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DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod277

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod277 Module size 85 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 84832 ANKRD36BP1 ankyrin repeat domain 36B pseudogene 1 79637 ARMC7 armadillo repeat containing 7 9915 ARNT2 aryl hydrocarbon receptor nuclear translocator 2 84707 BEX2 brain expressed X-linked 2 11067 C10orf10 DEPP1, autophagy regulator 143379 C10orf82 chromosome 10 open reading frame 82 55195 C14orf105 coiled-coil domain containing 198 84167 C19orf44 chromosome 19 open reading frame 44 54955 C1orf109 chromosome 1 open reading frame 109 284680 C1orf111 spermatogenesis associated 46 127703 C1orf216 chromosome 1 open reading frame 216 54058 C21orf58 chromosome 21 open reading frame 58 54149 C21orf91 chromosome 21 open reading frame 91 375341 C3orf62 chromosome 3 open reading frame 62 164592 CCDC116 coiled-coil domain containing 116 57639 CCDC146 coiled-coil domain containing 146 149483 CCDC17 coiled-coil domain containing 17 80125 CCDC33 coiled-coil domain containing 33 339834 CCDC36 coiled-coil domain containing 36 11007 CCDC85B coiled-coil domain containing 85B 55536 CDCA7L cell division cycle associated 7 like 1039 CDR2 cerebellar degeneration related protein 2 80817 CEP44 centrosomal protein 44 285753 CEP57L1 centrosomal protein 57 like 1 79848 CSPP1 centrosome and spindle pole associated protein 1 4253 CTAGE5 MIA SH3 domain ER export factor 2 143241 DYDC1 DPY30 domain containing 1 80258 EFHC2 EF-hand domain containing 2 10495 ENOX2 ecto-NOX disulfide-thiol exchanger 2 399665 FAM102A family with sequence similarity 102 member A 11170 FAM107A family with sequence similarity 107 member A 83541 FAM110A family with sequence similarity 110 member A 29057 FAM156A family with sequence similarity 156 member A 84140 FAM161A FAM161A, centrosomal protein 54540 FAM193B family with sequence similarity 193 member B 54906 FAM208B family with sequence similarity 208 member B 56204 FAM214A family with sequence similarity 214 member A 80256 FAM214B family with sequence similarity 214 member B 54855 FAM46C terminal nucleotidyltransferase 5C 85302 FBF1 Fas binding factor 1 55030 FBXO34 F-box protein 34 100861412 FSBP fibrinogen silencer binding protein 79571 GCC1 GRIP and coiled-coil domain containing 1 283685 GOLGA6L2 golgin A6 family-like 2 154865 IQUB IQ motif and ubiquitin domain containing 9832 JAKMIP2 janus kinase and microtubule interacting protein 2 54793 KCTD9 potassium channel tetramerization domain containing 9 9851 KIAA0753 KIAA0753 57562 KIAA1377 centrosomal protein 126 3866 KRT15 keratin 15 54474 KRT20 keratin 20 8687 KRT38 keratin 38 140807 KRT72 keratin 72 374454 KRT77 keratin 77 729991 MEF2BNB BLOC-1 related complex subunit 8 58526 MID1IP1 MID1 interacting protein 1 145282 MIPOL1 mirror-image polydactyly 1 114932 MRFAP1L1 Morf4 family associated protein 1 like 1 23281 MTUS2 microtubule associated scaffold protein 2 9961 MVP major vault protein 80022 MYO15B myosin XVB 4665 NAB2 NGFI-A binding protein 2 64067 NPAS3 neuronal PAS domain protein 3 266743 NPAS4 neuronal PAS domain protein 4 4956 ODF1 outer dense fiber of sperm tails 1 4975 OMP olfactory marker protein 9659 PDE4DIP phosphodiesterase 4D interacting protein 84069 PLEKHN1 pleckstrin homology domain containing N1 79810 PTCD2 pentatricopeptide repeat domain 2 79005 SCNM1 sodium channel modifier 1 29946 SERTAD3 SERTA domain containing 3 84221 SPATC1L spermatogenesis and centriole associated 1 like 220082 SPERT spermatid associated 6757 SSX2 SSX family member 2 117178 SSX2IP SSX family member 2 interacting protein 10214 SSX3 SSX family member 3 56159 TEX11 testis expressed 11 55863 TMEM126B transmembrane protein 126B 287015 TRIM42 tripartite motif containing 42 153657 TTC23L tetratricopeptide repeat domain 23 like 83878 USHBP1 USH1 protein network component harmonin binding protein 1 391104 VHLL VHL like 79696 ZC2HC1C zinc finger C2HC-type containing 1C 23503 ZFYVE26 zinc finger FYVE-type containing 26 55565 ZNF821 zinc finger protein 821

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).

No specific annotations were found for this module

All enriched annotations

Gene Ontology

P-value1 FDR2 Term 3.07e-11 1.65e-08 microtubule organizing center 1.81e-10 9.05e-08 centrosome 6.18e-06 1.57e-03 supramolecular fiber 1.93e-05 6.96e-03 cornification 1.24e-04 2.36e-02 intermediate filament 1.68e-04 4.53e-02 keratinization 2.24e-04 5.76e-02 keratinocyte differentiation 2.47e-04 4.35e-02 spindle pole 2.54e-04 6.41e-02 epidermal cell differentiation 2.69e-04 4.69e-02 intermediate filament cytoskeleton 4.95e-04 1.11e-01 skin development 6.85e-04 1.45e-01 epidermis development 1.01e-03 1.47e-01 spindle 1.29e-03 2.43e-01 cilium assembly 1.48e-03 2.72e-01 cilium organization 1.66e-03 2.98e-01 synapsis 1.75e-03 3.11e-01 organelle assembly 1.97e-03 2.78e-01 aryl hydrocarbon receptor binding 2.21e-03 3.69e-01 epithelial cell differentiation 2.35e-03 3.88e-01 cell projection assembly

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

²FDR corrected p-value (Benjamini-Hochberg)

Reactome

P-value1 FDR2 Term 4.82e-03 4.44e-01 MYOGENESIS 1.34e-02 1.00e+00 DEVELOPMENTAL BIOLOGY

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

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 9.64e-05 2.21e-01 enlarged third ventricle 1.87e-03 1.00e+00 impaired branching involved in trachea morphogenesis 3.51e-03 1.00e+00 hyperactivity 3.75e-03 1.00e+00 abnormal sarcolemma morphology 5.61e-03 1.00e+00 abnormal pulmonary alveolar parenchyma morphology 5.62e-03 1.00e+00 stereotypic behavior 9.33e-03 1.00e+00 abnormal cingulate gyrus morphology 9.33e-03 1.00e+00 increased airway resistance 9.33e-03 1.00e+00 enlarged fourth ventricle 9.33e-03 1.00e+00 increased fasted circulating glucose level 9.34e-03 1.00e+00 increased circulating amylase level 1.12e-02 1.00e+00 dilated respiratory conducting tubes 1.12e-02 1.00e+00 abnormal pituitary hormone level 1.12e-02 1.00e+00 abnormal pituitary secretion 1.30e-02 1.00e+00 abnormal paraventricular hypothalamic nucleus morphology 1.31e-02 1.00e+00 abnormal cerebral aqueduct morphology 1.31e-02 1.00e+00 impaired lung alveolus development 1.49e-02 1.00e+00 abnormal electroretinogram waveform feature 1.50e-02 1.00e+00 abnormal response to novelty 1.67e-02 1.00e+00 decreased a wave amplitude

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

²FDR corrected p-value (Benjamini-Hochberg)