Back to main page

DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod94

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod94 Module size 54 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 90580 C19orf52 translocase of inner mitochondrial membrane 29 128977 C22orf39 chromosome 22 open reading frame 39 150590 C2orf15 chromosome 2 open reading frame 15 118487 CHCHD1 coiled-coil-helix-coiled-coil-helix domain containing 1 90480 GADD45GIP1 GADD45G interacting protein 1 3396 ICT1 mitochondrial ribosomal protein L58 84299 MIEN1 migration and invasion enhancer 1 78988 MRP63 mitochondrial ribosomal protein L57 124995 MRPL10 mitochondrial ribosomal protein L10 6182 MRPL12 mitochondrial ribosomal protein L12 28998 MRPL13 mitochondrial ribosomal protein L13 64928 MRPL14 mitochondrial ribosomal protein L14 63875 MRPL17 mitochondrial ribosomal protein L17 9801 MRPL19 mitochondrial ribosomal protein L19 55052 MRPL20 mitochondrial ribosomal protein L20 219927 MRPL21 mitochondrial ribosomal protein L21 6150 MRPL23 mitochondrial ribosomal protein L23 64975 MRPL27 mitochondrial ribosomal protein L41 51263 MRPL28 mitochondrial ribosomal protein L30 51263 MRPL30 mitochondrial ribosomal protein L30 64928 MRPL32 mitochondrial ribosomal protein L14 64981 MRPL34 mitochondrial ribosomal protein L34 51318 MRPL35 mitochondrial ribosomal protein L35 51253 MRPL37 mitochondrial ribosomal protein L37 64978 MRPL38 mitochondrial ribosomal protein L38 64976 MRPL40 mitochondrial ribosomal protein L40 64975 MRPL41 mitochondrial ribosomal protein L41 28977 MRPL42 mitochondrial ribosomal protein L42 84545 MRPL43 mitochondrial ribosomal protein L43 65080 MRPL44 mitochondrial ribosomal protein L44 26589 MRPL46 mitochondrial ribosomal protein L46 57129 MRPL47 mitochondrial ribosomal protein L47 51642 MRPL48 mitochondrial ribosomal protein L48 740 MRPL49 mitochondrial ribosomal protein L49 54534 MRPL50 mitochondrial ribosomal protein L50 51258 MRPL51 mitochondrial ribosomal protein L51 122704 MRPL52 mitochondrial ribosomal protein L52 116541 MRPL54 mitochondrial ribosomal protein L54 128308 MRPL55 mitochondrial ribosomal protein L55 65005 MRPL9 mitochondrial ribosomal protein L9 51373 MRPS17 mitochondrial ribosomal protein S17 55168 MRPS18A mitochondrial ribosomal protein S18A 28973 MRPS18B mitochondrial ribosomal protein S18B 51023 MRPS18C mitochondrial ribosomal protein S18C 54460 MRPS21 mitochondrial ribosomal protein S21 51649 MRPS23 mitochondrial ribosomal protein S23 64951 MRPS24 mitochondrial ribosomal protein S24 64432 MRPS25 mitochondrial ribosomal protein S25 64949 MRPS26 mitochondrial ribosomal protein S26 28957 MRPS28 mitochondrial ribosomal protein S28 51650 MRPS33 mitochondrial ribosomal protein S33 60488 MRPS35 mitochondrial ribosomal protein S35 157310 PEBP4 phosphatidylethanolamine binding protein 4 80775 TMEM177 transmembrane protein 177

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 1.72e-01 1.28e-75 GO mitochondrial large ribosomal subunit cellular_component 1.01e-01 5.09e-109 GO mitochondrial translational termination biological_process 9.53e-02 5.09e-109 GO mitochondrial translational elongation biological_process 7.58e-02 2.10e-108 Reactome Mitochondrial translation initiation Metabolism of proteins 4.76e-02 2.10e-108 Reactome Mitochondrial translation elongation Metabolism of proteins 3.96e-02 4.18e-31 GO mitochondrial ribosome cellular_component 3.68e-02 2.10e-108 Reactome Mitochondrial translation termination Metabolism of proteins

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 amide biosynthetic process 0e+00 0e+00 cellular amide metabolic process 0e+00 0e+00 translational termination 0e+00 0e+00 peptide metabolic process 0e+00 0e+00 protein complex disassembly 0e+00 0e+00 peptide biosynthetic process 0e+00 0e+00 mitochondrial translational termination 0e+00 0e+00 mitochondrial translation 0e+00 0e+00 mitochondrial translational elongation 0e+00 0e+00 translational elongation 0e+00 0e+00 translation 0e+00 0e+00 mitochondrial membrane 0e+00 0e+00 intracellular ribonucleoprotein complex 0e+00 0e+00 mitochondrial matrix 0e+00 0e+00 mitochondrial ribosome 0e+00 0e+00 large ribosomal subunit 0e+00 0e+00 ribosome 0e+00 0e+00 ribonucleoprotein complex 0e+00 0e+00 mitochondrial large ribosomal subunit 0e+00 0e+00 mitochondrial envelope

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

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 3.78e-03 1e+00 increased circulating serum albumin level 5.61e-03 1e+00 absent proamniotic cavity 6.59e-03 1e+00 abnormal response to tactile stimuli 8.52e-03 1e+00 abnormal retinal pigmentation 1.13e-02 1e+00 increased embryonic tissue cell apoptosis 1.22e-02 1e+00 decreased monocyte cell number 1.50e-02 1e+00 absent inner cell mass proliferation 1.81e-02 1e+00 decreased cell proliferation 2.46e-02 1e+00 abnormal embryogenesis/ development

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

²FDR corrected p-value (Benjamini-Hochberg)