 abnormal prostate gland physiology 7.48e-03 1.00e+00 abnormal pre-B cell morphology 7.48e-03 1.00e+00 abnormal circulating corticosterone level 9.33e-03 1.00e+00 abnormal seminal vesicle epithelium morphology 9.33e-03 1.00e+00 abnormal pro-B cell morphology 9.34e-03 1.00e+00 abnormal peripheral nervous system regeneration 1.12e-02 1.00e+00 abnormal epididymis epithelium morphology 1.12e-02 1.00e+00 abnormal pancreatic acinar cell zymogen granule morphology 1.30e-02 1.00e+00 dilated seminal vesicles

¹1Nominal enrichment p-value (Wallenius’ noncentral hypergeometric distribution)

²FDR corrected p-value (Benjamini-Hochberg)