| Year |
Citation |
Score |
| 2023 |
Bao C, Lu C, Lin J, Gough J, Fang H. The dcGO domain-centric ontology database in 2023: new website and extended annotations for protein structural domains. Journal of Molecular Biology. 168093. PMID 37061086 DOI: 10.1016/j.jmb.2023.168093 |
0.382 |
|
| 2023 |
Lu C, Zaucha J, Gam R, Fang H, Oates ME, Bernabe-Rubio M, Williams J, Zelenka N, Pandurangan AP, Tandon H, Shihab H, Kalaivani R, Sung M, Sardar AJ, Tzovoras BG, ... ... Gough J, et al. Hypothesis-free phenotype prediction within a genetics-first framework. Nature Communications. 14: 919. PMID 36808136 DOI: 10.1038/s41467-023-36634-6 |
0.706 |
|
| 2022 |
Paysan-Lafosse T, Blum M, Chuguransky S, Grego T, Pinto BL, Salazar GA, Bileschi ML, Bork P, Bridge A, Colwell L, Gough J, Haft DH, Letunić I, Marchler-Bauer A, Mi H, et al. InterPro in 2022. Nucleic Acids Research. PMID 36350672 DOI: 10.1093/nar/gkac993 |
0.62 |
|
| 2020 |
Blum M, Chang HY, Chuguransky S, Grego T, Kandasaamy S, Mitchell A, Nuka G, Paysan-Lafosse T, Qureshi M, Raj S, Richardson L, Salazar GA, Williams L, Bork P, Bridge A, ... Gough J, et al. The InterPro protein families and domains database: 20 years on. Nucleic Acids Research. PMID 33156333 DOI: 10.1093/nar/gkaa977 |
0.631 |
|
| 2020 |
Waman VP, Blundell TL, Buchan DWA, Gough J, Jones D, Kelley L, Murzin A, Pandurangan AP, Sillitoe I, Sternberg M, Torres P, Orengo C. The Genome3D Consortium for Structural Annotations of Selected Model Organisms. Methods in Molecular Biology (Clifton, N.J.). 2165: 27-67. PMID 32621218 DOI: 10.1007/978-1-0716-0708-4_3 |
0.789 |
|
| 2019 |
Zhou N, Jiang Y, Bergquist TR, Lee AJ, Kacsoh BZ, Crocker AW, Lewis KA, Georghiou G, Nguyen HN, Hamid MN, Davis L, Dogan T, Atalay V, Rifaioglu AS, Dalkıran A, ... ... Gough J, et al. The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens. Genome Biology. 20: 244. PMID 31744546 DOI: 10.1186/S13059-019-1835-8 |
0.583 |
|
| 2019 |
Sillitoe I, Andreeva A, Blundell TL, Buchan DWA, Finn RD, Gough J, Jones D, Kelley LA, Paysan-Lafosse T, Lam SD, Murzin AG, Pandurangan AP, Salazar GA, Skwark MJ, Sternberg MJE, et al. Genome3D: integrating a collaborative data pipeline to expand the depth and breadth of consensus protein structure annotation. Nucleic Acids Research. PMID 31733063 DOI: 10.1093/Nar/Gkz967 |
0.788 |
|
| 2019 |
Andreeva A, Kulesha E, Gough J, Murzin AG. The SCOP database in 2020: expanded classification of representative family and superfamily domains of known protein structures. Nucleic Acids Research. PMID 31724711 DOI: 10.1093/Nar/Gkz1064 |
0.505 |
|
| 2019 |
Isner JC, Olteanu VA, Hetherington AJ, Coupel-Ledru A, Sun P, Pridgeon AJ, Jones GS, Oates M, Williams TA, Maathuis FJM, Kift R, Webb AR, Gough J, Franklin KA, Hetherington AM. Short- and Long-Term Effects of UVA on Arabidopsis Are Mediated by a Novel cGMP Phosphodiesterase. Current Biology : Cb. PMID 31353185 DOI: 10.1016/J.Cub.2019.06.071 |
0.36 |
|
| 2019 |
Kasak L, Hunter JM, Udani R, Bakolitsa C, Hu Z, Adhikari AN, Babbi G, Casadio R, Gough J, Guerrero RF, Jiang Y, Joseph T, Katsonis P, Kotte S, Kundu K, et al. CAGI SickKids challenges: Assessment of phenotype and variant predictions derived from clinical and genomic data of children with undiagnosed diseases. Human Mutation. PMID 31322791 DOI: 10.1002/Humu.23874 |
0.597 |
|
| 2019 |
Ouyang JF, Kamaraj US, Polo JM, Gough J, Rackham OJL. Molecular Interaction Networks to Select Factors for Cell Conversion. Methods in Molecular Biology (Clifton, N.J.). 1975: 333-361. PMID 31062318 DOI: 10.1007/978-1-4939-9224-9_16 |
0.321 |
|
| 2019 |
Smithers B, Oates M, Gough J. 'Why genes in pieces?'-revisited. Nucleic Acids Research. 47: 4970-4973. PMID 30997511 DOI: 10.1093/Nar/Gkz284 |
0.471 |
|
| 2018 |
Pandurangan AP, Stahlhacke J, Oates ME, Smithers B, Gough J. The SUPERFAMILY 2.0 database: a significant proteome update and a new webserver. Nucleic Acids Research. PMID 30445555 DOI: 10.1093/Nar/Gky1130 |
0.79 |
|
| 2018 |
Mitchell AL, Attwood TK, Babbitt PC, Blum M, Bork P, Bridge A, Brown SD, Chang HY, El-Gebali S, Fraser MI, Gough J, Haft DR, Huang H, Letunic I, Lopez R, et al. InterPro in 2019: improving coverage, classification and access to protein sequence annotations. Nucleic Acids Research. PMID 30398656 DOI: 10.1093/Nar/Gky1100 |
0.791 |
|
| 2017 |
Cai B, Li B, Kiga N, Thusberg J, Bergquist T, Chen YC, Niknafs N, Carter H, Tokheim C, Beleva-Guthrie V, Douville C, Bhattacharya R, Grace Yeo HT, Fan J, Sengupta S, ... ... Gough J, et al. Matching phenotypes to whole genomes: Lessons learned from four iterations of the personal genome project community challenges. Human Mutation. PMID 28544481 DOI: 10.1002/Humu.23265 |
0.6 |
|
| 2017 |
Carraro M, Minervini G, Giollo M, Bromberg Y, Capriotti E, Casadio R, Dunbrack R, Elefanti L, Fariselli P, Ferrari C, Gough J, Katsonis P, Leonardi E, Lichtarge O, Menin C, et al. Performance of in silico tools for the evaluation of p16INK4a (CDKN2A) variants in CAGI. Human Mutation. PMID 28440912 DOI: 10.1002/Humu.23235 |
0.572 |
|
| 2017 |
Hon CC, Ramilowski JA, Harshbarger J, Bertin N, Rackham OJ, Gough J, Denisenko E, Schmeier S, Poulsen TM, Severin J, Lizio M, Kawaji H, Kasukawa T, Itoh M, Burroughs AM, et al. An atlas of human long non-coding RNAs with accurate 5' ends. Nature. PMID 28241135 DOI: 10.1038/Nature21374 |
0.313 |
|
| 2016 |
Finn RD, Attwood TK, Babbitt PC, Bateman A, Bork P, Bridge AJ, Chang HY, Dosztányi Z, El-Gebali S, Fraser M, Gough J, Haft D, Holliday GL, Huang H, Huang X, et al. InterPro in 2017-beyond protein family and domain annotations. Nucleic Acids Research. PMID 27899635 DOI: 10.1093/Nar/Gkw1107 |
0.684 |
|
| 2016 |
Lizio M, Harshbarger J, Abugessaisa I, Noguchi S, Kondo A, Severin J, Mungall C, Arenillas D, Mathelier A, Medvedeva YA, Lennartsson A, Drabløs F, Ramilowski JA, Rackham O, Gough J, et al. Update of the FANTOM web resource: high resolution transcriptome of diverse cell types in mammals. Nucleic Acids Research. PMID 27794045 DOI: 10.1093/Nar/Gkw995 |
0.393 |
|
| 2016 |
Kamaraj US, Gough J, Polo JM, Petretto E, Rackham OJ. Computational methods for direct cell conversion. Cell Cycle (Georgetown, Tex.). 15: 3343-3354. PMID 27736295 DOI: 10.1080/15384101.2016.1238119 |
0.301 |
|
| 2016 |
Jiang Y, Oron TR, Clark WT, Bankapur AR, D'Andrea D, Lepore R, Funk CS, Kahanda I, Verspoor KM, Ben-Hur A, Koo da CE, Penfold-Brown D, Shasha D, Youngs N, Bonneau R, ... ... Gough J, et al. An expanded evaluation of protein function prediction methods shows an improvement in accuracy. Genome Biology. 17: 184. PMID 27604469 DOI: 10.1186/S13059-016-1037-6 |
0.588 |
|
| 2016 |
Latysheva NS, Oates ME, Maddox L, Flock T, Gough J, Buljan M, Weatheritt RJ, Babu MM. Molecular Principles of Gene Fusion Mediated Rewiring of Protein Interaction Networks in Cancer. Molecular Cell. 63: 579-92. PMID 27540857 DOI: 10.1016/J.Molcel.2016.07.008 |
0.357 |
|
| 2016 |
Harish A, Abroi A, Gough J, Kurland C. Did viruses evolve as a distinct supergroup from common ancestors of cells? Genome Biology and Evolution. PMID 27497315 DOI: 10.1093/Gbe/Evw175 |
0.415 |
|
| 2016 |
Marchadier E, Oates ME, Fang H, Donoghue PC, Hetherington AM, Gough J. Evolution of the calcium-based intracellular signalling system. Genome Biology and Evolution. PMID 27358427 DOI: 10.1093/Gbe/Evw139 |
0.368 |
|
| 2016 |
Smithers B, Oates ME, Tompa P, Gough J. Three reasons protein disorder analysis makes more sense in the light of collagen. Protein Science : a Publication of the Protein Society. 25: 1030-6. PMID 26941008 DOI: 10.1002/Pro.2913 |
0.364 |
|
| 2016 |
Rackham OJ, Firas J, Fang H, Oates ME, Holmes ML, Knaupp AS, Suzuki H, Nefzger CM, Daub CO, Shin JW, Petretto E, Forrest AR, Hayashizaki Y, Polo JM, ... Gough J, et al. A predictive computational framework for direct reprogramming between human cell types. Nature Genetics. PMID 26780608 DOI: 10.1038/Ng.3487 |
0.305 |
|
| 2015 |
Baumgarten S, Simakov O, Esherick LY, Liew YJ, Lehnert EM, Michell CT, Li Y, Hambleton EA, Guse A, Oates ME, Gough J, Weis VM, Aranda M, Pringle JR, Voolstra CR. The genome of Aiptasia, a sea anemone model for coral symbiosis. Proceedings of the National Academy of Sciences of the United States of America. 112: 11893-8. PMID 26324906 DOI: 10.1073/Pnas.1513318112 |
0.394 |
|
| 2015 |
Linkeviciute V, Rackham OJ, Gough J, Oates ME, Fang H. Function-selective domain architecture plasticity potentials in eukaryotic genome evolution. Biochimie. PMID 25980317 DOI: 10.1016/J.Biochi.2015.05.003 |
0.481 |
|
| 2015 |
Smithers B, Oates ME, Gough J. Splice junctions are constrained by protein disorder. Nucleic Acids Research. 43: 4814-22. PMID 25934802 DOI: 10.1093/Nar/Gkv407 |
0.351 |
|
| 2015 |
Shihab HA, Rogers MF, Gough J, Mort M, Cooper DN, Day IN, Gaunt TR, Campbell C. An integrative approach to predicting the functional effects of non-coding and coding sequence variation. Bioinformatics (Oxford, England). 31: 1536-43. PMID 25583119 DOI: 10.1093/Bioinformatics/Btv009 |
0.409 |
|
| 2015 |
Mitchell A, Chang HY, Daugherty L, Fraser M, Hunter S, Lopez R, McAnulla C, McMenamin C, Nuka G, Pesseat S, Sangrador-Vegas A, Scheremetjew M, Rato C, Yong SY, Bateman A, ... ... Gough J, et al. The InterPro protein families database: the classification resource after 15 years. Nucleic Acids Research. 43: D213-21. PMID 25428371 DOI: 10.1093/Nar/Gku1243 |
0.671 |
|
| 2015 |
Oates ME, Stahlhacke J, Vavoulis DV, Smithers B, Rackham OJ, Sardar AJ, Zaucha J, Thurlby N, Fang H, Gough J. The SUPERFAMILY 1.75 database in 2014: a doubling of data. Nucleic Acids Research. 43: D227-33. PMID 25414345 DOI: 10.1093/Nar/Gku1041 |
0.557 |
|
| 2015 |
Lewis TE, Sillitoe I, Andreeva A, Blundell TL, Buchan DW, Chothia C, Cozzetto D, Dana JM, Filippis I, Gough J, Jones DT, Kelley LA, Kleywegt GJ, Minneci F, Mistry J, et al. Genome3D: exploiting structure to help users understand their sequences. Nucleic Acids Research. 43: D382-6. PMID 25348407 DOI: 10.1093/Nar/Gku973 |
0.715 |
|
| 2015 |
Zaucha J, Stahlhacke J, Oates ME, Thurlby N, Rackham OJ, Fang H, Smithers B, Gough J. A proteome quality index. Environmental Microbiology. 17: 4-9. PMID 25339269 DOI: 10.1111/1462-2920.12622 |
0.405 |
|
| 2014 |
Venkatakrishnan AJ, Flock T, Prado DE, Oates ME, Gough J, Madan Babu M. Structured and disordered facets of the GPCR fold. Current Opinion in Structural Biology. 27: 129-37. PMID 25198166 DOI: 10.1016/J.Sbi.2014.08.002 |
0.343 |
|
| 2014 |
Shihab HA, Gough J, Mort M, Cooper DN, Day IN, Gaunt TR. Ranking non-synonymous single nucleotide polymorphisms based on disease concepts. Human Genomics. 8: 11. PMID 24980617 DOI: 10.1186/1479-7364-8-11 |
0.356 |
|
| 2014 |
van der Lee R, Buljan M, Lang B, Weatheritt RJ, Daughdrill GW, Dunker AK, Fuxreiter M, Gough J, Gsponer J, Jones DT, Kim PM, Kriwacki RW, Oldfield CJ, Pappu RV, Tompa P, et al. Classification of intrinsically disordered regions and proteins. Chemical Reviews. 114: 6589-631. PMID 24773235 DOI: 10.1021/Cr400525M |
0.51 |
|
| 2014 |
Sardar AJ, Oates ME, Fang H, Forrest AR, Kawaji H, Gough J, Rackham OJ. The evolution of human cells in terms of protein innovation. Molecular Biology and Evolution. 31: 1364-74. PMID 24692656 DOI: 10.1093/Molbev/Mst139 |
0.43 |
|
| 2014 |
Forrest AR, Kawaji H, Rehli M, Baillie JK, de Hoon MJ, Haberle V, Lassmann T, Kulakovskiy IV, Lizio M, Itoh M, Andersson R, Mungall CJ, Meehan TF, Schmeier S, ... ... Gough J, et al. A promoter-level mammalian expression atlas. Nature. 507: 462-70. PMID 24670764 DOI: 10.1038/Nature13182 |
0.359 |
|
| 2014 |
Fang H, Gough J. supraHex: an R/Bioconductor package for tabular omics data analysis using a supra-hexagonal map. Biochemical and Biophysical Research Communications. 443: 285-9. PMID 24309102 DOI: 10.1016/J.Bbrc.2013.11.103 |
0.358 |
|
| 2013 |
Fang H, Oates ME, Pethica RB, Greenwood JM, Sardar AJ, Rackham OJ, Donoghue PC, Stamatakis A, de Lima Morais DA, Gough J. A daily-updated tree of (sequenced) life as a reference for genome research. Scientific Reports. 3: 2015. PMID 23778980 DOI: 10.1038/Srep02015 |
0.465 |
|
| 2013 |
Gough J, Dunker AK. Sequences and topology: disorder, modularity, and post/pre translation modification. Current Opinion in Structural Biology. 23: 417-9. PMID 23721748 DOI: 10.1016/J.Sbi.2013.05.001 |
0.521 |
|
| 2013 |
Shihab HA, Gough J, Cooper DN, Day IN, Gaunt TR. Predicting the functional consequences of cancer-associated amino acid substitutions. Bioinformatics (Oxford, England). 29: 1504-10. PMID 23620363 DOI: 10.1093/Bioinformatics/Btt182 |
0.338 |
|
| 2013 |
Fang H, Gough J. A domain-centric solution to functional genomics via dcGO Predictor. Bmc Bioinformatics. 14: S9. PMID 23514627 DOI: 10.1186/1471-2105-14-S3-S9 |
0.494 |
|
| 2013 |
Fang H, Gough J. A disease-drug-phenotype matrix inferred by walking on a functional domain network. Molecular Biosystems. 9: 1686-96. PMID 23462907 DOI: 10.1039/C3Mb25495J |
0.391 |
|
| 2013 |
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, ... ... Gough J, et al. A large-scale evaluation of computational protein function prediction. Nature Methods. 10: 221-7. PMID 23353650 DOI: 10.1038/Nmeth.2340 |
0.628 |
|
| 2013 |
Lewis TE, Sillitoe I, Andreeva A, Blundell TL, Buchan DW, Chothia C, Cuff A, Dana JM, Filippis I, Gough J, Hunter S, Jones DT, Kelley LA, Kleywegt GJ, Minneci F, et al. Genome3D: a UK collaborative project to annotate genomic sequences with predicted 3D structures based on SCOP and CATH domains. Nucleic Acids Research. 41: D499-507. PMID 23203986 DOI: 10.1093/Nar/Gks1266 |
0.723 |
|
| 2013 |
Oates ME, Romero P, Ishida T, Ghalwash M, Mizianty MJ, Xue B, Dosztányi Z, Uversky VN, Obradovic Z, Kurgan L, Dunker AK, Gough J. D²P²: database of disordered protein predictions. Nucleic Acids Research. 41: D508-16. PMID 23203878 DOI: 10.1093/Nar/Gks1226 |
0.44 |
|
| 2013 |
Fang H, Gough J. DcGO: database of domain-centric ontologies on functions, phenotypes, diseases and more. Nucleic Acids Research. 41: D536-44. PMID 23161684 DOI: 10.1093/Nar/Gks1080 |
0.486 |
|
| 2013 |
Shihab HA, Gough J, Cooper DN, Stenson PD, Barker GL, Edwards KJ, Day IN, Gaunt TR. Predicting the functional, molecular, and phenotypic consequences of amino acid substitutions using hidden Markov models. Human Mutation. 34: 57-65. PMID 23033316 DOI: 10.1002/Humu.22225 |
0.448 |
|
| 2012 |
Pethica RB, Levitt M, Gough J. Evolutionarily consistent families in SCOP: sequence, structure and function. Bmc Structural Biology. 12: 27. PMID 23078280 DOI: 10.1186/1472-6807-12-27 |
0.583 |
|
| 2012 |
Hunter S, Jones P, Mitchell A, Apweiler R, Attwood TK, Bateman A, Bernard T, Binns D, Bork P, Burge S, de Castro E, Coggill P, Corbett M, Das U, Daugherty L, ... ... Gough J, et al. InterPro in 2011: new developments in the family and domain prediction database. Nucleic Acids Research. 40: D306-12. PMID 22096229 DOI: 10.1093/Nar/Gkr948 |
0.694 |
|
| 2012 |
Oates M, Romero P, Ishida T, Ghalwash M, Uversky V, Xue B, Obradovic Z, Dunker K, Gough J. A community resource for analysis and understanding of intrinsic disorder in proteins of fully sequenced genomes F1000research. 3. DOI: 10.7490/F1000Research.1092160.1 |
0.442 |
|
| 2012 |
Fang H, Oates M, Pethica R, Greenwood J, Sardar A, Rackham O, Stamatakis A, Morais DdL, Gough J. sTOL: a daily-updated species tree of (sequenced) life as a reference to analyze genomic data F1000research. 3. DOI: 10.7490/F1000Research.1092155.1 |
0.4 |
|
| 2011 |
Chavali S, Morais DA, Gough J, Babu MM. Evolution of eukaryotic genome architecture: Insights from the study of a rapidly evolving metazoan, Oikopleura dioica: Non-adaptive forces such as elevated mutation rates may influence the evolution of genome architecture. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 33: 592-601. PMID 21681984 DOI: 10.1002/Bies.201100034 |
0.417 |
|
| 2011 |
Abroi A, Gough J. Are viruses a source of new protein folds for organisms? - Virosphere structure space and evolution. Bioessays : News and Reviews in Molecular, Cellular and Developmental Biology. 33: 626-35. PMID 21633962 DOI: 10.1002/Bies.201000126 |
0.402 |
|
| 2011 |
Dunker AK, Gough J. Sequences and topology: intrinsic disorder in the evolving universe of protein structure. Current Opinion in Structural Biology. 21: 379-81. PMID 21530236 DOI: 10.1016/J.Sbi.2011.04.002 |
0.422 |
|
| 2011 |
de Lima Morais DA, Fang H, Rackham OJ, Wilson D, Pethica R, Chothia C, Gough J. SUPERFAMILY 1.75 including a domain-centric gene ontology method. Nucleic Acids Research. 39: D427-34. PMID 21062816 DOI: 10.1093/Nar/Gkq1130 |
0.694 |
|
| 2011 |
Sardar A, Gough J. Horizontal gene transfer of protein domain architectures F1000research. 2. DOI: 10.7490/F1000Research.1010.1 |
0.384 |
|
| 2010 |
Rackham OJ, Madera M, Armstrong CT, Vincent TL, Woolfson DN, Gough J. The evolution and structure prediction of coiled coils across all genomes. Journal of Molecular Biology. 403: 480-93. PMID 20813113 DOI: 10.7490/F1000Research.269.1 |
0.478 |
|
| 2010 |
Ravasi T, Suzuki H, Cannistraci CV, Katayama S, Bajic VB, Tan K, Akalin A, Schmeier S, Kanamori-Katayama M, Bertin N, Carninci P, Daub CO, Forrest AR, Gough J, Grimmond S, et al. An atlas of combinatorial transcriptional regulation in mouse and man. Cell. 140: 744-52. PMID 20211142 DOI: 10.1016/J.Cell.2010.01.044 |
0.493 |
|
| 2010 |
Madera M, Calmus R, Thiltgen G, Karplus K, Gough J. Improving protein secondary structure prediction using a simple k-mer model. Bioinformatics (Oxford, England). 26: 596-602. PMID 20130034 DOI: 10.1093/Bioinformatics/Btq020 |
0.451 |
|
| 2010 |
Pethica R, Gough J. Sequence, structure and function evolution at the SCOP family level F1000research. 1. DOI: 10.7490/F1000Research.322.1 |
0.41 |
|
| 2010 |
Fang H, Gough J. The evolutionary dynamics of protein networks Genome Biology. 11: P12. DOI: 10.1186/Gb-2010-11-S1-P12 |
0.396 |
|
| 2009 |
Suzuki H, Forrest AR, van Nimwegen E, Daub CO, Balwierz PJ, Irvine KM, Lassmann T, Ravasi T, Hasegawa Y, de Hoon MJ, Katayama S, Schroder K, Carninci P, Tomaru Y, ... ... Gough J, et al. The transcriptional network that controls growth arrest and differentiation in a human myeloid leukemia cell line. Nature Genetics. 41: 553-62. PMID 19377474 DOI: 10.1038/Ng.375 |
0.507 |
|
| 2009 |
Chothia C, Gough J. Genomic and structural aspects of protein evolution. The Biochemical Journal. 419: 15-28. PMID 19272021 DOI: 10.1042/Bj20090122 |
0.711 |
|
| 2009 |
Wilson D, Pethica R, Zhou Y, Talbot C, Vogel C, Madera M, Chothia C, Gough J. SUPERFAMILY--sophisticated comparative genomics, data mining, visualization and phylogeny. Nucleic Acids Research. 37: D380-6. PMID 19036790 DOI: 10.1093/Nar/Gkn762 |
0.733 |
|
| 2009 |
Hunter S, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Das U, Daugherty L, Duquenne L, Finn RD, Gough J, Haft D, Hulo N, Kahn D, et al. InterPro: the integrative protein signature database. Nucleic Acids Research. 37: D211-5. PMID 18940856 DOI: 10.1093/Nar/Gkn785 |
0.631 |
|
| 2008 |
Zeng LR, Park CH, Venu RC, Gough J, Wang GL. Classification, expression pattern, and E3 ligase activity assay of rice U-box-containing proteins. Molecular Plant. 1: 800-15. PMID 19825583 DOI: 10.1093/Mp/Ssn044 |
0.484 |
|
| 2008 |
Garrocho-Villegas V, Bustos-Rivera G, Gough J, Vinogradov SN, Arredondo-Peter R. Expression and in silico structural analysis of a rice (Oryza sativa) hemoglobin 5. Plant Physiology and Biochemistry : Ppb / SociéTé FrançAise De Physiologie VéGéTale. 46: 855-9. PMID 18586507 DOI: 10.1016/J.Plaphy.2008.05.004 |
0.364 |
|
| 2007 |
Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bork P, Buillard V, Cerutti L, Copley R, Courcelle E, Das U, Daugherty L, Dibley M, Finn R, ... ... Gough J, et al. New developments in the InterPro database. Nucleic Acids Research. 35: D224-8. PMID 17202162 DOI: 10.1093/Nar/Gkl841 |
0.635 |
|
| 2007 |
Wilson D, Madera M, Vogel C, Chothia C, Gough J. The SUPERFAMILY database in 2007: Families and functions Nucleic Acids Research. 35: D308-D313. PMID 17098927 DOI: 10.1093/Nar/Gkl910 |
0.735 |
|
| 2006 |
Gough J. Genomic scale sub-family assignment of protein domains. Nucleic Acids Research. 34: 3625-33. PMID 16877569 DOI: 10.1093/Nar/Gkl484 |
0.473 |
|
| 2006 |
Maeda N, Kasukawa T, Oyama R, Gough J, Frith M, Engström PG, Lenhard B, Aturaliya RN, Batalov S, Beisel KW, Bult CJ, Fletcher CF, Forrest AR, Furuno M, Hill D, et al. Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs. Plos Genetics. 2: e62. PMID 16683036 DOI: 10.1371/Journal.Pgen.0020062 |
0.471 |
|
| 2006 |
Liu J, Gough J, Rost B. Distinguishing protein-coding from non-coding RNAs through support vector machines. Plos Genetics. 2: e29. PMID 16683024 DOI: 10.1371/Journal.Pgen.0020029 |
0.354 |
|
| 2006 |
Vinogradov SN, Hoogewijs D, Bailly X, Arredondo-Peter R, Gough J, Dewilde S, Moens L, Vanfleteren JR. A phylogenomic profile of globins. Bmc Evolutionary Biology. 6: 31. PMID 16600051 DOI: 10.1186/1471-2148-6-31 |
0.359 |
|
| 2006 |
Babu MM, Priya ML, Selvan AT, Madera M, Gough J, Aravind L, Sankaran K. A database of bacterial lipoproteins (DOLOP) with functional assignments to predicted lipoproteins. Journal of Bacteriology. 188: 2761-73. PMID 16585737 DOI: 10.1128/Jb.188.8.2761-2773.2006 |
0.493 |
|
| 2005 |
Carninci P, Kasukawa T, Katayama S, Gough J, Frith MC, Maeda N, Oyama R, Ravasi T, Lenhard B, Wells C, Kodzius R, Shimokawa K, Bajic VB, Brenner SE, Batalov S, et al. The transcriptional landscape of the mammalian genome. Science (New York, N.Y.). 309: 1559-63. PMID 16141072 DOI: 10.1126/Science.1112014 |
0.658 |
|
| 2005 |
Vinogradov SN, Hoogewijs D, Bailly X, Arredondo-Peter R, Guertin M, Gough J, Dewilde S, Moens L, Vanfleteren JR. Three globin lineages belonging to two structural classes in genomes from the three kingdoms of life. Proceedings of the National Academy of Sciences of the United States of America. 102: 11385-9. PMID 16061809 DOI: 10.1073/Pnas.0502103102 |
0.414 |
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| 2005 |
Mulder NJ, Apweiler R, Attwood TK, Bairoch A, Bateman A, Binns D, Bradley P, Bork P, Bucher P, Cerutti L, Copley R, Courcelle E, Das U, Durbin R, Fleischmann W, ... Gough J, et al. InterPro, progress and status in 2005. Nucleic Acids Research. 33: D201-5. PMID 15608177 DOI: 10.1093/Nar/Gki106 |
0.651 |
|
| 2005 |
Gough J. Convergent evolution of domain architectures (is rare). Bioinformatics (Oxford, England). 21: 1464-71. PMID 15585523 DOI: 10.1093/Bioinformatics/Bti204 |
0.479 |
|
| 2004 |
Gough J, Chothia C. The linked conservation of structure and function in a family of high diversity: The monomeric cupredoxins Structure. 12: 917-925. PMID 15274913 DOI: 10.1016/J.Str.2004.03.029 |
0.638 |
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| 2004 |
Vogel C, Berzuini C, Bashton M, Gough J, Teichmann SA. Supra-domains: evolutionary units larger than single protein domains. Journal of Molecular Biology. 336: 809-23. PMID 15095989 DOI: 10.1016/J.Jmb.2003.12.026 |
0.588 |
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| 2004 |
Madera M, Vogel C, Kummerfeld SK, Chothia C, Gough J. The SUPERFAMILY database in 2004: Additions and improvements Nucleic Acids Research. 32: D235-D239. PMID 14681402 DOI: 10.1093/Nar/Gkh117 |
0.718 |
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| 2003 |
Gherardi E, Youles ME, Miguel RN, Blundell TL, Iamele L, Gough J, Bandyopadhyay A, Hartmann G, Butler PJG. Functional map and domain structure of MET, the product of the c-met protooncogene and receptor for hepatocyte growth factor/scatter factor Proceedings of the National Academy of Sciences of the United States of America. 100: 12039-12044. PMID 14528000 DOI: 10.1073/pnas.2034936100 |
0.428 |
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| 2003 |
Kasukawa T, Furuno M, Nikaido I, Bono H, Hume DA, Bult C, Hill DP, Baldarelli R, Gough J, Kanapin A, Matsuda H, Schriml LM, Hayashizaki Y, Okazaki Y, Quackenbush J. Development and evaluation of an automated annotation pipeline and cDNA annotation system Genome Research. 13: 1542-1551. PMID 12819153 DOI: 10.1101/Gr.992803 |
0.457 |
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| 2003 |
Kanapin A, Batalov S, Davis MJ, Gough J, Grimmond S, Kawaji H, Magrane M, Matsuda H, Schönbach C, Teasdale RD, Yuan Z. Mouse proteome analysis. Genome Research. 13: 1335-44. PMID 12819131 DOI: 10.1101/Gr.978703 |
0.525 |
|
| 2003 |
Chothia C, Gough J, Vogel C, Teichmann SA. Evolution of the protein repertoire. Science (New York, N.Y.). 300: 1701-3. PMID 12805536 DOI: 10.1126/Science.1085371 |
0.747 |
|
| 2002 |
Okazaki Y, Furuno M, Kasukawa T, Adachi J, Bono H, Kondo S, Nikaido I, Osato N, Saito R, Suzuki H, Yamanaka I, Kiyosawa H, Yagi K, Tomaru Y, Hasegawa Y, ... ... Gough J, et al. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Nature. 420: 563-73. PMID 12466851 DOI: 10.1038/Nature01266 |
0.627 |
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| 2002 |
Gough J. The SUPERFAMILY database in structural genomics. Acta Crystallographica. Section D, Biological Crystallography. 58: 1897-900. PMID 12393919 DOI: 10.1107/S0907444902015160 |
0.562 |
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| 2002 |
Madera M, Gough J. A comparison of profile hidden Markov model procedures for remote homology detection. Nucleic Acids Research. 30: 4321-8. PMID 12364612 DOI: 10.1093/Nar/Gkf544 |
0.381 |
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| 2002 |
Hua S, Guo T, Gough J, Sun Z. Proteins with class alpha/beta fold have high-level participation in fusion events. Journal of Molecular Biology. 320: 713-9. PMID 12095249 DOI: 10.1016/S0022-2836(02)00467-9 |
0.476 |
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| 2002 |
Jardine O, Gough J, Chothia C, Teichmann SA. Comparison of the small molecule metabolic enzymes of Escherichia coli and Saccharomyces cerevisiae. Genome Research. 12: 916-29. PMID 12045145 DOI: 10.1101/Gr.228002 |
0.68 |
|
| 2002 |
Gough J, Chothia C. SUPERFAMILY: HMMs representing all proteins of known structure. SCOP sequence searches, alignments and genome assignments Nucleic Acids Research. 30: 268-272. PMID 11752312 DOI: 10.1093/Nar/30.1.268 |
0.726 |
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| 2001 |
Teichmann SA, Rison SC, Thornton JM, Riley M, Gough J, Chothia C. Small-molecule metabolism: an enzyme mosaic. Trends in Biotechnology. 19: 482-6. PMID 11711174 DOI: 10.1016/S0167-7799(01)01813-3 |
0.677 |
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| 2001 |
Gough J, Karplus K, Hughey R, Chothia C. Assignment of homology to genome sequences using a library of hidden Markov models that represent all proteins of known structure Journal of Molecular Biology. 313: 903-919. PMID 11697912 DOI: 10.1006/Jmbi.2001.5080 |
0.699 |
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| 2001 |
Teichmann SA, Rison SC, Thornton JM, Riley M, Gough J, Chothia C. The evolution and structural anatomy of the small molecule metabolic pathways in Escherichia coli. Journal of Molecular Biology. 311: 693-708. PMID 11518524 DOI: 10.1006/Jmbi.2001.4912 |
0.706 |
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| 2001 |
Apic G, Gough J, Teichmann SA. An insight into domain combinations. Bioinformatics (Oxford, England). 17: S83-9. PMID 11472996 DOI: 10.1093/Bioinformatics/17.Suppl_1.S83 |
0.665 |
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| 2001 |
Apic G, Gough J, Teichmann SA. Domain combinations in archaeal, eubacterial and eukaryotic proteomes. Journal of Molecular Biology. 310: 311-25. PMID 11428892 DOI: 10.1006/Jmbi.2001.4776 |
0.655 |
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