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DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod128

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod128 Module size 50 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 147 ADRA1B adrenoceptor alpha 1B 156 ADRBK1 G protein-coupled receptor kinase 2 185 AGTR1 angiotensin II receptor type 1 115557 ARHGEF25 Rho guanine nucleotide exchange factor 25 551 AVP arginine vasopressin 552 AVPR1A arginine vasopressin receptor 1A 8767 CCK receptor interacting serine/threonine kinase 2 1128 CHRM1 cholinergic receptor muscarinic 1 1906 EDN1 endothelin 1 1909 EDNRA endothelin receptor type A 1910 EDNRB endothelin receptor type B 2149 F2R coagulation factor II thrombin receptor 2150 F2RL1 F2R like trypsin receptor 1 2151 F2RL2 coagulation factor II thrombin receptor like 2 9002 F2RL3 F2R like thrombin or trypsin receptor 3 2641 GCG glucagon 2642 GCGR glucagon receptor 2769 GNA15 G protein subunit alpha 15 2796 GNRH1 gonadotropin releasing hormone 1 2798 GNRHR gonadotropin releasing hormone receptor 8477 GPR65 G protein-coupled receptor 65 2911 GRM1 glutamate metabotropic receptor 1 2915 GRM5 glutamate metabotropic receptor 5 306152 GRP SLIT and NTRK-like family, member 5 3061 HCRTR1 hypocretin receptor 1 3356 HTR2A 5-hydroxytryptamine receptor 2A 3357 HTR2B 5-hydroxytryptamine receptor 2B 3814 KISS1 KiSS-1 metastasis suppressor 2846 LPAR4 lysophosphatidic acid receptor 4 10161 LPAR6 lysophosphatidic acid receptor 6 2862 MLNR motilin receptor 594857 NPS neuropeptide S 4922 NTS neurotensin 4923 NTSR1 neurotensin receptor 1 5020 OXT oxytocin/neurophysin I prepropeptide 5021 OXTR oxytocin receptor 5029 P2RY2 purinergic receptor P2Y2 5031 P2RY6 pyrimidinergic receptor P2Y6 5724 PTAFR platelet activating factor receptor 5731 PTGER1 prostaglandin E receptor 1 5737 PTGFR prostaglandin F receptor 5997 RGS2 regulator of G protein signaling 2 6863 TAC1 tachykinin precursor 1 255061 TAC4 tachykinin 4 6869 TACR1 tachykinin receptor 1 6865 TACR2 tachykinin receptor 2 6870 TACR3 tachykinin receptor 3 6915 TBXA2R thromboxane A2 receptor 6375 XCL1 X-C motif chemokine ligand 1 2829 XCR1 X-C motif chemokine receptor 1

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 3.42e-01 2.92e-10 Reactome Tachykinin receptors bind tachykinins Signal Transduction 2.26e-01 8.73e-10 Reactome Vasopressin-like receptors Signal Transduction 1.68e-01 1.46e-23 GO positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway biological_process 1.46e-01 2.12e-90 Reactome G alpha (q) signalling events Signal Transduction 8.89e-02 1.81e-06 Reactome Prostanoid ligand receptors Signal Transduction 8.19e-02 1.93e-12 GO positive regulation of renal sodium excretion biological_process 4.97e-02 1.11e-16 GO positive regulation of vasoconstriction biological_process 4.33e-02 9.24e-10 GO vasoconstriction biological_process 2.81e-02 3.01e-09 GO G-protein alpha-subunit binding molecular_function 1.93e-02 2.84e-08 Reactome P2Y receptors Signal Transduction 1.68e-02 2.21e-10 GO regulation of sensory perception of pain biological_process 1.06e-02 5.90e-64 Reactome Class A/1 (Rhodopsin-like receptors) Signal Transduction 4.41e-04 3.54e-06 GO sleep 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 positive regulation of cytosolic calcium ion concentration involved in phospholipase C-activating G-protein coupled signaling pathway 0.00e+00 0.00e+00 cellular chemical homeostasis 0.00e+00 0.00e+00 cellular homeostasis 0.00e+00 0.00e+00 regulation of cytosolic calcium ion concentration 0.00e+00 0.00e+00 phospholipase C-activating G-protein coupled receptor signaling pathway 0.00e+00 0.00e+00 cellular ion homeostasis 0.00e+00 0.00e+00 cellular calcium ion homeostasis 0.00e+00 0.00e+00 positive regulation of cytosolic calcium ion concentration 0.00e+00 0.00e+00 ion homeostasis 0.00e+00 0.00e+00 regulation of tube size 0.00e+00 0.00e+00 regulation of vasoconstriction 0.00e+00 0.00e+00 regulation of blood vessel size 0.00e+00 0.00e+00 regulation of smooth muscle contraction 0.00e+00 0.00e+00 regulation of blood pressure 0.00e+00 0.00e+00 G-protein coupled receptor activity 0.00e+00 0.00e+00 G-protein coupled peptide receptor activity 3.99e-22 3.88e-19 calcium ion homeostasis 1.20e-19 1.15e-16 cellular metal ion homeostasis 1.08e-18 1.03e-15 metal ion homeostasis 1.35e-18 1.29e-15 cellular cation homeostasis

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

²FDR corrected p-value (Benjamini-Hochberg)

Reactome

P-value1 FDR2 Term 0.00e+00 0.00e+00 GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK 0.00e+00 0.00e+00 CLASS A1 RHODOPSIN LIKE RECEPTORS 0.00e+00 0.00e+00 GPCR LIGAND BINDING 0.00e+00 0.00e+00 G ALPHA Q SIGNALLING EVENTS 0.00e+00 0.00e+00 PEPTIDE LIGAND BINDING RECEPTORS 0.00e+00 0.00e+00 GASTRIN CREB SIGNALLING PATHWAY VIA PKC AND MAPK 0.00e+00 0.00e+00 G ALPHA Q SIGNALLING EVENTS 0.00e+00 0.00e+00 PEPTIDE LIGAND BINDING RECEPTORS 1.92e-05 2.75e-03 P2Y RECEPTORS 3.89e-05 5.30e-03 NUCLEOTIDE LIKE PURINERGIC RECEPTORS 4.63e-05 6.22e-03 THROMBIN SIGNALLING THROUGH PROTEINASE ACTIVATED RECEPTORS PARS 4.82e-05 8.06e-03 P2Y RECEPTORS 6.89e-05 1.11e-02 THROMBIN SIGNALLING THROUGH PROTEINASE ACTIVATED RECEPTORS PARS 1.21e-04 1.84e-02 NUCLEOTIDE LIKE PURINERGIC RECEPTORS 1.81e-04 2.17e-02 PROSTANOID LIGAND RECEPTORS 2.65e-04 3.68e-02 PROSTANOID LIGAND RECEPTORS 5.68e-04 6.07e-02 AMINE LIGAND BINDING RECEPTORS 9.28e-04 9.43e-02 EICOSANOID LIGAND BINDING RECEPTORS 1.33e-03 1.50e-01 EICOSANOID LIGAND BINDING RECEPTORS 2.48e-03 2.56e-01 AMINE LIGAND BINDING RECEPTORS

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

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 4.20e-05 1.28e-01 abnormal baroreceptor physiology 4.29e-05 1.29e-01 abnormal pain threshold 5.44e-05 1.52e-01 small penis 8.20e-05 1.99e-01 abnormal systemic arterial blood pressure 9.13e-05 2.12e-01 abnormal physiological response to xenobiotic 1.25e-04 2.61e-01 abnormal anogenital distance 1.40e-04 2.84e-01 decreased aggression 1.56e-04 3.02e-01 abnormal carotid artery morphology 1.91e-04 3.39e-01 abnormal cocaine consumption 3.45e-04 4.86e-01 delayed vaginal opening 3.68e-04 5.06e-01 hypercapnia 4.84e-04 5.97e-01 decreased vasodilation 4.96e-04 6.03e-01 absent right subclavian artery 4.96e-04 6.03e-01 cleft chin 5.36e-04 6.34e-01 decreased circulating follicle stimulating hormone level 5.84e-04 6.65e-01 hypotension 5.95e-04 6.72e-01 small seminal vesicle 8.75e-04 8.35e-01 abnormal blood gas level 9.00e-04 8.47e-01 abnormal hormone level 1.16e-03 9.82e-01 abnormal social investigation

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

²FDR corrected p-value (Benjamini-Hochberg)