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DREAM Module Identification Challenge – Consensus modules

PPI-STRING_Consensus_mod264

Assigned name NA Network PPI-STRING Module ID PPI-STRING_Consensus_mod264 Module size 24 genes

Module genes

This module comprises the following genes:

Gene ID Gene Symbol Gene Name 6580 SLC22A1 solute carrier family 22 member 1 9390 SLC22A13 solute carrier family 22 member 13 55356 SLC22A15 solute carrier family 22 member 15 85413 SLC22A16 solute carrier family 22 member 16 6582 SLC22A2 solute carrier family 22 member 2 6583 SLC22A4 solute carrier family 22 member 4 6584 SLC22A5 solute carrier family 22 member 5 9356 SLC22A6 solute carrier family 22 member 6 10864 SLC22A7 solute carrier family 22 member 7 6513 SLC2A1 solute carrier family 2 member 1 81031 SLC2A10 solute carrier family 2 member 10 66035 SLC2A11 solute carrier family 2 member 11 154091 SLC2A12 solute carrier family 2 member 12 114134 SLC2A13 solute carrier family 2 member 13 144195 SLC2A14 solute carrier family 2 member 14 6514 SLC2A2 solute carrier family 2 member 2 6515 SLC2A3 solute carrier family 2 member 3 6518 SLC2A5 solute carrier family 2 member 5 11182 SLC2A6 solute carrier family 2 member 6 155184 SLC2A7 solute carrier family 2 member 7 29988 SLC2A8 solute carrier family 2 member 8 56606 SLC2A9 solute carrier family 2 member 9 55530 SVOP SV2 related protein 136306 SVOPL SVOP like

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 3.25e-01 3.53e-23 GO D-glucose transmembrane transporter activity molecular_function 2.40e-01 5.03e-21 Reactome Organic cation/anion/zwitterion transport Transport of small molecules 2.36e-01 3.19e-27 GO glucose transmembrane transporter activity molecular_function 2.27e-01 7.29e-24 GO hexose transmembrane transport biological_process 2.01e-01 1.06e-16 Reactome Organic cation transport Transport of small molecules 7.78e-02 2.94e-19 GO organic anion transport biological_process 7.02e-02 1.02e-10 GO organic cation transmembrane transporter activity molecular_function 1.82e-02 4.35e-28 Reactome Cellular hexose transport Transport of small molecules 1.08e-02 5.61e-06 Reactome Intestinal hexose absorption Digestion and absorption

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 carbohydrate transport 0.00e+00 0.00e+00 hexose transmembrane transport 0.00e+00 0.00e+00 glucose transport 0.00e+00 0.00e+00 carbohydrate transmembrane transport 0.00e+00 0.00e+00 hexose transport 0.00e+00 0.00e+00 glucose transmembrane transport 0.00e+00 0.00e+00 anion transport 0.00e+00 0.00e+00 organic anion transport 0.00e+00 0.00e+00 D-glucose transmembrane transporter activity 0.00e+00 0.00e+00 secondary active transmembrane transporter activity 0.00e+00 0.00e+00 glucose transmembrane transporter activity 0.00e+00 0.00e+00 sugar transmembrane transporter activity 0.00e+00 0.00e+00 hexose transmembrane transporter activity 0.00e+00 0.00e+00 organic anion transmembrane transporter activity 3.75e-12 3.43e-09 organic cation transport 1.29e-11 1.16e-08 glucose import 1.48e-11 9.70e-09 organic cation transmembrane transporter activity 1.77e-10 1.05e-07 sugar:proton symporter activity 1.97e-10 1.59e-07 quaternary ammonium group transport 3.93e-10 3.07e-07 ammonium transmembrane transport

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 SLC MEDIATED TRANSMEMBRANE TRANSPORT 0.00e+00 0.00e+00 FACILITATIVE NA INDEPENDENT GLUCOSE TRANSPORTERS 0.00e+00 0.00e+00 TRANSPORT OF GLUCOSE AND OTHER SUGARS BILE SALTS AND ORGANIC ACIDS METAL IONS AND AMINE COMPOUNDS 0.00e+00 0.00e+00 ORGANIC CATION ANION ZWITTERION TRANSPORT 0.00e+00 0.00e+00 SLC MEDIATED TRANSMEMBRANE TRANSPORT 0.00e+00 0.00e+00 FACILITATIVE NA INDEPENDENT GLUCOSE TRANSPORTERS 0.00e+00 0.00e+00 TRANSPORT OF GLUCOSE AND OTHER SUGARS BILE SALTS AND ORGANIC ACIDS METAL IONS AND AMINE COMPOUNDS 0.00e+00 0.00e+00 ORGANIC CATION ANION ZWITTERION TRANSPORT 1.30e-05 2.43e-03 GLUCOSE TRANSPORT 7.66e-05 9.96e-03 GLUCOSE TRANSPORT 5.47e-04 5.88e-02 ABACAVIR TRANSPORT AND METABOLISM 9.42e-04 9.56e-02 METABOLISM OF VITAMINS AND COFACTORS 9.73e-04 1.15e-01 ABACAVIR TRANSPORT AND METABOLISM 1.05e-03 1.23e-01 METABOLISM OF VITAMINS AND COFACTORS 3.84e-03 3.67e-01 METABOLISM OF CARBOHYDRATES 5.56e-03 4.98e-01 REGULATION OF INSULIN SECRETION 8.38e-03 6.97e-01 INTEGRATION OF ENERGY METABOLISM 9.41e-03 6.98e-01 METABOLISM OF CARBOHYDRATES 1.53e-02 1.00e+00 REGULATION OF INSULIN SECRETION

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

²FDR corrected p-value (Benjamini-Hochberg)

Mouse mutant phenotypes

P-value1 FDR2 Term 2.07e-04 3.56e-01 abnormal renal reabsorbtion 5.14e-04 6.16e-01 abnormal glucose homeostasis 1.88e-03 1.00e+00 increased thymus weight 3.74e-03 1.00e+00 abnormal descending aorta morphology 3.74e-03 1.00e+00 abnormal kidney arterial blood vessel morphology 3.74e-03 1.00e+00 abnormal urine organic anion level 3.74e-03 1.00e+00 abnormal corpus epididymis morphology 3.75e-03 1.00e+00 abnormal aorta elastic fiber morphology 3.75e-03 1.00e+00 prolonged P wave 5.61e-03 1.00e+00 abnormal blood vessel elastic tissue morphology 5.61e-03 1.00e+00 decreased urine uric acid level 5.61e-03 1.00e+00 increased epididymis weight 5.61e-03 1.00e+00 impaired cellular glucose import 5.61e-03 1.00e+00 increased urine magnesium level 5.62e-03 1.00e+00 increased blood uric acid level 7.47e-03 1.00e+00 decreased pancreas weight 7.47e-03 1.00e+00 nephrolithiasis 7.48e-03 1.00e+00 abnormal glucose tolerance 7.48e-03 1.00e+00 kidney cortex atrophy 9.33e-03 1.00e+00 abnormal hepatobiliary system physiology

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

²FDR corrected p-value (Benjamini-Hochberg)