Skip to main page content
Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation

Search Page

My NCBI Filters
Text availability
Article attribute
Article type
Publication date

Search Results

333 results
Filters applied: . Clear all Results are displayed in a computed author sort order. Results by year timeline is unavailable
Page 1
LocText: relation extraction of protein localizations to assist database curation.
Cejuela JM, Vinchurkar S, Goldberg T, Prabhu Shankar MS, Baghudana A, Bojchevski A, Uhlig C, Ofner A, Raharja-Liu P, Jensen LJ, Rost B. Cejuela JM, et al. BMC Bioinformatics. 2018 Jan 17;19(1):15. doi: 10.1186/s12859-018-2021-9. BMC Bioinformatics. 2018. PMID: 29343218 Free PMC article.
Homology-based inference sets the bar high for protein function prediction.
Hamp T, Kassner R, Seemayer S, Vicedo E, Schaefer C, Achten D, Auer F, Boehm A, Braun T, Hecht M, Heron M, Hönigschmid P, Hopf TA, Kaufmann S, Kiening M, Krompass D, Landerer C, Mahlich Y, Roos M, Rost B. Hamp T, et al. BMC Bioinformatics. 2013;14 Suppl 3(Suppl 3):S7. doi: 10.1186/1471-2105-14-S3-S7. Epub 2013 Feb 28. BMC Bioinformatics. 2013. PMID: 23514582 Free PMC article.
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. Jiang Y, et al. Genome Biol. 2016 Sep 7;17(1):184. doi: 10.1186/s13059-016-1037-6. Genome Biol. 2016. PMID: 27604469 Free PMC article.
Cloud prediction of protein structure and function with PredictProtein for Debian.
Kaján L, Yachdav G, Vicedo E, Steinegger M, Mirdita M, Angermüller C, Böhm A, Domke S, Ertl J, Mertes C, Reisinger E, Staniewski C, Rost B. Kaján L, et al. Biomed Res Int. 2013;2013:398968. doi: 10.1155/2013/398968. Epub 2013 Jul 18. Biomed Res Int. 2013. PMID: 23971032 Free PMC article.
The release covers the most popular prediction methods from the Rost Lab, including methods for the prediction of secondary structure and solvent accessibility (profphd), nuclear localization signals (predictnls), and intrinsically disordered regions (norsnet). ...
The release covers the most popular prediction methods from the Rost Lab, including methods for the prediction of secondary structure …
CASP6 assessment of contact prediction.
Graña O, Baker D, MacCallum RM, Meiler J, Punta M, Rost B, Tress ML, Valencia A. Graña O, et al. Proteins. 2005;61 Suppl 7:214-24. doi: 10.1002/prot.20739. Proteins. 2005. PMID: 16187364
EVAcon: a protein contact prediction evaluation service.
Graña O, Eyrich VA, Pazos F, Rost B, Valencia A. Graña O, et al. Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W347-51. doi: 10.1093/nar/gki411. Nucleic Acids Res. 2005. PMID: 15980486 Free PMC article.
Sequence-based prediction of protein domains.
Liu J, Rost B. Liu J, et al. Nucleic Acids Res. 2004 Jul 7;32(12):3522-30. doi: 10.1093/nar/gkh684. Print 2004. Nucleic Acids Res. 2004. PMID: 15240828 Free PMC article.
Reliability of assessment of protein structure prediction methods.
Marti-Renom MA, Madhusudhan MS, Fiser A, Rost B, Sali A. Marti-Renom MA, et al. Structure. 2002 Mar;10(3):435-40. doi: 10.1016/s0969-2126(02)00731-1. Structure. 2002. PMID: 12005441
Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles.
Pollastri G, Przybylski D, Rost B, Baldi P. Pollastri G, et al. Proteins. 2002 May 1;47(2):228-35. doi: 10.1002/prot.10082. Proteins. 2002. PMID: 11933069
Here we use ensembles of bidirectional recurrent neural network architectures, PSI-BLAST-derived profiles, and a large nonredundant training set to derive two new predictors: (a) the second version of the SSpro program for secondary structure classification into three categories …
Here we use ensembles of bidirectional recurrent neural network architectures, PSI-BLAST-derived profiles, and a large nonredundant training …
333 results
Jump to page
Feedback