Back to main page

DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod16

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod16 Module size 25 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 90120 C9orf69 transmembrane protein 250 10602 CDC42EP3 CDC42 effector protein 3 148170 CDC42EP5 CDC42 effector protein 5 23149 FCHO1 FCH domain only 1 115548 FCHO2 FCH domain only 2 8522 GAS7 growth arrest specific 7 3036 HAS1 hyaluronan synthase 1 3037 HAS2 hyaluronan synthase 2 3038 HAS3 hyaluronan synthase 3 339855 KY kyphoscoliosis peptidase 1731 SEPT1 septin 1 151011 SEPT10 septin 10 55752 SEPT11 septin 11 124404 SEPT12 septin 12 346288 SEPT14 septin 14 23157 SEPT2 septin 6 55964 SEPT3 septin 3 5414 SEPT4 septin 4 5413 SEPT5 septin 5 23157 SEPT6 septin 6 989 SEPT7 septin 7 285961 SEPT7L septin 7 pseudogene 9 23176 SEPT8 septin 8 10801 SEPT9 septin 9 51057 WDPCP WD repeat containing planar cell polarity effector

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 3.29e-01 8.38e-09 GO hyaluronan synthase activity molecular_function 2.21e-01 8.84e-39 GO septin complex cellular_component 2.21e-01 8.84e-39 GO septin filament array cellular_component 2.20e-01 8.84e-39 GO septin ring cellular_component 1.37e-01 2.09e-08 Reactome Hyaluronan biosynthesis and export Metabolism 1.02e-01 6.63e-38 GO septin ring assembly biological_process 2.81e-02 7.32e-08 GO extracellular matrix assembly biological_process 7.86e-03 1.33e-04 GO positive regulation of pseudopodium assembly 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 cell division 0.00e+00 0.00e+00 septin cytoskeleton 0.00e+00 0.00e+00 septin complex 0.00e+00 0.00e+00 purine nucleoside binding 0.00e+00 0.00e+00 GTP binding 0.00e+00 0.00e+00 ribonucleoside binding 0.00e+00 0.00e+00 guanyl ribonucleotide binding 0.00e+00 0.00e+00 nucleoside binding 3.88e-12 2.21e-09 sperm annulus 1.24e-08 5.57e-06 hyaluronan synthase activity 2.97e-08 1.81e-05 extracellular polysaccharide biosynthetic process 3.03e-08 1.13e-05 cell cortex 6.41e-08 3.74e-05 hyaluronan biosynthetic process 1.96e-07 6.35e-05 sperm flagellum 9.00e-07 4.32e-04 regulation of cell projection assembly 2.73e-06 7.39e-04 motile cilium 3.62e-06 1.54e-03 extracellular matrix assembly 4.63e-06 1.93e-03 hyaluronan metabolic process 1.20e-05 4.56e-03 multicellular organismal reproductive process 1.22e-05 2.95e-03 cleavage furrow

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

²FDR corrected p-value (Benjamini-Hochberg)

Reactome

P-value1 FDR2 Term 1.23e-08 2.67e-06 HYALURONAN METABOLISM 7.16e-08 1.89e-05 HYALURONAN METABOLISM 9.21e-08 2.38e-05 GLYCOSAMINOGLYCAN METABOLISM 1.28e-07 2.46e-05 GLYCOSAMINOGLYCAN METABOLISM 3.29e-05 4.53e-03 METABOLISM OF CARBOHYDRATES 5.64e-05 9.31e-03 METABOLISM OF CARBOHYDRATES

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

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 6.79e-04 7.25e-01 abnormal cardiac outflow tract development 9.27e-04 8.63e-01 kinked sperm flagellum 1.11e-03 9.56e-01 abnormal thoracic vertebrae morphology 1.87e-03 1.00e+00 intervertebral disk degeneration 1.87e-03 1.00e+00 abnormal septation of the cloaca 3.74e-03 1.00e+00 decreased extensor digitorum longus weight 3.74e-03 1.00e+00 decreased heart right ventricle size 3.74e-03 1.00e+00 abnormal kinocilium morphology 3.74e-03 1.00e+00 pulmonary valve atresia 5.61e-03 1.00e+00 abnormal motor nerve collateral sprouting 5.61e-03 1.00e+00 atrium hypoplasia 5.61e-03 1.00e+00 facial cleft 5.61e-03 1.00e+00 impaired fibroblast cell migration 7.47e-03 1.00e+00 abnormal nucleus pulposus morphology 7.47e-03 1.00e+00 decreased soleus weight 7.48e-03 1.00e+00 abnormal placing response 9.34e-03 1.00e+00 duplex kidney 1.12e-02 1.00e+00 abnormal truncus arteriosus septation 1.30e-02 1.00e+00 tracheoesophageal fistula 1.31e-02 1.00e+00 renal glomerulus cysts

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

²FDR corrected p-value (Benjamini-Hochberg)