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DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod279

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod279 Module size 38 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 10349 ABCA10 ATP binding cassette subfamily A member 10 26154 ABCA12 ATP binding cassette subfamily A member 12 154664 ABCA13 ATP binding cassette subfamily A member 13 23461 ABCA5 ATP binding cassette subfamily A member 5 23460 ABCA6 ATP binding cassette subfamily A member 6 10351 ABCA8 ATP binding cassette subfamily A member 8 10350 ABCA9 ATP binding cassette subfamily A member 9 23456 ABCB10 ATP binding cassette subfamily B member 10 23457 ABCB9 ATP binding cassette subfamily B member 9 4363 ABCC1 ATP binding cassette subfamily C member 1 89845 ABCC10 ATP binding cassette subfamily C member 10 85320 ABCC11 ATP binding cassette subfamily C member 11 94160 ABCC12 ATP binding cassette subfamily C member 12 8714 ABCC3 ATP binding cassette subfamily C member 3 10257 ABCC4 ATP binding cassette subfamily C member 4 10057 ABCC5 ATP binding cassette subfamily C member 5 368 ABCC6 ATP binding cassette subfamily C member 6 6833 ABCC8 ATP binding cassette subfamily C member 8 10060 ABCC9 ATP binding cassette subfamily C member 9 9429 ABCG2 ATP binding cassette subfamily G member 2 (Junior blood group) 64240 ABCG5 ATP binding cassette subfamily G member 5 64241 ABCG8 ATP binding cassette subfamily G member 8 358 AQP1 aquaporin 1 (Colton blood group) 89872 AQP10 aquaporin 10 359 AQP2 aquaporin 2 360 AQP3 aquaporin 3 (Gill blood group) 361 AQP4 aquaporin 4 362 AQP5 aquaporin 5 363 AQP6 aquaporin 6 364 AQP7 aquaporin 7 343 AQP8 aquaporin 8 364 AQP9 aquaporin 7 9843 HEPH hephaestin 341208 HEPHL1 hephaestin like 1 25240 MIP aquaporin 1 54020 SLC37A1 solute carrier family 37 member 1 23541 TAP1 SEC14 like lipid binding 2 266629 TAP2 SEC14 like lipid binding 3

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 5.30e-01 9.76e-29 Reactome Passive transport by Aquaporins Transport of small molecules 3.37e-01 4.44e-55 GO ATPase activity, coupled to transmembrane movement of substances molecular_function 2.23e-01 1.17e-20 GO ATPase-coupled anion transmembrane transporter activity molecular_function 1.04e-01 3.96e-26 GO water transport biological_process 9.52e-02 2.04e-11 GO glycerol channel activity molecular_function 5.52e-02 4.28e-20 GO ATP hydrolysis coupled anion transmembrane transport biological_process 4.42e-02 1.70e-04 GO ferroxidase activity molecular_function 6.92e-03 7.11e-05 GO vesicle fusion with endoplasmic reticulum-Golgi intermediate compartment (ERGIC) membrane biological_process 2.37e-03 7.55e-15 GO excretion biological_process 4.49e-04 2.85e-05 Reactome ATP sensitive Potassium channels Neuronal System

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 0e+00 0e+00 lipid localization 0e+00 0e+00 excretion 0e+00 0e+00 lipid transport 0e+00 0e+00 anion transport 0e+00 0e+00 fluid transport 0e+00 0e+00 water transport 0e+00 0e+00 glycerol transport 0e+00 0e+00 polyol transport 0e+00 0e+00 inorganic anion transport 0e+00 0e+00 anion transmembrane transport 0e+00 0e+00 ATP hydrolysis coupled transmembrane transport 0e+00 0e+00 ATP hydrolysis coupled anion transmembrane transport 0e+00 0e+00 basolateral plasma membrane 0e+00 0e+00 ATPase activity 0e+00 0e+00 ATPase activity, coupled to transmembrane movement of substances 0e+00 0e+00 ATPase activity, coupled to movement of substances 0e+00 0e+00 nucleoside-triphosphatase activity 0e+00 0e+00 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances 0e+00 0e+00 ATPase activity, coupled 0e+00 0e+00 water transmembrane transporter activity

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 TRANSMEMBRANE TRANSPORT OF SMALL MOLECULES 0.00e+00 0.00e+00 ABC FAMILY PROTEINS MEDIATED TRANSPORT 0.00e+00 0.00e+00 AQUAPORIN MEDIATED TRANSPORT 0.00e+00 0.00e+00 PASSIVE TRANSPORT BY AQUAPORINS 0.00e+00 0.00e+00 ABC FAMILY PROTEINS MEDIATED TRANSPORT 0.00e+00 0.00e+00 AQUAPORIN MEDIATED TRANSPORT 0.00e+00 0.00e+00 PASSIVE TRANSPORT BY AQUAPORINS 2.35e-09 7.36e-07 ABCA TRANSPORTERS IN LIPID HOMEOSTASIS 4.14e-09 9.42e-07 ABCA TRANSPORTERS IN LIPID HOMEOSTASIS 6.29e-07 1.13e-04 REGULATION OF WATER BALANCE BY RENAL AQUAPORINS 7.18e-07 1.65e-04 REGULATION OF WATER BALANCE BY RENAL AQUAPORINS 2.63e-04 3.04e-02 ER PHAGOSOME PATHWAY 3.39e-04 3.83e-02 ANTIGEN PRESENTATION FOLDING ASSEMBLY AND PEPTIDE LOADING OF CLASS I MHC 4.70e-04 5.13e-02 INWARDLY RECTIFYING K CHANNELS 5.63e-04 7.15e-02 ANTIGEN PRESENTATION FOLDING ASSEMBLY AND PEPTIDE LOADING OF CLASS I MHC 1.01e-03 1.19e-01 ER PHAGOSOME PATHWAY 1.99e-03 2.12e-01 INWARDLY RECTIFYING K CHANNELS 3.12e-03 2.75e-01 ANTIGEN PROCESSING CROSS PRESENTATION 7.49e-03 6.36e-01 ANTIGEN PROCESSING CROSS PRESENTATION 8.38e-03 6.97e-01 IRON UPTAKE AND TRANSPORT

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

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 4.69e-07 4.99e-03 abnormal renal water transport 1.89e-05 7.30e-02 decreased urine osmolality 2.02e-05 7.65e-02 abnormal fluid regulation 2.80e-05 9.84e-02 increased blood osmolality 1.56e-04 3.02e-01 thymus cortex hypoplasia 2.11e-04 3.59e-01 defective assembly of class I molecules 3.09e-04 4.57e-01 increased circulating triglyceride level 3.78e-04 5.17e-01 decreased level of surface class I molecules 5.95e-04 6.72e-01 absent CD8-positive, alpha-beta T cells 1.40e-03 1.00e+00 abnormal blood-brain barrier function 1.87e-03 1.00e+00 retinal ischemia 1.87e-03 1.00e+00 unilateral deafness 2.11e-03 1.00e+00 dehydration 2.44e-03 1.00e+00 decreased cholesterol level 3.02e-03 1.00e+00 increased insulin secretion 3.25e-03 1.00e+00 abnormal erythrocyte osmotic lysis 3.76e-03 1.00e+00 increased physiological sensitivity to xenobiotic 4.38e-03 1.00e+00 hypoglycemia 4.50e-03 1.00e+00 abnormal spleen red pulp morphology 5.61e-03 1.00e+00 stomatocytosis

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

²FDR corrected p-value (Benjamini-Hochberg)