ROSTLAB - Publications Sorted by Category

Alignment methods CASP Clustering proteins Comparative modelling Databases Disorder Editorial Evaluation of prediction methods Evolution Experimental structure Flexibility Genomics predictions Membrane regions Methods Non-coding RNA Prediction services Protein binding Protein function Protein structure Protein-protein interaction Protemic predictions Reviews Secondary structure Sequence analysis Solvent accessibility Structural genomics Subcellular localization Threading (remote homology)

Publications by Category (topic/keyword)

Alignment methods: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Powerful fusion: PSI-BLAST and consensus sequences
D Przybylski, B Rost
Bioinformatics, 2008. Powerful fusion: PSI-BLAST and consensus sequences:in press (abstr, web, Google Scholar)

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, Google Scholar)

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, Google Scholar)

Improving fold recognition without folds
D Przybylski, B Rost
Journal of Molecular Biology, 2004. 341:255-269 (abstr, web, pdf, Google Scholar)

CHOP: parsing proteins into structural domains
J Liu, B Rost
Nucleic Acids Research, 2004. 32:W569-W571 (abstr, web, pdf, Google Scholar)

CHOP proteins into structural domains
J Liu, B Rost
Proteins: Structure, Function, and Bioinformatics, 2004. 55:678-688 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

Enzyme function less conserved than anticipated
B Rost
Journal of Molecular Biology, 2002. 318:595-608 (abstr, web, pdf, Google Scholar)

Alignments grow, secondary structure prediction improves
D Przybylski, B Rost
Proteins: Structure, Function, and Bioinformatics, 2002. 46:195-205 (abstr, web, pdf, Google Scholar)

Twilight zone of protein sequence alignments
B Rost
Protein Engineering, 1999. 12:85-94 (abstr, web, pdf, Google Scholar)

Topology prediction for helical transmembrane proteins at 86% accuracy
B Rost, R Casadio, P Fariselli
Protein Science, 1996. 5:1704-1718 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

PHD: predicting one-dimensional protein structure by profile based neural networks
B Rost
Methods in Enzymology, 1996. 266:525-539 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

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, Google Scholar)

Progress in protein structure prediction?
B Rost, C Sander, R Schneider
Trends in Biochemical Sciences, 1993. 18:120-123 (abstr, pdf, Google Scholar)

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, Google Scholar)

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, Google Scholar)

CASP: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

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, Google Scholar)

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, Google Scholar)

CAFASP3 in the spotlight of EVA
VA Eyrich, IYY Koh, D Przybylski, O Graña, F Pazos, A Valencia, B Rost
Proteins: Structure, Function, and Bioinformatics, 2003. 53 Suppl 6:548-560 (abstr, web, pdf, Google Scholar)

Simple jury predicts protein secondary structure best
B Rost, P Baldi, G Barton, J Cuff, V Eyrich, D Jones, K Karplus, R King, M Ouali, G Pollastri, D Przybylski
CUBIC preprint, 2001. Simple jury predicts protein secondary structure best:5 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

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, Google Scholar)

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, Google Scholar)

Better 1D predictions by experts with machines
B Rost
Proteins: Structure, Function, and Genetics, 1997. Suppl. 1:192-197 (abstr, web, pdf, Google Scholar)

Clustering proteins: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Powerful fusion: PSI-BLAST and consensus sequences
D Przybylski, B Rost
Bioinformatics, 2008. Powerful fusion: PSI-BLAST and consensus sequences:in press (abstr, web, Google Scholar)

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, Google Scholar)

Novel leverage of structural genomics
J Liu, GT Montelione, B Rost
Nature Biotechnology, 2007. Novel leverage of structural genomics:in press (abstr, web, som, Google Scholar)

Improving fold recognition without folds
D Przybylski, B Rost
Journal of Molecular Biology, 2004. 341:255-269 (abstr, web, pdf, Google Scholar)

Sequence-based prediction of protein domains
J Liu, B Rost
Nucleic Acids Research, 2004. 32:3522-3530 (abstr, web, pdf, Google Scholar)

CHOP: parsing proteins into structural domains
J Liu, B Rost
Nucleic Acids Research, 2004. 32:W569-W571 (abstr, web, pdf, Google Scholar)

CHOP proteins into structural domains
J Liu, B Rost
Proteins: Structure, Function, and Bioinformatics, 2004. 55:678-688 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

Domains, motifs, and clusters in the protein universe
J Liu, B Rost
Current Opinion in Chemical Biology, 2003. 7:5-11 (abstr, web, pdf, Google Scholar)

Comparative modelling: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Novel leverage of structural genomics
J Liu, GT Montelione, B Rost
Nature Biotechnology, 2007. Novel leverage of structural genomics:in press (abstr, web, som, Google Scholar)

Outcome of a workshop on archiving structural models of biological macromolecules
HM Berman, et al.
Structure, 2006. 14:1211-1217 (pdf, Google Scholar)

Improving fold recognition without folds
D Przybylski, B Rost
Journal of Molecular Biology, 2004. 341:255-269 (abstr, web, pdf, Google Scholar)

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

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

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, Google Scholar)

Databases: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Powerful fusion: PSI-BLAST and consensus sequences
D Przybylski, B Rost
Bioinformatics, 2008. Powerful fusion: PSI-BLAST and consensus sequences:in press (abstr, web, Google Scholar)

Critical assessment of methods of protein structure prediction-Round VII
J Moult, K Fidelis, A Kryshtafovych, B Rost, T Hubbard, A Tramontano
Proteins, 2007. 69 Suppl 8:3-9

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, Google Scholar)

NMPdb: database of nuclear matrix proteins
S Mika, B Rost
Nucleic Acids Research, 2005. 33:D160-163 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

NLSdb: database of nuclear localization signals
R Nair, P Carter, B Rost
Nucleic Acids Research, 2003. 31:397-399 (abstr, web, Google Scholar)

PEP: Predictions for Entire Proteomes
P Carter, J Liu, B Rost
Nucleic Acids Research, 2003. 31:410-413 (abstr, web, pdf, Google Scholar)

Twilight zone of protein sequence alignments
B Rost
Protein Engineering, 1999. 12:85-94 (abstr, web, pdf, Google Scholar)

Marrying structure and genomics
B Rost
Structure, 1998. 6:259-263 (abstr, web, pdf, Google Scholar)

Disorder: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Natively unstructured regions in proteins identified from contact predictions
A Schlessinger, M Punta, B Rost
Bioinformatics, 2007. 23:2376-2384 (abstr, web, pdf, som, Google Scholar)

Natively unstructured loops differ from other loops
A Schlessinger, J Liu, B Rost
PLoS Computational Biology, 2007. 3:e140 (abstr, web, pdf, som, Google Scholar)

PROFbval: predict flexible and rigid residues in proteins
A Schlessinger, G Yachdav, B Rost
Bioinformatics, 2006. 22:891-893 (abstr, web, pdf, som, Google Scholar)

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

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

Loopy proteins appear conserved in evolution
J Liu, H Tan, B Rost
Journal of Molecular Biology, 2002. 322:53-64 (abstr, web, pdf, Google Scholar)

Editorial: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

ISMB 2008 Toronoto
M Linial, JP Mesirov, B Morrison McKay, B Rost
PLoS Computational Biology, 2008. 4:e1000094 (abstr, web, Google Scholar)

ISMB/ECCB 2007: The premier conference on computational biology
T Lengauer, B Morrison McKay, B Rost
PLoS Computational Biology, 2007. 3:e96 (pdf, Google Scholar)

ISMB/ECCB 2007
T Lengauer, B Rost, P Schuster
Bioinformatics, 2007. 23:i1-i4 (pdf, Google Scholar)

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, Google Scholar)

ISMB 2005
HV Jagadish, D States, B Rost
Bioinformatics, 2005. 21 Suppl 1:i1-i2 (pdf, Google Scholar)

AI and Bioinformatics
J Glasgow, I Jurisica, B Rost
AI Magazine, 2004. 25:7-8

Bioinformatics in structural genomics
B Rost, B Honig, A Valencia
Bioinformatics, 2002. 18:897 (abstr, web, pdf, Google Scholar)

Ismb 2002
J Glasgow, B Rost
Bioinformatics, 2002. 18:S1 (pdf, Google Scholar)

Evaluation of prediction methods: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Predicting simplified features of protein structure
D Przybylski, B Rost
in: 'Bioinformatics – From Genomes to Therapies' (eds. T Lengauer), 2008. : WeinheimPredicting simplified features of protein structure:in press (abstr, web, Google Scholar)

Predicting protein subcellular localization using intelligent systems
R Nair, B Rost
Methods Mol Biol, 2008. 484:435-463 (abstr, web, Google Scholar)

Critical assessment of methods of protein structure prediction-Round VII
J Moult, K Fidelis, A Kryshtafovych, B Rost, T Hubbard, A Tramontano
Proteins, 2007. 69 Suppl 8:3-9

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, Google Scholar)

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

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, Google Scholar)

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, Google Scholar)

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, Google Scholar)

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

Enzyme function less conserved than anticipated
B Rost
Journal of Molecular Biology, 2002. 318:595-608 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

Transmembrane helix predictions revisited
CP Chen, A Kernytsky, B Rost
Protein Science, 2002. 11:2774-2791 (abstr, web, pdf, Google Scholar)

State-of-the-art in membrane prediction
CP Chen, B Rost
Applied Bioinformatics, 2002. 1:21-35 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

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, Google Scholar)

EVA: continuous automatic evaluation of protein structure prediction servers
V Eyrich, MA Martí-Renom, D Przybylski, A Fiser, F Pazos, A Valencia, A Sali, B Rost
Bioinformatics, 2001. 17:1242-1243 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

Protein fold recognition by prediction-based threading
B Rost, R Schneider, C Sander
Journal of Molecular Biology, 1997. 270:471-480 (abstr, web, pdf, Google Scholar)

Progress of 1D protein structure prediction at last
B Rost, C Sander
Proteins: Structure, Function, and Genetics, 1995. 23:295-300 (abstr, pdf, Google Scholar)

Redefining the goals of protein secondary structure prediction
B Rost, C Sander, R Schneider
Journal of Molecular Biology, 1994. 235:13-26 (abstr, pdf, Google Scholar)

Evolution: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Natively unstructured regions in proteins identified from contact predictions
A Schlessinger, M Punta, B Rost
Bioinformatics, 2007. 23:2376-2384 (abstr, web, pdf, som, Google Scholar)

Natively unstructured loops differ from other loops
A Schlessinger, J Liu, B Rost
PLoS Computational Biology, 2007. 3:e140 (abstr, web, pdf, som, Google Scholar)

Protein-protein interaction hot spots carved into sequences
Y Ofran, B Rost
PLoS Computational Biology, 2007. 3:e119 (abstr, web, pdf, Google Scholar)

Prediction of DNA-binding residues from sequence
Y Ofran, V Mysore, B Rost
Bioinformatics, 2007. 23:i347-i353 (abstr, web, pdf, Google Scholar)

ISIS: Interaction Sites Identified from Sequence
Y Ofran, B Rost
Bioinformatics, 2007. 23:e13-16 (abstr, web, pdf, Google Scholar)

SNAP: predict effect of non-synonymous polymorphisms on function
Y Bromberg, B Rost
Nucleic Acids Research, 2007. 35:3823-3835 (abstr, web, pdf, Google Scholar)

PROFbval: predict flexible and rigid residues in proteins
A Schlessinger, G Yachdav, B Rost
Bioinformatics, 2006. 22:891-893 (abstr, web, pdf, som, Google Scholar)

Protein–protein interactions more conserved within species than across species
S Mika, B Rost
PLoS Computational Biology, 2006. 2:e79 (abstr, web, pdf, som, Google Scholar)

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

PROFcon: novel prediction of long-range contacts
M Punta, B Rost
Bioinformatics, 2005. 21:2960-2968 (abstr, web, pdf, Google Scholar)

Mimicking cellular sorting improves prediction of subcellular localization
R Nair, B Rost
Journal of Molecular Biology, 2005. 348:85-100 (abstr, web, pdf, Google Scholar)

LOCnet and LOCtarget: Sub-cellular localization for structural genomics targets
R Nair, B Rost
Nucleic Acids Research, 2004. 32:W517-W521 (abstr, web, pdf, Google Scholar)

Annotating protein function through lexical analysis
R Nair, B Rost
AI Magazine, 2004. 25:45-56 (abstr, web, Google Scholar)

Sequence-based prediction of protein domains
J Liu, B Rost
Nucleic Acids Research, 2004. 32:3522-3530 (abstr, web, pdf, Google Scholar)

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

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, Google Scholar)

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, Google Scholar)

Sequence conserved for sub-cellular localization
R Nair, B Rost
Protein Science, 2002. 11:2836-2847 (abstr, web, pdf, Google Scholar)

Protein structures sustain evolutionary drift
B Rost
Folding & Design, 1997. 2:S19-S24 (abstr, web, pdf, Google Scholar)

Topology prediction for helical transmembrane proteins at 86% accuracy
B Rost, R Casadio, P Fariselli
Protein Science, 1996. 5:1704-1718 (abstr, web, pdf, Google Scholar)

Progress in protein structure prediction?
B Rost, C Sander, R Schneider
Trends in Biochemical Sciences, 1993. 18:120-123 (abstr, pdf, Google Scholar)

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, Google Scholar)

Experimental structure: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

NMR structure of the peptidyl-tRNA hydrolase domain from Pseudomonas syringae expands the structural coverage of the hydrolysis domains of class 1 peptide chain release factors
KK Singarapu, R Xiao, T Acton, B Rost, GT Montelione, T Szyperski
Proteins: Structure, Function, and Bioinformatics, 2008. 71:1027-1031 (pdf, Google Scholar)

Solution NMR structure of the SOS response protein YnzC from Bacillus subtilis
JM Aramini, S Sharma, YJ Huang, GV Swapna, CK Ho, K Shetty, K Cunningham, LC Ma, L Zhao, LA Owens, M Jiang, R Xiao, J Liu, MC Baran, TB Acton, B Rost, GT Montelione
Proteins: Structure, Function, and Genetics, 2008. 72:526-530 (pdf, Google Scholar)

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, Google Scholar)

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, Google Scholar)

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, Google Scholar)

Flexibility: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Protein conformational flexibility prediction using machine learning
O Trott, K Siggers, B Rost, AG Palmer, 3rd
J Magn Reson, 2008. 192:37-47 (pdf, Google Scholar)

Secondary structure assignment
CAF Andersen, B Rost
Methods Biochem Anal., 2008. Secondary structure assignment:in press (abstr, web, Google Scholar)

PROFbval: predict flexible and rigid residues in proteins
A Schlessinger, G Yachdav, B Rost
Bioinformatics, 2006. 22:891-893 (abstr, web, pdf, som, Google Scholar)

The PredictProtein server
B Rost, J Liu
Nucleic Acids Research, 2003. 31:3300-3304 (abstr, web, pdf, Google Scholar)

DSSPcont: continuous secondary structure assignments for proteins
P Carter, CAF Andersen, B Rost
Nucleic Acids Research, 2003. 31:3293-3295 (abstr, web, pdf, Google Scholar)

Automatic secondary structure assignment
CAF Andersen, B Rost
Methods Biochem Anal., 2003. 44:341-363 (abstr, web, Google Scholar)

Continuum secondary structure captures protein flexibility
CAF Andersen, AG Palmer, S Brunak, B Rost
Structure, 2002. 10:175-184 (abstr, web, pdf, Google Scholar)

Genomics predictions: abstr=Abstract, www=paper in HTML, pdf=paper in PDF, som=Supporting online material

Secondary structure assignment
CAF Andersen, B Rost
Methods Biochem Anal., 2008. Secondary structure assignment:in press (abstr, web, Google Scholar)