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Funding and Publications

Funding

Tools for Ontology Annotation: dcGO

Fang H, Gough J.

BBSRC Tools and Resources Development Fund: BB/L018543/1

Main publications

dcGO: database of domain-centric ontologies on functions, phenotypes, diseases and more

Fang H, Gough J.

Nucleic Acids Research 2013, 41(Database issue):D536-44.

PubMed ID: 23161684; DOI: 10.1093/nar/gks1080



dcGOR: an R package for analysing ontologies and protein domain annotations

Fang H.

PLoS Computational Biology 2014, 10(10):e1003929.

PubMed ID: 25356683; DOI: 10.1371/journal.pcbi.1003929

Relevant publications

Function-selective domain architecture plasticity potentials in eukaryotic genome evolution

Linkeviciute V, Rackham OJ, Gough J, Oates ME, Fang H.

Biochimie 2015 (In Press).

DOI: 10.1016/j.biochi.2015.05.003



The evolution of human cells in terms of protein innovation

Sardar AJ, Oates ME, Fang H, Forrest ARR, Kawaji H, Gough J, Rackham OJ.

Molecular Biology and Evolution 2014, 31(6):1364-1374.

PubMed ID: 24692656; DOI: 10.1093/molbev/mst139



A daily-updated tree of (sequenced) life as a reference for genome research

Fang H, Oates ME, Pethica RB, Greenwood JM, Sardar AJ, Rackham OJ, Donoghue PC, Stamatakis A, de Lima Morais DA, Gough J.

Scientific Reports 2013, 3:2015.

PubMed ID: 23778980; DOI: 10.1038/srep02015



A disease-drug-phenotype matrix inferred by walking on a functional domain network

Fang H, Gough J.

Molecular BioSystems 2013, 9(7):1686-96.

PubMed ID: 23462907; DOI: 10.1039/c3mb25495j



A domain-centric solution to functional genomics via dcGO Predictor

Fang H, Gough J.

BMC Bioinformatics 2013, 14(Suppl 3):S9.

PubMed ID: 23514627; DOI: 10.1186/1471-2105-14-S3-S9



A large-scale evaluation of computational protein function prediction

Radivojac P, Clark WT, Oron TR, Schnoes AM, Wittkop T, Sokolov A, Graim K, Funk C, Verspoor K, Ben-Hur A, Pandey G, Yunes JM, Talwalkar AS, Repo S, Souza ML, Piovesan D, Casadio R, Wang Z, Cheng J, Fang H, Gough J, Koskinen P, Toronen P, Nokso-Koivisto J, Holm L, Cozzetto D, Buchan DW, Bryson K, Jones DT, Limaye B, Inamdar H, Datta A, Manjari SK, Joshi R, Chitale M, Kihara D, Lisewski AM, Erdin S, Venner E, Lichtarge O, Rentzsch R, Yang H, Romero AE, Bhat P, Paccanaro A, Hamp T, Kassner R, Seemayer S, Vicedo E, Schaefer C, Achten D, Auer F, Boehm A, Braun T, Hecht M, Heron M, Honigschmid P, Hopf TA, Kaufmann S, Kiening M, Krompass D, Landerer C, Mahlich Y, Roos M, Bjorne J, Salakoski T, Wong A, Shatkay H, Gatzmann F, Sommer I, Wass MN, Sternberg MJ, Skunca N, Supek F, Bosnjak M, Panov P, Dzeroski S, Smuc T, Kourmpetis YA, van Dijk AD, Braak CJ, Zhou Y, Gong Q, Dong X, Tian W, Falda M, Fontana P, Lavezzo E, Di Camillo B, Toppo S, Lan L, Djuric N, Guo Y, Vucetic S, Bairoch A, Linial M, Babbitt PC, Brenner SE, Orengo C, Rost B, Mooney SD, Friedberg I.

Nature Methods 2013, 10(3):221-7.

PubMed ID: 23353650; DOI: 10.1038/nmeth.2340



SUPERFAMILY 1.75 including a domain-centric gene ontology method

de Lima Morais DA, Fang H, Rackham OJ, Wilson D, Pethica R, Chothia C, Gough J.

Nucleic Acids Research 2011, 39(Database issue):D427-34.

PubMed ID: 21062816; DOI: 10.1093/nar/gkq1130