196 related articles for article (PubMed ID: 35033002)
1. Assigning protein function from domain-function associations using DomFun.
Rojano E; Jabato FM; Perkins JR; Córdoba-Caballero J; García-Criado F; Sillitoe I; Orengo C; Ranea JAG; Seoane-Zonjic P
BMC Bioinformatics; 2022 Jan; 23(1):43. PubMed ID: 35033002
[TBL] [Abstract][Full Text] [Related]
2. FunPredCATH: An ensemble method for predicting protein function using CATH.
Bonello J; Orengo C
Biochim Biophys Acta Proteins Proteom; 2024 Feb; 1872(2):140985. PubMed ID: 38122964
[TBL] [Abstract][Full Text] [Related]
3. Mutual annotation-based prediction of protein domain functions with Domain2GO.
Ulusoy E; Doğan T
Protein Sci; 2024 Jun; 33(6):e4988. PubMed ID: 38757367
[TBL] [Abstract][Full Text] [Related]
4. Protein function prediction using text-based features extracted from the biomedical literature: the CAFA challenge.
Wong A; Shatkay H
BMC Bioinformatics; 2013; 14 Suppl 3(Suppl 3):S14. PubMed ID: 23514326
[TBL] [Abstract][Full Text] [Related]
5. Protein function prediction using domain families.
Rentzsch R; Orengo CA
BMC Bioinformatics; 2013; 14 Suppl 3(Suppl 3):S5. PubMed ID: 23514456
[TBL] [Abstract][Full Text] [Related]
6. Computational discovery of direct associations between GO terms and protein domains.
Alborzi SZ; Ritchie DW; Devignes MD
BMC Bioinformatics; 2018 Nov; 19(Suppl 14):413. PubMed ID: 30453875
[TBL] [Abstract][Full Text] [Related]
7. Functional classification of CATH superfamilies: a domain-based approach for protein function annotation.
Das S; Lee D; Sillitoe I; Dawson NL; Lees JG; Orengo CA
Bioinformatics; 2015 Nov; 31(21):3460-7. PubMed ID: 26139634
[TBL] [Abstract][Full Text] [Related]
8. A domain-centric solution to functional genomics via dcGO Predictor.
Fang H; Gough J
BMC Bioinformatics; 2013; 14 Suppl 3(Suppl 3):S9. PubMed ID: 23514627
[TBL] [Abstract][Full Text] [Related]
9. CATH: increased structural coverage of functional space.
Sillitoe I; Bordin N; Dawson N; Waman VP; Ashford P; Scholes HM; Pang CSM; Woodridge L; Rauer C; Sen N; Abbasian M; Le Cornu S; Lam SD; Berka K; Varekova IH; Svobodova R; Lees J; Orengo CA
Nucleic Acids Res; 2021 Jan; 49(D1):D266-D273. PubMed ID: 33237325
[TBL] [Abstract][Full Text] [Related]
10. An expanded evaluation of protein function prediction methods shows an improvement in accuracy.
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; Lin A; Sahraeian SM; Martelli PL; Profiti G; Casadio R; Cao R; Zhong Z; Cheng J; Altenhoff A; Skunca N; Dessimoz C; Dogan T; Hakala K; Kaewphan S; Mehryary F; Salakoski T; Ginter F; Fang H; Smithers B; Oates M; Gough J; Törönen P; Koskinen P; Holm L; Chen CT; Hsu WL; Bryson K; Cozzetto D; Minneci F; Jones DT; Chapman S; Bkc D; Khan IK; Kihara D; Ofer D; Rappoport N; Stern A; Cibrian-Uhalte E; Denny P; Foulger RE; Hieta R; Legge D; Lovering RC; Magrane M; Melidoni AN; Mutowo-Meullenet P; Pichler K; Shypitsyna A; Li B; Zakeri P; ElShal S; Tranchevent LC; Das S; Dawson NL; Lee D; Lees JG; Sillitoe I; Bhat P; Nepusz T; Romero AE; Sasidharan R; Yang H; Paccanaro A; Gillis J; Sedeño-Cortés AE; Pavlidis P; Feng S; Cejuela JM; Goldberg T; Hamp T; Richter L; Salamov A; Gabaldon T; Marcet-Houben M; Supek F; Gong Q; Ning W; Zhou Y; Tian W; Falda M; Fontana P; Lavezzo E; Toppo S; Ferrari C; Giollo M; Piovesan D; Tosatto SC; Del Pozo A; Fernández JM; Maietta P; Valencia A; Tress ML; Benso A; Di Carlo S; Politano G; Savino A; Rehman HU; Re M; Mesiti M; Valentini G; Bargsten JW; van Dijk AD; Gemovic B; Glisic S; Perovic V; Veljkovic V; Veljkovic N; Almeida-E-Silva DC; Vencio RZ; Sharan M; Vogel J; Kansakar L; Zhang S; Vucetic S; Wang Z; Sternberg MJ; Wass MN; Huntley RP; Martin MJ; O'Donovan C; Robinson PN; Moreau Y; Tramontano A; Babbitt PC; Brenner SE; Linial M; Orengo CA; Rost B; Greene CS; Mooney SD; Friedberg I; Radivojac P
Genome Biol; 2016 Sep; 17(1):184. PubMed ID: 27604469
[TBL] [Abstract][Full Text] [Related]
11. exp2GO: Improving Prediction of Functions in the Gene Ontology With Expression Data.
Di Persia L; Lopez T; Arce A; Milone DH; Stegmayer G
IEEE/ACM Trans Comput Biol Bioinform; 2023; 20(2):999-1008. PubMed ID: 35417352
[TBL] [Abstract][Full Text] [Related]
12. New functional families (FunFams) in CATH to improve the mapping of conserved functional sites to 3D structures.
Sillitoe I; Cuff AL; Dessailly BH; Dawson NL; Furnham N; Lee D; Lees JG; Lewis TE; Studer RA; Rentzsch R; Yeats C; Thornton JM; Orengo CA
Nucleic Acids Res; 2013 Jan; 41(Database issue):D490-8. PubMed ID: 23203873
[TBL] [Abstract][Full Text] [Related]
13. INGA: protein function prediction combining interaction networks, domain assignments and sequence similarity.
Piovesan D; Giollo M; Leonardi E; Ferrari C; Tosatto SC
Nucleic Acids Res; 2015 Jul; 43(W1):W134-40. PubMed ID: 26019177
[TBL] [Abstract][Full Text] [Related]
14. CATH FunFHMMer web server: protein functional annotations using functional family assignments.
Das S; Sillitoe I; Lee D; Lees JG; Dawson NL; Ward J; Orengo CA
Nucleic Acids Res; 2015 Jul; 43(W1):W148-53. PubMed ID: 25964299
[TBL] [Abstract][Full Text] [Related]
15. Gene3D: a domain-based resource for comparative genomics, functional annotation and protein network analysis.
Lees J; Yeats C; Perkins J; Sillitoe I; Rentzsch R; Dessailly BH; Orengo C
Nucleic Acids Res; 2012 Jan; 40(Database issue):D465-71. PubMed ID: 22139938
[TBL] [Abstract][Full Text] [Related]
16. QAUST: Protein Function Prediction Using Structure Similarity, Protein Interaction, and Functional Motifs.
Smaili FZ; Tian S; Roy A; Alazmi M; Arold ST; Mukherjee S; Hefty PS; Chen W; Gao X
Genomics Proteomics Bioinformatics; 2021 Dec; 19(6):998-1011. PubMed ID: 33631427
[TBL] [Abstract][Full Text] [Related]
17. Benchmarking gene ontology function predictions using negative annotations.
Warwick Vesztrocy A; Dessimoz C
Bioinformatics; 2020 Jul; 36(Suppl_1):i210-i218. PubMed ID: 32657372
[TBL] [Abstract][Full Text] [Related]
18. Hierarchical deep learning for predicting GO annotations by integrating protein knowledge.
Merino GA; Saidi R; Milone DH; Stegmayer G; Martin MJ
Bioinformatics; 2022 Sep; 38(19):4488-4496. PubMed ID: 35929781
[TBL] [Abstract][Full Text] [Related]
19. Improving automatic GO annotation with semantic similarity.
Sarker B; Khare N; Devignes MD; Aridhi S
BMC Bioinformatics; 2022 Dec; 23(Suppl 2):433. PubMed ID: 36510133
[TBL] [Abstract][Full Text] [Related]
20. Protein function prediction using guilty by association from interaction networks.
Piovesan D; Giollo M; Ferrari C; Tosatto SC
Amino Acids; 2015 Dec; 47(12):2583-92. PubMed ID: 26215734
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
