Solution NMR structure of Escherichia coli ytfP expands the structural coverage of the UPF0131 protein domain family JM Aramini, YJ Huang, GV Swapna, JR Cort, PK Rajan, R Xiao, R Shastry, TB Acton, J Liu, B Rost, MA Kennedy, GT Montelione Proteins, 2007, 68:789-95 (pdf) SNAP: predict effect of non-synonymous polymorphisms on function Y Bromberg, B Rost Nucleic Acids Research, 2007, 35:3823-3835 (abstr, web, pdf) ISMB/ECCB 2007: The premier conference on computational biology T Lengauer, B Morrison McKay, B Rost PLoS Computational Biology, 2007, 3:e96 (pdf) Predicting protein subcellular localization using intelligent systems R Nair, B Rost in: 'In Silico Technology in Drug Target Identification and Validation' (eds. D Leon, S Markel), 2007, Predicting protein subcellular localization using intelligent systems: (abstr, web) Prediction of DNA-binding residues from sequence Y Ofran, V Mysore, B Rost Bioinformatics, 2007, 23:i347-i353 (abstr, web, pdf) Consensus sequences improve PSI-BLAST through mimicking profile-profile alignments D Przybylski, B Rost Nucleic Acids Research, 2007, 35:2238-2246 (abstr, web, pdf, som) Membrane protein prediction methods M Punta, LR Forrest, H Bigelow, A Kernytsky, J Liu, B Rost Methods, 2007, 41:460-474 (pdf) Natively unstructured loops differ from other loops A Schlessinger, J Liu, B Rost PLoS Computational Biology, 2007, 3:e140 (abstr, web, som) Outcome of a workshop on archiving structural models of biological macromolecules HM Berman, et al. Structure, 2006, 14:1211-1217 (pdf) Distinguishing protein-coding from non-coding RNA through support vector machines J Liu, J Gough, B Rost PLoS Genetics, 2006, 2:e29; DOI: 10.1371/journal.pgen.0020029 (abstr, web, pdf) Create and assess protein networks through molecular characteristics of individual proteins Y Ofran, G Yachdav, E Mozes, T-t Soong, R Nair, B Rost Bioinformatics, 2006, 22:e402-7 (abstr, web, pdf) Epitome: Database of structure-inferred antigenic epitopes A Schlessinger, Y Ofran, G Yachdav, B Rost Nucleic Acids Research, 2006, 34:D777-780 (abstr, web, pdf) The 2.35 A structure of the TenA homolog from Pyrococcus furiosus supports an enzymatic function in thiamine metabolism J Benach, WC Edstrom, I Lee, K Das, B Cooper, R Xiao, J Liu, B Rost, TB Acton, GT Montelione, JF Hunt Acta Crystallogr D Biol Crystallogr, 2005, 61:589-98 (pdf) CASP6 assessment of contact prediction O Grana, D Baker, RM Maccallum, J Meiler, M Punta, B Rost, ML Tress, A Valencia Proteins, 2005, 61:214-224 (pdf) ISMB 2005 HV Jagadish, D States, B Rost Bioinformatics, 2005, 21 Suppl 1:i1-i2 (pdf) Critical assessment of methods of protein structure prediction (CASP)-Round 6 J Moult, K Fidelis, B Rost, T Hubbard, A Tramontano Proteins, 2005, 61:3-7 (pdf) Beyond annotation transfer by homology: novel protein function prediction methods that can assist drug discovery Y Ofran, M Punta, R Schneider, B Rost Drug Discovery Today, 2005, 10:1475-1482 (pdf) Solution structure of Archaeglobus fulgidis peptidyl-tRNA hydrolase (Pth2) provides evidence for an extensive conserved family of Pth2 enzymes in archea, bacteria, and eukaryotes R Powers, N Mirkovic, S Goldsmith-Fischman, TB Acton, Y Chiang, YJ Huang, L Ma, PK Rajan, JR Cort, MA Kennedy, J Liu, B Rost, B Honig, D Murray, GT Montelione Protein Science, 2005, 14:2849-61 (pdf) Protein folding rates estimated from contact predictions M Punta, B Rost Journal of Molecular Biology, 2005, 348:507-512 (web, pdf) Protein flexibility and rigidity predicted from sequence A Schlessinger, B Rost Proteins: Structure, Function, and Bioinformatics, 2005, 61:115-126 (abstr, web, pdf) Prediction of transmembrane beta-barrels for entire proteomes H Bigelow, D Petrey, J Liu, D Przybylski, B Rost Nucleic Acids Research, 2004, 32:2566-2577 (abstr, web, pdf) Automatic target selection for structural genomics on eukaryotes J Liu, H Hegyi, TB Acton, GT Montelione, B Rost Proteins: Structure, Function, and Bioinformatics, 2004, 56:188-200 (abstr, web, pdf) CHOP: parsing proteins into structural domains J Liu, B Rost Nucleic Acids Research, 2004, 32:W569-W571 (abstr, web, pdf) NLProt: extracting protein names and sequences from papers S Mika, B Rost Nucleic Acids Research, 2004, 32:W634-W637 (abstr, web, pdf) Annotating protein function through lexical analysis R Nair, B Rost AI Magazine, 2004, 25:45-56 (abstr, web) 1H, 13C and 15N assignments for the Archaeglobus fulgidis protein AF2095 R Powers, TB Acton, Y Chiang, PK Rajan, JR Cort, MA Kennedy, J Liu, L Ma, B Rost, GT Montelione Journal of Biomolecular NMR, 2004, 30:107-108 (pdf) The PredictProtein server B Rost, G Yachdav, J Liu Nucleic Acids Research, 2004, 32:W321-W326 (abstr, web, pdf) Cataloguing proteins in cell cycle control KO Wrzeszczynski, B Rost Methods in Molecular Biology, 2004, 241:219-233 (abstr, web, pdf) Automatic secondary structure assignment CAF Andersen, B Rost Methods Biochem Anal., 2003, 44:341-363 (abstr, web) DSSPcont: continuous secondary structure assignments for proteins P Carter, CAF Andersen, B Rost Nucleic Acids Research, 2003, 31:3293-3295 (abstr, web, pdf) CAFASP3 in the spotlight of EVA VA Eyrich, IYY Koh, D Przybylski, O Gra–a, F Pazos, A Valencia, B Rost Proteins: Structure, Function, and Bioinformatics, 2003, 53 Suppl 6:548-560 (abstr, web, pdf) Static benchmarking of membrane helix predictions A Kernytsky, B Rost Nucleic Acids Research, 2003, 31:3642-3644 (abstr, web, pdf) Domains, motifs, and clusters in the protein universe J Liu, B Rost Current Opinion in Chemical Biology, 2003, 7:5-11 (abstr, web, pdf) UniqueProt: creating representative protein sequence sets S Mika, B Rost Nucleic Acids Research, 2003, 31:3789-3791 (abstr, web, pdf) LOC3D: annotate sub-cellular localization for protein structures R Nair, B Rost Nucleic Acids Research, 2003, 31:3337-3340 (abstr, web, pdf) Analysing six types of protein-protein interfaces Y Ofran, B Rost Journal of Molecular Biology, 2003, 325:377-387 (abstr, web, pdf) Automatic prediction of protein function B Rost, J Liu, R Nair, KO Wrzeszczynski, Y Ofran Cellular and Molecular Life Sciences, 2003, 60:2637-2650 (abstr, web, pdf) Prediction in 1D: secondary structure, membrane helices, and accessibility B Rost Methods Biochem Anal, 2003, 44:559-587 (abstr, web) Rising accuracy of protein secondary structure prediction B Rost in: 'Protein structure determination, analysis, and modeling for drug discovery' (eds. D Chasman), 2003, : New YorkRising accuracy of protein secondary structure prediction:207-249 (abstr, web) Role of transmembrane domains in the functions of Fc receptors R Zidovetzki, B Rost, DL Armstrong, I Pecht Journal of Biophysical Chemistry, 2003, 15:555-575 (abstr, pdf) Continuum secondary structure captures protein flexibility CAF Andersen, AG Palmer, S Brunak, B Rost Structure, 2002, 10:175-184 (abstr, web, pdf) State-of-the-art in membrane prediction CP Chen, B Rost Applied Bioinformatics, 2002, 1:21-35 (abstr, web, pdf) Ismb 2002 J Glasgow, B Rost Bioinformatics, 2002, 18:S1 (pdf) Target space for structural genomics revisited J Liu, B Rost Bioinformatics, 2002, 18:922-933 (abstr, web, pdf) Inferring sub-cellular localisation through automated lexical analysis R Nair, B Rost Bioinformatics, 2002, 18:S78-S86 (abstr, web, pdf) Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles G Pollastri, D Przybylski, B Rost, P Baldi Proteins: Structure, Function, and Bioinformatics, 2002, 47:228-235 (pdf) Bioinformatics in structural genomics B Rost, B Honig, A Valencia Bioinformatics, 2002, 18:897 (abstr, web, pdf) Enzyme function less conserved than anticipated B Rost Journal of Molecular Biology, 2002, 318:595-608 (abstr, web, pdf) EVA: continuous automatic evaluation of protein structure prediction servers V Eyrich, MA Mart’-Renom, D Przybylski, A Fiser, F Pazos, A Valencia, A Sali, B Rost Bioinformatics, 2001, 17:1242-1243 (abstr, web, pdf) Comparing function and structure between entire proteomes J Liu, B Rost Protein Science, 2001, 10:1970-1979 (abstr, web, pdf) Protein secondary structure prediction continues to rise B Rost Journal of Structural Biology, 2001, 134:204-218 (abstr, web, pdf) Finding nuclear localisation signals M Cokol, R Nair, B Rost EMBO Reports, 2000, 1:411-415 (abstr, web, pdf) CAFASP-1: critical assessment of fully automated structure prediction methods D Fischer, C Barret, K Bryson, A Elofsson, A Godzik, D Jones, KJ Karplus, LA Kelley, RM MacCallum, K Pawowski, B Rost, L Rychlewski, M Sternberg Proteins: Structure, Function, and Genetics, 1999, Suppl 3:209-217 (pdf) A platform for integrating threading results with protein family analyses F Pazos, B Rost, A Valencia Bioinformatics, 1999, 15:1062-1063 (abstr, web, pdf) Twilight zone of protein sequence alignments B Rost Protein Engineering, 1999, 12:85-94 (abstr, web, pdf) Adaptation of protein surfaces to subcellular location MA Andrade, SI O'Donoghue, B Rost Journal of Molecular Biology, 1998, 276:517-525 (abstr, web, pdf) Protein structure prediction in 1D, 2D, and 3D B Rost in: 'The Encyclopaedia of Computational Chemistry' (eds. PvR Schleyer, NL Allinger, T Clark, J Gasteiger, PA Kollman, HF Schaefer III, PR Schreiner), 1998, 3:2242-2255 (abstr, web, pdf) Better 1D predictions by experts with machines B Rost Proteins: Structure, Function, and Genetics, 1997, Suppl. 1:192-197 (abstr, web, pdf) NN which predicts protein secondary structure B Rost in: 'Handbook of Neural Computation' (eds. E Fiesler, R Beale), 1997, : New YorkNN which predicts protein secondary structure:G4.1 (abstr, pdf) Protein structures sustain evolutionary drift B Rost Folding & Design, 1997, 2:S19-S24 (abstr, web, pdf) Update on protein structure prediction: results of the 1995 IRBM workshop T Hubbard, et al. Folding & Design, 1996, 1:R55-R63 (abstr, pdf) PHD: predicting one-dimensional protein structure by profile based neural networks B Rost Methods in Enzymology, 1996, 266:525-539 (abstr, web, pdf) Refining neural network predictions for helical transmembrane proteins by dynamic programming B Rost, R Casadio, P Fariselli in: 'Fourth International Conference on Intelligent Systems for Molecular Biology' (eds. D States, P Agarwal, T Gaasterland, L Hunter, RF Smith), 1996, : St. Louis, M.O., U.S.A.Refining neural network predictions for helical transmembrane proteins by dynamic programming:192-200 (abstr, pdf) Fitting 1-D predictions into 3-D structures B Rost in: 'Protein folds: a distance based approach' (eds. H Bohr, S Brunak, S Brunak), 1995, : Boca Raton, FloridaFitting 1-D predictions into 3-D structures:132-151 (abstr, pdf) Progress of 1D protein structure prediction at last B Rost, C Sander Proteins: Structure, Function, and Genetics, 1995, 23:295-300 (abstr, pdf) TOPITS: Threading One-dimensional Predictions Into Three-dimensional Structures B Rost in: 'Third International Conference on Intelligent Systems for Molecular Biology' (eds. C Rawlings, D Clark, R Altman, L Hunter, T Lengauer, S Wodak), 1995, : Cambridge, EnglandTOPITS: Threading One-dimensional Predictions Into Three-dimensional Structures:314-321 (abstr, pdf) Data based modeling of proteins L Holm, B Rost, C Sander, R Schneider, G Vriend in: 'Statistical Mechanics, Protein Structure, and Protein Substrate Interactions' (eds. S Doniach), 1994, : New YorkData based modeling of proteins:277-296 Combining evolutionary information and neural networks to predict protein secondary structure B Rost, C Sander Proteins: Structure, Function, and Genetics, 1994, 19:55-72 (abstr, pdf) Evolution and neural networks - protein secondary structure prediction above 71% accuracy B Rost, C Sander, R Schneider in: '27th Hawaii International Conference on System Sciences' (eds. L Hunter), 1994, 5:385-394 (abstr, pdf) Redefining the goals of protein secondary structure prediction B Rost, C Sander, R Schneider Journal of Molecular Biology, 1994, 235:13-26 (abstr, pdf) Molecular modelling of the Norrie disease protein predicts a cysteine knot growth factor tertiary structure T Meitinger, A Meindl, P Bork, B Rost, C Sander, M Haasemann, J Murken Nature Genetics, 1993, 5:376-380 (pdf) Neural networks in chemistry B Rost, G Vriend Chemical Design Autamation News, 1993, 8:24-27 (pdf) Progress in protein structure prediction? B Rost, C Sander, R Schneider Trends in Biochemical Sciences, 1993, 18:120-123 (abstr, pdf) Exercising multi-layered networks on protein secondary structure B Rost, C Sander in: 'Neural Networks: From Biology to High Energy Physics' (eds. O Benhar, S Brunak, P DelGiudice, M Grandolfo), 1992, 3:209-220 (abstr, pdf) CUBIC: Results / Papers (by Year) Page index:  2007  2006  2005  2004  2003  2002  2001  2000  1999  1998  1997  1996  1995  1994  1993  1992   Reprints & unpublished   Web documents Publication index - Sorted by category - Sorted by authors - Collected abstracts Publications by Year 2007:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Online tools for predicting integral membrane proteins H Bigelow, B Rost in: 'Proteomic analysis of membrane proteins: methods and protocols' (eds. MJ Peirce, R Wait), 2007, : Totowa, NJOnline tools for predicting integral membrane proteins: (abstr, web) ISMB/ECCB 2007 T Lengauer, B Morrison McKay, B Rost Bioinformatics, 2007, 23:i1-i4 (pdf) Novel leverage of structural genomics J Liu, GT Montelione, B Rost Nature Biotechnology, 2007, Novel leverage of structural genomics:in press (abstr, web, som) ISIS: Interaction Sites Identified from Sequence Y Ofran, B Rost Bioinformatics, 2007, 23:e13-16 (abstr, web, pdf) Protein-protein interaction hot spots carved into sequences Y Ofran, B Rost PLoS Computational Biology, 2007, 3:e119 (abstr, web, pdf) Predicting simplified features of protein structure D Przybylski, B Rost in: 'Bioinformatics - From Genomes to Therapies' (eds. T Lengauer), 2007, : WeinheimPredicting simplified features of protein structure:in press (abstr, web) Prediction of protein structure in 1D - Secondary structure, membrane regions, and solvent accessibility B Rost in: 'Structural Bioinformatics - 2nd Edition' (eds. PE Bourne, H Weissig), 2007, Prediction of protein structure in 1D - Secondary structure, membrane regions, and solvent accessibility: (abstr, web) Natively unstructured regions in proteins identified from contact predictions A Schlessinger, M Punta, B Rost Bioinformatics, 2007, Natively unstructured regions in proteins identified from contact predictions:in press (abstr, web, pdf, som) 2006:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material PROFtmb: a web server for predicting bacterial transmembrane beta barrel proteins H Bigelow, B Rost Nucleic Acids Research, 2006, 34:W186-188 (abstr, web, pdf) Protein-protein interactions more conserved within species than across species S Mika, B Rost PLoS Computational Biology, 2006, 2:e79 (abstr, web, pdf, som) Identifying cysteines and histidines in transition-metal-binding sites using support vector machines and neural networks A Passerini, M Punta, A Ceroni, B Rost, P Frasconi Proteins: Structure, Function, and Bioinformatics, 2006, 65:305-316 (pdf) PROFbval: predict flexible and rigid residues in proteins A Schlessinger, G Yachdav, B Rost Bioinformatics, 2006, 22:891-893 (abstr, web, pdf, som) 2005:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material The transcriptional landscape of the mammalian genome P Carninci, et al. Science, 2005, 309:1559-1563 (pdf) EVAcon: a protein contact prediction evaluation service O Grana, VA Eyrich, F Pazos, B Rost, A Valencia Nucleic Acids Res, 2005, 33:W347-51 (pdf) NMPdb: database of nuclear matrix proteins S Mika, B Rost Nucleic Acids Research, 2005, 33:D160-163 (abstr, web, pdf) Mimicking cellular sorting improves prediction of subcellular localization R Nair, B Rost Journal of Molecular Biology, 2005, 348:85-100 (abstr, web, pdf) Predictive methods using protein sequence Y Ofran, B Rost in: 'Bioinformatics' (eds. AD Baxevanis, BF Ouellette), 2005, : New YorkPredictive methods using protein sequence:197-222 (pdf) PROFcon: novel prediction of long-range contacts M Punta, B Rost Bioinformatics, 2005, 21:2960-2968 (abstr, web, pdf) How to use protein 1D structure predicted by PROFphd B Rost in: 'The Proteomics Protocols Handbook' (eds. JE Walker), 2005, : Totowa NJHow to use protein 1D structure predicted by PROFphd:875-901 Comparisons of NMR spectral quality and success in crystallization demonstrate that NMR and X-ray crystallography are complementary methods for small protein structure determination DA Snyder, Y Chen, NG Denissova, T Acton, JM Aramini, M Ciano, R Karlin, J Liu, P Manor, PA Rajan, P Rossi, GV Swapna, R Xiao, B Rost, J Hunt, GT Montelione J Am Chem Soc, 2005, 127:16505-11 (pdf) 2004:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material AI and Bioinformatics J Glasgow, I Jurisica, B Rost AI Magazine, 2004, 25:7-8 CHOP proteins into structural domains J Liu, B Rost Proteins: Structure, Function, and Bioinformatics, 2004, 55:678-688 (abstr, web, pdf) Sequence-based prediction of protein domains J Liu, B Rost Nucleic Acids Research, 2004, 32:3522-3530 (abstr, web, pdf) Protein names peeled precisely off free text S Mika, B Rost Bioinformatics, 2004, 20:I241-I247 (abstr, web, pdf) LOCnet and LOCtarget: Sub-cellular localization for structural genomics targets R Nair, B Rost Nucleic Acids Research, 2004, 32:W517-W521 (abstr, web, pdf) Improving fold recognition without folds D Przybylski, B Rost Journal of Molecular Biology, 2004, 341:255-269 (abstr, web, pdf) Annotating proteins from Endoplasmic reticulum and Golgi apparatus in eukaryotic proteomes KO Wrzeszczynski, B Rost Cellular and Molecular Life Sciences, 2004, 61:1341-1353 (abstr, web) The protein target list of the Northeast Structural Genomics Consortium Z Wunderlich, TB Acton, J Liu, G Kornhaber, J Everett, P Carter, N Lan, N Echols, M Gerstein, B Rost, GT Montelione Proteins: Structure, Function, and Bioinformatics, 2004, 56:181-187 (abstr, pdf) 2003:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii JM Aramini, YJ Huang, JR Cort, S Goldsmith-Fischman, R Xiao, LY Shih, CK Ho, J Liu, B Rost, B Honig, MA Kennedy, TB Acton, GT Montelione Protein Science, 2003, 12:2823-2830 (abstr, pdf) PEP: Predictions for Entire Proteomes P Carter, J Liu, B Rost Nucleic Acids Research, 2003, 31:410-413 (abstr, web, pdf) META-PP: single interface to crucial prediction servers VA Eyrich, B Rost Nucleic Acids Research, 2003, 31:3308-3310 (abstr, web, pdf) EVA: evaluation of protein structure prediction servers IYY Koh, VA Eyrich, MA Marti-Renom, D Przybylski, MS Madhusudhan, E Narayanan, O Grana, A Valencia, A Sali, B Rost Nucleic Acids Research, 2003, 31:3311-3315 (abstr, web, pdf) NORSp: predictions of long regions without regular secondary structure J Liu, B Rost Nucleic Acids Research, 2003, 31:3833-3835 (abstr, web, pdf) Better prediction of sub-cellular localization by combining evolutionary and structural information R Nair, B Rost Proteins: Structure, Function, and Bioinformatics, 2003, 53:917-930 (abstr, web, pdf) NLSdb: database of nuclear localization signals R Nair, P Carter, B Rost Nucleic Acids Research, 2003, 31:397-399 (abstr, web) Predict protein-protein interaction sites from local sequence information Y Ofran, B Rost FEBS Letters, 2003, 544:236-239 (abstr, web, pdf) Neural networks predict protein structure: hype or hit? B Rost in: 'Artificial intelligence and heuristic methods in bioinformatics' (eds. P Frasconi, R Shamir), 2003, : AmsterdamNeural networks predict protein structure: hype or hit?:34-50 (abstr, web, pdf) Prediction of protein structure through evolution B Rost, J Liu, D Przybylski, R Nair, H Bigelow, KO Wrzeszczynski, Y Ofran in: 'Handbook of Chemoinformatics - from data to knowledge' (eds. J Gasteiger, T Engel), 2003, : WeinheimPrediction of protein structure through evolution:1789-1811 The PredictProtein server B Rost, J Liu Nucleic Acids Research, 2003, 31:3300-3304 (abstr, web, pdf) 2002:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Long membrane helices and short loops predicted less accurately CP Chen, B Rost Protein Science, 2002, Long membrane helices and short loops predicted less accurately:2766-2773 (abstr, web, pdf) Transmembrane helix predictions revisited CP Chen, A Kernytsky, B Rost Protein Science, 2002, 11:2774-2791 (abstr, web, pdf) Loopy proteins appear conserved in evolution J Liu, H Tan, B Rost Journal of Molecular Biology, 2002, 322:53-64 (abstr, web, pdf) Reliability of assessment of protein structure prediction methods MA Marti-Renom, MS Madhusudhan, A Fiser, B Rost, A Sali Structure, 2002, 10:435-440 (pdf) Sequence conserved for sub-cellular localization R Nair, B Rost Protein Science, 2002, 11:2836-2847 (abstr, web, pdf) Alignments grow, secondary structure prediction improves D Przybylski, B Rost Proteins: Structure, Function, and Bioinformatics, 2002, 46:195-205 (abstr, web, pdf) Did evolution leap to create the protein universe? B Rost Current Opinion in Structural Biology, 2002, 12:409-416 (abstr, web, pdf) 2001:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material CAFASP2: the second critical assessment of fully automated structure prediction methods D Fischer, A Elofsson, L Rychlewski, F Pazos, A Valencia, B Rost, AR Ortiz, RLJ Dunbrack Proteins: Structure, Function, and Genetics, 2001, 45 Suppl 5:S171-S183 (pdf) EVA: large-scale analysis of secondary structure prediction B Rost, V Eyrich Proteins: Structure, Function, and Genetics, 2001, 45 Suppl 5:S192-S199 (abstr, web, pdf) 2000:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Third generation prediction of secondary structure B Rost, C Sander Methods in Molecular Biology, 2000, 143:71-95 (abstr, web, pdf) 1999:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Effective use of sequence correlation and conservation in fold recognition O Olmea, B Rost, A Valencia Journal of Molecular Biology, 1999, 293:1221-1239 (abstr, web, pdf) Evolution teaches neural networks B Rost in: 'Scientific applications of neural nets' (eds. JW Clark, T Lindenau, ML Ristig), 1999, : HeidelbergEvolution teaches neural networks:207-223 (abstr, web, pdf) A modified definition of SOV, a segment-based measure for protein secondary structure prediction assessment A Zemla, C Venclovas, K Fidelis, B Rost Proteins: Structure, Function, and Genetics, 1999, 34:220-223 (pdf) 1998:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Marrying structure and genomics B Rost Structure, 1998, 6:259-263 (abstr, web, pdf) The role of transmembrane domains in the functions of B- and T-cell receptors R Zidovetzki, B Rost, I Pecht Immunology Letters, 1998, 64:97-107 (abstr, web, pdf) 1997:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Learning from evolution to predict protein structure B Rost in: 'BCEC97: Bio-Computing and Emergent Computation' (eds. B Olsson, D Lundh, A Narayanan), 1997, : Skšvde, SwedenLearning from evolution to predict protein structure:87-101 (abstr, web, pdf) Protein fold recognition by prediction-based threading B Rost, R Schneider, C Sander Journal of Molecular Biology, 1997, 270:471-480 (abstr, web, pdf) Sisyphus and prediction of protein structure B Rost, SI O'Donoghue Computer Applications in Biological Science, 1997, 13:345-356 (abstr, web, pdf) 1996:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Bridging the protein sequence-structure gap by structure predictions B Rost, C Sander Annual Review of Biophysics and Biomolecular Structure, 1996, 25:113-136 (abstr, pdf) Pitfalls of protein sequence analysis B Rost, A Valencia Current Opinion in Biotechnology, 1996, 7:457-461 (abstr, web, pdf) Topology prediction for helical transmembrane proteins at 86% accuracy B Rost, R Casadio, P Fariselli Protein Science, 1996, 5:1704-1718 (abstr, web, pdf) 1995:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Prediction of helical transmembrane segments at 95% accuracy B Rost, R Casadio, P Fariselli, C Sander Protein Science, 1995, 4:521-533 (abstr, web, pdf) Protein structure prediction by neural networks B Rost, C Sander in: 'The handbook of brain theory and neural networks' (eds. M Arbib), 1995, : Cambridge, MAProtein structure prediction by neural networks:772-775 (abstr, pdf) 1994:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material 1D secondary structure prediction through evolutionary profiles B Rost, C Sander in: 'Protein Structure by Distance Analysis' (eds. H Bohr, S Brunak), 1994, : Amsterdam, Oxford, Washington1D secondary structure prediction through evolutionary profiles:257-276 (abstr, pdf) Conservation and prediction of solvent accessibility in protein families B Rost, C Sander Proteins: Structure, Function, and Genetics, 1994, 20:216-226 (abstr, pdf) PHD - an automatic server for protein secondary structure prediction B Rost, C Sander, R Schneider CABIOS, 1994, 10:53-60 (abstr, pdf) Structure prediction of proteins - where are we now? B Rost, C Sander Current Opinion in Biotechnology, 1994, 5:372-380 (abstr, pdf) 1993:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Improved prediction of protein secondary structure by use of sequence profiles and neural networks B Rost, C Sander Proceedings of the National Academy of Sciences, 1993, 90:7558-7562 (abstr, pdf) Prediction of protein secondary structure at better than 70% accuracy B Rost, C Sander Journal of Molecular Biology, 1993, 232:584-599 (abstr, web, pdf) Secondary structure prediction of all-helical proteins in two states B Rost, C Sander Protein Engineering, 1993, 6:831-836 (abstr, pdf) 1992:  abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material Jury returns on structure prediction B Rost, C Sander Nature, 1992, 360:540 (pdf) Reprints & unpublished Documents: Surface profiles predict sub-cellular localisation R Nair and B Rost 2001 (abstr, www, pdf) Simple jury predicts protein secondary structure best B Rost, P Baldi, G Barton, J Cuff, VA Eyrich, D Jones, K Karplus, R King, G Pollastri and D Przybylski 2001 (abstr, www, pdf) Neural networks for protein structure prediction: hype or hit? B Rost 1999 (abstr, www) Midnight zone of protein structure evolution Rost, S O'Donoghue and C Sander 1998 (abstr, www) Short yeast ORFs: expressed protein or not? B Rost 1999 (abstr, www) Pedestrian guide to analysing sequence databases. B Rost and R Schneider 1999 (abstr, www) Protein fold recognition by merging 1D structure prediction and sequence alignments B Rost 1996 (abstr, www) Sisyphus and protein structure prediction B Rost & SI O'Donoghue 1997 5th International Conference on Intelligent Systems for Molecular Biology, , Tutorial (abstr, www) WWW documents: 1D structure prediction for Chameleon (IgG binding domain of protein G) B Rost 1996 http://cubic.bioc.columbia.edu/~rost/Res/96/PredChameleon.html Accuracy of predicting buried helices by PHDsec B Rost 1996 http://cubic.bioc.columbia.edu/~rost/Res/96/PredBuriedHelices.html Appendix to 'Adaptation of protein surfaces to subcellular location' MA Andrade, SI O'Donoghue and B Rost 1998 http://cubic.bioc.columbia.edu/papers/ Appendix to 'Protein fold recognition by prediction-based threading' B Rost 1996 Appendix to 'Topology prediction for helical transmembrane proteins at 86% accuracy' B Rost 1996 Appendix to 'Twilight zone of protein sequence alignments' B Rost 1998 Average conservation of 1D structure between remote homologues B Rost 1996 http://cubic.bioc.columbia.edu/~rost/Res/96/ConservationOf1D.html Expected prediction accuracy of PHD B Rost 1996 http://cubic.bioc.columbia.edu/~rost/Res/96/ExpAccuracyPHD.html Observed secondary structure content for 721 proteins B Rost 1996 http://cubic.bioc.columbia.edu/~rost/Res/96/SecStrContent.html PredictProtein - internet prediction service B Rost 1997 http://cubic.bioc.columbia.edu/predictprotein/ WWW services for sequence analysis B Rost and R Schneider 1996 http://cubic.bioc.columbia.edu/