Schaefer, C. and Meier, A. and Rost, B. and Bromberg, Y. (2012). SNPdbe: constructing an nsSNP functional impacts database. Bioinformatics. 28 (4), 601-2. [Abstract] [BibTex]

2011

Y. Yang and T. A. Ramelot and J. R. Cort and D. Wang and C. Ciccosanti and K. Hamilton and R. Nair and B. Rost and T. B. Acton and R. Xiao and J. K. Everett and G. T. Montelione and M. A. Kennedy (2011). Solution NMR structure of photosystem II reaction center protein Psb28 from Synechocystis sp. Strain PCC 6803. Proteins. 79 (1), 340-4. [www] [BibTex]
Avner Schlessinger and Christian Schaefer and Esmeralda Vicedo and Markus Schmidberger and Marco Punta and Burkhard Rost (2011). Protein disorder - a breakthrough invention of evolution?. Current Opinion in Structural Biology. in press. [BibTex]
S. Rastogi and B. Rost (2011). LocDB: experimental annotations of localization for Homo sapiens and Arabidopsis thaliana. Nucleic Acids Research. 39 (Database issue), D230-4. [Abstract] [www] [BibTex]
R. H. Lathrop and B. Rost (2011). ISCB public policy statement on open access to scientific and technical research literature. Bioinformatics. 27 (3), 291-4. [www] [BibTex]
R. H. Lathrop and B. Rost (2011). ISCB Public Policy Statement on Open Access to Scientific and Technical Research Literature. PLoS Computational Biology. 7 (2), e1002014. [www] [BibTex]
Y. Cao and X. Jin and E. J. Levin and H. Huang and Y. Zong and M. Quick and J. Weng and Y. Pan and J. Love and M. Punta and B. Rost and W. A. Hendrickson and J. A. Javitch and K. R. Rajashankar and M. Zhou (2011). Crystal structure of a phosphorylation-coupled saccharide transporter. Nature. 473 (7345), 50-4. [Abstract] [www] [BibTex]
Y. Cao and X. Jin and H. Huang and M. G. Derebe and E. J. Levin and V. Kabaleeswaran and Y. Pan and M. Punta and J. Love and J. Weng and M. Quick and S. Ye and B. Kloss and R. Bruni and E. Martinez-Hackert and W. A. Hendrickson and B. Rost and J. A. Javitch and K. R. Rajashankar and Y. Jiang and M. Zhou (2011). Crystal structure of a potassium ion transporter, TrkH. Nature. 471 (7338), 336-40. [Abstract] [www] [BibTex]
M. N. Offman and M. Krol and B. Rost and I. Silman and J. L. Sussman and A. H. Futerman (2011). Comparison of a molecular dynamics model with the X-ray structure of the N370S acid-beta-glucosidase mutant that causes Gaucher disease. Protein engineering, design & selection : PEDS. 24 (10), 773-5. [Abstract] [www] [BibTex]
C. Schaefer and A. Meier and B. Rost and Y. Bromberg (2011). SNPdbe: Constructing an nsSNP functional impacts database. Bioinformatics. [Abstract] [www] [BibTex]
W. Shi and M. Punta and J. Bohon and J. M. Sauder and R. D'Mello and M. Sullivan and J. Toomey and D. Abel and M. Lippi and A. Passerini and P. Frasconi and S. K. Burley and B. Rost and M. R. Chance (2011). Characterization of metalloproteins by high-throughput X-ray absorption spectroscopy. Genome research. 21 (6), 898-907. [Abstract] [www] [BibTex]
A. Zimprich and A. Benet-Pages and W. Struhal and E. Graf and S. H. Eck and M. N. Offman and D. Haubenberger and S. Spielberger and E. C. Schulte and P. Lichtner and S. C. Rossle and N. Klopp and E. Wolf and K. Seppi and W. Pirker and S. Presslauer and B. Mollenhauer and R. Katzenschlager and T. Foki and C. Hotzy and E. Reinthaler and A. Harutyunyan and R. Kralovics and A. Peters and F. Zimprich and T. Brucke and W. Poewe and E. Auff and C. Trenkwalder and B. Rost and G. Ransmayr and J. Winkelmann and T. Meitinger and T. M. Strom (2011). A mutation in VPS35, encoding a subunit of the retromer complex, causes late-onset Parkinson disease. American journal of human genetics. 89 (1), 168-75. [Abstract] [www] [BibTex]

2010

G. Wainreb and H. Ashkenazy and Y. Bromberg and A. Starovolsky-Shitrit and T. Haliloglu and E. Ruppin and K. B. Avraham and B. Rost and N. Ben-Tal (2010). MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data. Nucleic Acids Res. 38 (Web Server issue), W523-8. [Abstract] [www] [BibTex]
Y. Tang and R. Xiao and C. Ciccosanti and H. Janjua and D. Y. Lee and J. K. Everett and G. V. Swapna and T. B. Acton and B. Rost and G. T. Montelione (2010). Solution NMR structure of Lin0431 protein from Listeria innocua reveals high structural similarity with domain II of bacterial transcription antitermination protein NusG. Proteins. 78 (11), 2563-8. [www] [BibTex]
K. K. Singarapu and J. L. Mills and R. Xiao and T. Acton and M. Punta and M. Fischer and B. Honig and B. Rost and G. T. Montelione and T. Szyperski (2010). Solution NMR structures of proteins VPA0419 from Vibrio parahaemolyticus and yiiS from Shigella flexneri provide structural coverage for protein domain family PFAM 04175. Proteins. 78 (3), 779-84. [www] [BibTex]
C. Schaefer and A. Schlessinger and B. Rost (2010). Protein secondary structure appears to be robust under in silico evolution while protein disorder appears not to be. Bioinformatics. 26 (5), 625-631. [Abstract] [www] [BibTex]
B. R. Rost and J. Breustedt and A. Schoenherr and G. Grosse and G. Ahnert-Hilger and D. Schmitz (2010). Autaptic cultures of single hippocampal granule cells of mice and rats. The European journal of neuroscience. 32 (6), 939-47. [Abstract] [www] [BibTex]
S. Rastogi and B. Rost (2010). Bioinformatics predictions of localization and targeting. Methods in Molecular Biology. 619 285-305. [Abstract] [www] [BibTex]
J. Love and F. Mancia and L. Shapiro and M. Punta and B. Rost and M. Girvin and D. N. Wang and M. Zhou and J. F. Hunt and T. Szyperski and E. Gouaux and R. MacKinnon and A. McDermott and B. Honig and M. Inouye and G. Montelione and W. A. Hendrickson (2010). The New York Consortium on Membrane Protein Structure (NYCOMPS): a high-throughput platform for structural genomics of integral membrane proteins. Journal of structural and functional genomics. 11 (3), 191-9. [Abstract] [www] [BibTex]
Y. H. Chen and L. Hu and M. Punta and R. Bruni and B. Hillerich and B. Kloss and B. Rost and J. Love and S. A. Siegelbaum and W. A. Hendrickson (2010). Homologue structure of the SLAC1 anion channel for closing stomata in leaves. Nature. 467 (7319), 1074-80. [Abstract] [www] [BibTex]
J. M. Aramini and J. L. Tubbs and S. Kanugula and P. Rossi and A. Ertekin and M. Maglaqui and K. Hamilton and C. T. Ciccosanti and M. Jiang and R. Xiao and T. T. Soong and B. Rost and T. B. Acton and J. K. Everett and A. E. Pegg and J. A. Tainer and G. T. Montelione (2010). Structural basis of O6-alkylguanine recognition by a bacterial alkyltransferase-like DNA repair protein. The Journal of biological chemistry. 285 (18), 13736-41. [Abstract] [www] [BibTex]

2009

Ta-Tsen Soong and Burkhard Rost (2009). New goldmines for protein structure determination are difficult to find. PLoS Computational Biology. to be submitted. [BibTex]
Avner Schlessinger and Marco Punta and Guy Yachdav and Laszlo Kajan and Burkhard Rost (2009). Improved disorder prediction by combination of orthogonal approaches. PLoS ONE. 4 (2), e4433. [Abstract] [www] [BibTex]
P. Rossi and J. M. Aramini and R. Xiao and C. X. Chen and C. Nwosu and L. A. Owens and M. Maglaqui and R. Nair and M. Fischer and T. B. Acton and B. Honig and B. Rost and G. T. Montelione (2009). Structural elucidation of the Cys-His-Glu-Asn proteolytic relay in the secreted CHAP domain enzyme from the human pathogen Staphylococcus saprophyticus. Proteins. 74 (2), 515-519. [www] [BibTex]
Marco Punta and Ta-tsen Soong and Rajesh Nair and Jinfeng Liu and Thomas B. Acton and John Everett and James Love and Christine Orengo and Andras Fiser and Adam Godzik and Gaetano T. Montelione and Burkhard Rost (2009). How can 92 prokaryotes be representative and still not cover the largest protein families?. Journal of Structural and Functional Genomics. to submit. [www] [BibTex]
Marco Punta and James Love and Sam Handelman and John F. Hunt and Larry Shapiro and Wayne A. Hendrickson and Burkhard Rost (2009). Structural genomics target selection for the New York consortium on membrane protein structure. Journal of Structural and Functional Genomics. in press. [Abstract] [www] [BibTex]
W. N., 2nd Price and Y. Chen and S. K. Handelman and H. Neely and P. Manor and R. Karlin and R. Nair and J. Liu and M. Baran and J. Everett and S. N. Tong and F. Forouhar and S. S. Swaminathan and T. Acton and R. Xiao and J. R. Luft and A. Laurlcella and G. T. DeTitta and B. Rost and G. T. Montelione and J. F. Hunt (2009). Understanding the physical properties that control protein crystallization by analysis of large-scale experimental data. Nature Biotechnology. 27 (1), 51-57. [Abstract] [www] [BibTex]
Rajesh Nair and Jinfeng Liu and Ta-tsen Soong and Thomas B. Acton and John Everett and Andrei Kouranov and Andras Fiser and Adam Godzik and Lukasz Jaroszewski and Christine Orengo and Gaetano T. Montelione and Burkhard Rost (2009). Structural genomics is the largest contributor of novel structural leverage. Journal of Structural and Functional Genomics. 10 (2), 181-191. [Abstract] [www] [BibTex]
J. Moult and K. Fidelis and A. Kryshtafovych and B. Rost and A. Tramontano (2009). Critical assessment of methods of protein structure prediction-Round VIII. Proteins. 77 (S9), 1-4. [Abstract] [www] [BibTex]
G. Liu and F. Forouhar and A. Eletsky and H. S. Atreya and J. M. Aramini and R. Xiao and Y. J. Huang and M. Abashidze and J. Seetharaman and J. Liu and B. Rost and T. Acton and G. T. Montelione and J. F. Hunt and T. Szyperski (2009). NMR and X-RAY structures of human E2-like ubiquitin-fold modifier conjugating enzyme 1 (UFC1) reveal structural and functional conservation in the metazoan UFM1-UBA5-UFC1 ubiquination pathway. J Struct Funct Genomics. in press. [Abstract] [www] [BibTex]
Andrew Kernytsky and Burkhard Rost (2009). Using genetic algorithms to select most predictive protein features. Proteins: Structure, Function, and Bionformatics. 75 (1), 75-88. [Abstract] [www] [BibTex]
C. A. Galea and A. A. High and J. C. Obenauer and A. Mishra and C. G. Park and M. Punta and A. Schlessinger and J. Ma and B. Rost and C. A. Slaughter and R. W. Kriwacki (2009). Large-Scale analysis of thermostable, mammalian proteins provides insights into the intrinsically disordered proteome. J Proteome Res. 8 (1), 211-226. [Abstract] [www] [BibTex]
A. Eletsky and D. K. Sukumaran and R. Xiao and T. B. Acton and B. Rost and G. T. Montelione and T. Szyperski (2009). NMR structure of protein YvyC from Bacillus subtilis reveals unexpected structural similarity between two PFAM families. Proteins. 76 (4), 1037-1041. [www] [BibTex]
B. H. Dessailly and R. Nair and L. Jaroszewski and J. E. Fajardo and A. Kouranov and D. Lee and A. Fiser and A. Godzik and B. Rost and C. Orengo (2009). PSI-2: Structural genomics to cover protein domain family space. Structure. 17 (6), 869-881. [Abstract] [www] [BibTex]
D. Cozzetto and A. Kryshtafovych and K. Fidelis and J. Moult and B. Rost and A. Tramontano (2009). Evaluation of template-based models in CASP8 with standard measures. Proteins. 77 (S9), 18-28. [Abstract] [www] [BibTex]
Yana Bromberg and Guy Yachdav and Yanay Ofran and Reinhard Schneider and Burkhard Rost (2009). New in protein structure and function annotation: hotspots, single nucleotide polymorphisms and the 'Deep Web'. Current Opinion in Drug Discovery & Development. 12 (3), 408-419. [Abstract] [www] [BibTex]
Y. Bromberg and B. Rost (2009). Correlating protein function and stability through the analysis of single amino acid substitutions. BMC Bioinformatics. 10 Suppl 8 S8. [Abstract] [www] [BibTex]
Yana Bromberg and John Overton and Christian Vaisse and Rudolph L. Leibel and Burkhard Rost (2009). In silico mutagenesis: a case study of the melanocortin 4 receptor. FASEB Journal. 23 (9), 3059-3069. [Abstract] [www] [BibTex]
Henry Bigelow and Burkhard Rost (2009). Online tools for predicting integral membrane proteins. Methods Mol Biol. 528 3-23. [Abstract] [www] [BibTex]
Claudia Bertonati and Marco Punta and Markus Fischer and Guy Yachdav and Farhad Forouhar and Weihong Zhou and Alexander P. Kuzin and Jayaraman Seetharaman and Mariam Abashidze and Theresa A. Ramelot and Michael A. Kennedy and John R. Cort and Adam Belachew and John F. Hunt and Liam Tong and Gaetano T. Montelione and Burkhard Rost (2009). Structural genomics reveals EVE as a new ASCH/PUA-related domain. Proteins: Structure, Function, and Bionformatics. 75 (3), 760-773. [Abstract] [www] [BibTex]

2008

Kazimierz O. Wrzeszczynski and Burkhard Rost (2008). Cell cycle kinases predicted from conserved biophysical properties. Proteins: Structure, Function, and Bionformatics. 74 (3), 655-668. [Abstract] [www] [BibTex]
O. Trott and K. Siggers and B. Rost and A. G., 3rd Palmer (2008). Protein conformational flexibility prediction using machine learning. J Magn Reson. 192 (1), 37-47. [Abstract] [www] [BibTex]
Ta-tsen Soong and Kazimierz O. Wrzeszczynski and Burkhard Rost (2008). Physical protein-protein interactions predicted from microarrays. Bioinformatics. 15 2608-2614. [Abstract] [BibTex]
K. K. Singarapu and R. Xiao and T. Acton and B. Rost and G. T. Montelione and T. Szyperski (2008). 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. Proteins: Structure, Function, and Bionformatics. 71 (2), 1027-1031. [www] [BibTex]
Avner Schlessinger and Jinfeng Liu and Kazimierz O. Wrzeszczynski and Burkhard Rost (2008). Comparative proteomics analysis underlines the importance of protein disorder. Journal of Molecular Biology. submitted Aug 2008; revised. [www] [BibTex]
Burkhard Rost (2008). Prediction of protein structure in 1D: secondary structure, membrane regions, and solvent accessibility. 681-716. [www] [BibTex]
Marco Punta and Burkhard Rost (2008). Neural networks predict protein structure and function. Methods Mol Biol. 458 203-230. [Abstract] [www] [BibTex]
Dariusz Przybylski and Burkhard Rost (2008). Powerful fusion: PSI-BLAST and consensus sequences. Bioinformatics. 24 (18), 1987-1993. [Abstract] [www] [BibTex]
Dariusz Przybylski and Burkhard Rost (2008). Predicting simplified features of protein structure. in press. [www] [BibTex]
Yanay Ofran and Avner Schlessinger and Burkhard Rost (2008). Automated identification of Complementarity Determining Regions (CDRs) reveals peculiar characteristics of CDRs and B cell epitopes. Journal of Immunology. 181 (9), 6230-6235. [Abstract] [www] [BibTex]
R. Nair and B. Rost (2008). Protein subcellular localization prediction using artificial intelligence technology. Methods Mol Biol. 484 435-63. [Abstract] [www] [BibTex]
Rajesh Nair and Burkhard Rost (2008). Predicting protein subcellular localization using intelligent systems. Methods Mol Biol. 484 435-463. [Abstract] [www] [BibTex]
M. Lippi and A. Passerini and M. Punta and B. Rost and P. Frasconi (2008). MetalDetector: a web server for predicting metal-binding sites and disulfide bridges in proteins from sequence. Bioinformatics. 24 (18), 2094-5. [Abstract] [www] [BibTex]
M. Linial and J. P. Mesirov and B. J. {Morrison McKay} and B. Rost (2008). ISMB 2008 Toronto. PLoS Computational Biology. 4 (6), e1000094. [www] [BibTex]
Yana Bromberg and Guy Yachdav and Burkhard Rost (2008). SNAP predicts effect of mutations on protein function. Bioinformatics. 24 2397-2398. [Abstract] [www] [BibTex]
Yana Bromberg and Burkhard Rost (2008). Comprehensive in silico mutagenesis highlights functionally important residues in proteins. Bioinformatics. 24 (ECCB Proceedings), i207-i212. [Abstract] [www] [BibTex]
J. M. Aramini and S. Sharma and Y. J. Huang and G. V. Swapna and C. K. Ho and K. Shetty and K. Cunningham and L. C. Ma and L. Zhao and L. A. Owens and M. Jiang and R. Xiao and J. Liu and M. C. Baran and T. B. Acton and B. Rost and G. T. Montelione (2008). Solution NMR structure of the SOS response protein YnzC from Bacillus subtilis. Proteins: Structure, Function, and Genetics. 72 (1), 526-530. [www] [BibTex]
J. M. Aramini and P. Rossi and Y. J. Huang and L. Zhao and M. Jiang and M. Maglaqui and R. Xiao and J. Locke and R. Nair and B. Rost and T. B. Acton and M. Inouye and G. T. Montelione (2008). Solution NMR structure of the NlpC/P60 domain of lipoprotein Spr from Escherichia coli: structural evidence for a novel cysteine peptidase catalytic triad. Biochemistry. 47 (37), 9715-7. [Abstract] [www] [BibTex]
Claus A. F. Andersen and Burkhard Rost (2008). Secondary structure assignment. Methods Biochem Anal.. 459-486. [www] [BibTex]

2007

Avner Schlessinger and Marco Punta and Burkhard Rost (2007). Natively unstructured regions in proteins identified from contact predictions. Bioinformatics. 23 (18), 2376-2384. [Abstract] [www] [BibTex]
Avner Schlessinger and Jinfeng Liu and Burkhard Rost (2007). Natively unstructured loops differ from other loops. PLoS Computational Biology. 3 (7), e140. [Abstract] [www] [BibTex]
Marco Punta and Lucy R. Forrest and Henry Bigelow and Andrew Kernytsky and Jinfeng Liu and Burkhard Rost (2007). Membrane protein prediction methods. Methods. 41 (4), 460-474. [Abstract] [www] [BibTex]
Dariusz Przybylski and Burkhard Rost (2007). Consensus sequences improve PSI-BLAST through mimicking profile-profile alignments. Nucleic Acids Research. 35 (7), 2238-2246. [Abstract] [www] [BibTex]
Yanay Ofran and Burkhard Rost (2007). ISIS: Interaction Sites Identified from Sequence. Bioinformatics. 23 (2), e13-16. [Abstract] [www] [BibTex]
Yanay Ofran and Burkhard Rost (2007). Protein-protein interaction hot spots carved into sequences. PLoS Computational Biology. 3 (7), e119. [Abstract] [www] [BibTex]
Yanay Ofran and Venkatesh Mysore and Burkhard Rost (2007). Prediction of DNA-binding residues from sequence. Bioinformatics. 23 (13), i347-353. [Abstract] [www] [BibTex]
J. Moult and K. Fidelis and A. Kryshtafovych and B. Rost and T. Hubbard and A. Tramontano (2007). Critical assessment of methods of protein structure prediction-Round VII. Proteins. 69 Suppl 8 3-9. [Abstract] [www] [BibTex]
Jinfeng Liu and Gaetano T. Montelione and Burkhard Rost (2007). Novel leverage of structural genomics. Nature Biotechnology. 25 849-851. [www] [BibTex]
Thomas Lengauer and Burkhard Rost and Peter Schuster (2007). ISMB/ECCB 2007. Bioinformatics. 23 i1-i4. [www] [BibTex]
Thomas Lengauer and BJ {Morrison McKay} and Burkhard Rost (2007). ISMB/ECCB 2007: The premier conference on computational biology. PLoS Computational Biology. 3 (5), e96. [www] [BibTex]
Yana Bromberg and Burkhard Rost (2007). SNAP: predict effect of non-synonymous polymorphisms on function. Nucleic Acids Research. 35 (11), 3823-3835. [Abstract] [www] [BibTex]
J. M. Aramini and Y. J. Huang and G. V. Swapna and J. R. Cort and P. K. Rajan and R. Xiao and R. Shastry and T. B. Acton and J. Liu and B. Rost and M. A. Kennedy and G. T. Montelione (2007). Solution NMR structure of Escherichia coli ytfP expands the structural coverage of the UPF0131 protein domain family. Proteins. 68 (3), 789-95. [www] [BibTex]

2006

Avner Schlessinger and Guy Yachdav and Burkhard Rost (2006). PROFbval: predict flexible and rigid residues in proteins. Bioinformatics. 22 891-893. [Abstract] [www] [BibTex]
Avner Schlessinger and Yanay Ofran and Guy Yachdav and Burkhard Rost (2006). Epitome: Database of structure-inferred antigenic epitopes. Nucleic Acids Research. 34 D777-780. [Abstract] [www] [BibTex]
A. Passerini and M. Punta and A. Ceroni and B. Rost and P. Frasconi (2006). Identifying cysteines and histidines in transition-metal-binding sites using support vector machines and neural networks. Proteins: Structure, Function, and Bioinformatics. 65 (2), 305-316. [Abstract] [www] [BibTex]
Yanay Ofran and Guy Yachdav and Eyal Mozes and Ta-tsen Soong and Rajesh Nair and Burkhard Rost (2006). Create and assess protein networks through molecular characteristics of individual proteins. Bioinformatics. 22 (12), e402-7. [Abstract] [www] [BibTex]
Sven Mika and Burkhard Rost (2006). Protein--protein interactions more conserved within species than across species. PLoS Computational Biology. 2 (7), e79. [Abstract] [www] [BibTex]
Jinfeng Liu and Julian Gough and Burkhard Rost (2006). Distinguishing protein-coding from non-coding RNAs through support vector machines. PLoS Genetics. 2 (4), e29; DOI: 10.1371/journal.pgen.0020029. [Abstract] [www] [BibTex]
N. J. Krogan and G. Cagney and H. Yu and G. Zhong and X. Guo and A. Ignatchenko and J. Li and S. Pu and N. Datta and A. P. Tikuisis and T. Punna and J. M. Peregrin-Alvarez and M. Shales and X. Zhang and M. Davey and M. D. Robinson and A. Paccanaro and J. E. Bray and A. Sheung and B. Beattie and D. P. Richards and V. Canadien and A. Lalev and F. Mena and P. Wong and A. Starostine and M. M. Canete and J. Vlasblom and S. Wu and C. Orsi and S. R. Collins and S. Chandran and R. Haw and J. J. Rilstone and K. Gandi and N. J. Thompson and G. Musso and P. {St Onge} and S. Ghanny and M. H. Lam and G. Butland and A. M. Altaf-Ul and S. Kanaya and A. Shilatifard and E. O'Shea and J. S. Weissman and C. J. Ingles and T. R. Hughes and J. Parkinson and M. Gerstein and S. J. Wodak and A. Emili and J. F. Greenblatt (2006). Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature. 440 (7084), 637-43. [Abstract] [www] [BibTex]
Nevan J. Krogan and Gerard Cagney and Haiyuan Yu and Gouqing Zhong and Xinghua Guo and Alexandr Ignatchenko and Joyce Li and Shuye Pu and Nira Datta and Aaron P. Tikuisis and Thanuja Punna and Jos\~A\copyright{} M. Peregr\~A\-n-Alvarez and Michael Shales and Xin Zhang and Michael Davey and Mark D. Robinson and Alberto Paccanaro and James E. Bray and Anthony Sheung and Bryan Beattie and Dawn P. Richards and Veronica Canadien and Atanas Lalev and Frank Mena and Peter Wong and Andrei Starostine and Myra M. Canete and James Vlasblom and Samuel Wu and Chris Orsi and Sean R. Collins and Shamanta Chandran and Robin Haw and Jennifer J. Rilstone and Kiran Gandi and Natalie J. Thompson and Gabe Musso and Peter {St Onge} and Shaun Ghanny and Mandy H. Y. Lam and Gareth Butland and Amin M. Altaf-Ul and Shigehiko Kanaya and Ali Shilatifard and Erin O'Shea and Jonathan S. Weissman and C. James Ingles and Timothy R. Hughes and John Parkinson and Mark Gerstein and Shoshana J. Wodak and Andrew Emili and Jack F. Greenblatt (2006). Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature. 440 (7084), 637-643. [www] [BibTex]
Yana Bromberg and Burkhard Rost (2006). mlNODS: Split machine learning data sets using graphs. submitted 2006_03_20. [www] [BibTex]
Henry Bigelow and Burkhard Rost (2006). PROFtmb: a web server for predicting bacterial transmembrane beta barrel proteins. Nucleic Acids Research. 34 (Web Server issue), W186-188. [Abstract] [www] [BibTex]
H. M. Berman and S. K. Burley and W. Chiu and A. Sali and A. Adzhubei and P. E. Bourne and S. H. Bryant and R. L., Jr. Dunbrack and K. Fidelis and J. Frank and A. Godzik and K. Henrick and A. Joachimiak and B. Heymann and D. Jones and J. L. Markley and J. Moult and G. T. Montelione and C. Orengo and M. G. Rossmann and B. Rost and H. Saibil and T. Schwede and D. M. Standley and J. D. Westbrook (2006). Outcome of a workshop on archiving structural models of biological macromolecules. Structure. 14 (8), 1211-7. [www] [BibTex]

2005

D. A. Snyder and Y. Chen and N. G. Denissova and T. Acton and J. M. Aramini and M. Ciano and R. Karlin and J. Liu and P. Manor and P. A. Rajan and P. Rossi and G. V. Swapna and R. Xiao and B. Rost and J. Hunt and G. T. Montelione (2005). Comparisons of NMR spectral quality and success in crystallization demonstrate that NMR and X-ray crystallography are complementary methods for small protein structure determination. J Am Chem Soc. 127 (47), 16505-11. [Abstract] [www] [BibTex]
Avner Schlessinger and Burkhard Rost (2005). Protein flexibility and rigidity predicted from sequence. Proteins: Structure, Function, and Bioinformatics. 61 (1), 115-126. [Abstract] [www] [BibTex]
Burkhard Rost (2005). How to use protein 1D structure predicted by PROFphd. 875-901. [www] [BibTex]
Marco Punta and Burkhard Rost (2005). Protein folding rates estimated from contact predictions. Journal of Molecular Biology. 348 (3), 507-512. [Abstract] [www] [BibTex]
Marco Punta and Burkhard Rost (2005). PROFcon: novel prediction of long-range contacts. Bioinformatics. 21 (13), 2960-2968. [Abstract] [www] [BibTex]
R. Powers and N. Mirkovic and S. Goldsmith-Fischman and T. B. Acton and Y. Chiang and Y. J. Huang and L. Ma and P. K. Rajan and J. R. Cort and M. A. Kennedy and J. Liu and B. Rost and B. Honig and D. Murray and G. T. Montelione (2005). Solution structure of Archaeglobus fulgidis peptidyl-tRNA hydrolase (Pth2) provides evidence for an extensive conserved family of Pth2 enzymes in archea, bacteria, and eukaryotes. Protein Science. 14 (11), 2849-61. [Abstract] [www] [BibTex]
Yanay Ofran and Burkhard Rost (2005). Predictive methods using protein sequence. 197-222. [www] [BibTex]
Yanay Ofran and Marco Punta and Reinhard Schneider and Burkhard Rost (2005). Beyond annotation transfer by homology: novel protein-function prediction methods to assist drug discovery. Drug Discovery Today. 10 (21), 1475-1482. [Abstract] [www] [BibTex]
Rajesh Nair and Burkhard Rost (2005). Mimicking cellular sorting improves prediction of subcellular localization. Journal of Molecular Biology. 348 (1), 85-100. [Abstract] [www] [BibTex]
J. Moult and K. Fidelis and B. Rost and T. Hubbard and A. Tramontano (2005). Critical assessment of methods of protein structure prediction (CASP)-Round 6. Proteins. 61 (S7), 3-7. [Abstract] [www] [BibTex]
Sven Mika and Burkhard Rost (2005). NMPdb: database of nuclear matrix proteins. Nucleic Acids Research. 33 (Database issue), D160-163. [Abstract] [www] [BibTex]
H. V. Jagadish and D. States and B. Rost (2005). ISMB 2005. Bioinformatics. 21 Suppl 1 i1-i2. [www] [BibTex]
O. Grana and V. A. Eyrich and F. Pazos and B. Rost and A. Valencia (2005). EVAcon: a protein contact prediction evaluation service. Nucleic Acids Res. 33 (Web Server issue), W347-51. [Abstract] [www] [BibTex]
O. Grana and D. Baker and R. M. Maccallum and J. Meiler and M. Punta and B. Rost and M. L. Tress and A. Valencia (2005). CASP6 assessment of contact prediction. Proteins. 61 (S7), 214-224. [Abstract] [www] [BibTex]
J. T. Eppig and C. J. Bult and J. A. Kadin and J. E. Richardson and J. A. Blake and A. Anagnostopoulos and R. M. Baldarelli and M. Baya and J. S. Beal and S. M. Bello and W. J. Boddy and D. W. Bradt and D. L. Burkart and N. E. Butler and J. Campbell and M. A. Cassell and L. E. Corbani and S. L. Cousins and D. J. Dahmen and H. Dene and A. D. Diehl and H. J. Drabkin and K. S. Frazer and P. Frost and L. H. Glass and C. W. Goldsmith and P. L. Grant and M. Lennon-Pierce and J. Lewis and I. Lu and L. J. Maltais and M. McAndrews-Hill and L. McClellan and D. B. Miers and L. A. Miller and L. Ni and J. E. Ormsby and D. Qi and T. B. Reddy and D. J. Reed and B. Richards-Smith and D. R. Shaw and R. Sinclair and C. L. Smith and P. Szauter and M. B. Walker and D. O. Walton and L. L. Washburn and I. T. Witham and Y. Zhu (2005). The Mouse Genome Database (MGD): from genes to mice--a community resource for mouse biology. Nucleic Acids Research. 33 Database Issue D471-5. [Abstract] [www] [BibTex]
P. Carninci and T. Kasukawa and S. Katayama and J. Gough and M.C. Frith and N. Maeda and R. Oyama and T. Ravasi and B. Lenhard and C. Wells and R. Kodzius and K. Shimokawa and V.B. Bajic and S.E. Brenner and S. Batalov and A.R.R. Forrest and M. Zavolan and M.J. Davis and L.G. Wilming and V. Aidinis and J.E. Allen and A. Ambesi-Impiombato and R. Apweiler and R.N. Aturaliya and T.L. Bailey and M. Bansal and L. Baxter and K.W. Beisel and T. Bersano and H. Bono and A.M. Chalk and K.P. Chiu and V. Choudhary and A. Christoffels and D.R. Clutterbuck and M.L. Crowe and E. Dalla and B.P. Dalrymple and B. deBono and G. DellaGatta and D. diBernardo and T. Down and P. Engstrom and M. Fagiolini and G. Faulkner and C.F. Fletcher and T. Fukushima and M. Furuno and S. Futaki and M. Gariboldi and P. Georgii-Hemming and T.R. Gingeras and T. Gojobori and R.E. Green and S. Gustincich and M. Harbers and Y. Hayashi and T.K. Hensch and N. Hirokawa and D. Hill and L. Huminiecki and M. Iacono and K. Ikeo and A. Iwama and T. Ishikawa and M. Jakt and A. Kanapin and M. Katoh and Y. Kawasawa and J. Kelso and H. Kitamura and H. Kitano and G. Kollias and S.P.T. Krishnan and A. Kruger and S.K. Kummerfeld and I.V. Kurochkin and L.F. Lareau and D. Lazarevic and L. Lipovich and J. Liu and S. Liuni and S. McWilliam and M. MadanBabu and M. Madera and L. Marchionni and H. Matsuda and S. Matsuzawa and H. Miki and F. Mignone and S. Miyake and K. Morris and S. Mottagui-Tabar and N. Mulder and N. Nakano and H. Nakauchi and P. Ng and R. Nilsson and S. Nishiguchi and S. Nishikawa and F. Nori and O. Ohara and Y. Okazaki and V. Orlando and K.C. Pang and W.J. Pavan and G. Pavesi and G. Pesole and N. Petrovsky and S. Piazza and J. Reed and J.F. Reid and B.Z. Ring and M. Ringwald and B. Rost and Y. Ruan and S.L. Salzberg and A. Sandelin and C. Schneider and C. Sch\"onbach and K. Sekiguchi and C.A.M. Semple and S. Seno and L. Sessa and Y. Sheng and Y. Shibata and H. Shimada and K. Shimada and D. Silva and B. Sinclair and S. Sperling and E. Stupka and K. Sugiura and R. Sultana and Y. Takenaka and K. Taki and K. Tammoja and S.L. Tan and S. Tang and M.S. Taylor and J. Tegner and S.A. Teichmann and H.R. Ueda and E. vanNimwegen and R. Verardo and C.L. Wei and K. Yagi and H. Yamanishi and E. Zabarovsky and S. Zhu and A. Zimmer and W. Hide and C. Bult and S.M. Grimmond and R.D. Teasdale and E.T. Liu and V. Brusic and J. Quackenbush and C. Wahlestedt and J.S. Mattick and D.A. Hume and C. Kai and D. Sasaki and Y. Tomaru and S. Fukuda and M. Kanamori-Katayama and M. Suzuki and J. Aoki and T. Arakawa and J. Iida and K. Imamura and M. Itoh and T. Kato and H. Kawaji and N. Kawagashira and T. Kawashima and M. Kojima and S. Kondo and H. Konno and K. Nakano and N. Ninomiya and T. Nishio and M. Okada and C. Plessy and K. Shibata and T. Shiraki and S. Suzuki and M. Tagami and K. Waki and A. Watahiki and Y. Okamura-Oho and H. Suzuki and J. Kawai and Y. Hayashizaki (2005). The transcriptional landscape of the mammalian genome. Science. 309 (5740), 1559-1563. [Abstract] [www] [BibTex]
J. Benach and W. C. Edstrom and I. Lee and K. Das and B. Cooper and R. Xiao and J. Liu and B. Rost and T. B. Acton and G. T. Montelione and J. F. Hunt (2005). The 2.35 A structure of the TenA homolog from Pyrococcus furlosus supports an enzymatic function in thiamine metabolism. Acta Crystallogr D Biol Crystallogr. 61 (Pt 5), 589-98. [Abstract] [www] [BibTex]

2004

Zeba Wunderlich and Thomas B Acton and Jinfeng Liu and Gregory Kornhaber and John Everett and Phil Carter and Ning Lan and Nathaniel Echols and Mark Gerstein and Burkhard Rost and Gaetano T Montelione (2004). The protein target list of the Northeast Structural Genomics Consortium. Proteins: Structure, Function, and Bioinformatics. 56 181-187. [www] [BibTex]
Kazimierz O. Wrzeszczynski and Burkhard Rost (2004). Cataloguing proteins in cell cycle control. Methods in Molecular Biology. 241 219-233. [www] [BibTex]
Kazimierz O. Wrzeszczynski and Burkhard Rost (2004). Annotating proteins from Endoplasmic reticulum and Golgi apparatus in eukaryotic proteomes. Cellular and Molecular Life Sciences. 61 (11), 1341-1353. [Abstract] [www] [BibTex]
Kazimierz O. Wrzeszczynski and Phil Carter and Guy Yachdav and Burkhard Rost (2004). CellCycleDB: cell cycle control proteins in eukaryotes. Nucleic Acids Research. submitted 2004-08-15. [BibTex]
A. H. Tong and G. Lesage and G. D. Bader and H. Ding and H. Xu and X. Xin and J. Young and G. F. Berriz and R. L. Brost and M. Chang and Y. Chen and X. Cheng and G. Chua and H. Friesen and D. S. Goldberg and J. Haynes and C. Humphries and G. He and S. Hussein and L. Ke and N. Krogan and Z. Li and J. N. Levinson and H. Lu and P. Menard and C. Munyana and A. B. Parsons and O. Ryan and R. Tonikian and T. Roberts and A. M. Sdicu and J. Shapiro and B. Sheikh and B. Suter and S. L. Wong and L. V. Zhang and H. Zhu and C. G. Burd and S. Munro and C. Sander and J. Rine and J. Greenblatt and M. Peter and A. Bretscher and G. Bell and F. P. Roth and G. W. Brown and B. Andrews and H. Bussey and C. Boone (2004). Global mapping of the yeast genetic interaction network. Science. 303 (5659), 808-13. [Abstract] [www] [BibTex]
Burkhard Rost and Guy Yachdav and Jinfeng Liu (2004). The PredictProtein server. Nucleic Acids Research. 32 (Supplement 2), W321-W326. [www] [BibTex]
Dariusz Przybylski and Burkhard Rost (2004). Improving fold recognition without folds. Journal of Molecular Biology. 341 255-269. [www] [BibTex]
R. Powers and T. B. Acton and Y. Chiang and P. K. Rajan and J. R. Cort and M. A. Kennedy and J. Liu and L. Ma and B. Rost and G. T. Montelione (2004). 1H, 13C and 15N assignments for the Archaeglobus fulgidis protein AF2095. Journal of Biomolecular NMR. 30 (1), 107-108. [www] [BibTex]
Rajesh Nair and Burkhard Rost (2004). LOCnet and LOCtarget: Sub-cellular localization for structural genomics targets. Nucleic Acids Research. 32 (Supplement 2), W517-W521. [www] [BibTex]
Rajesh Nair and Burkhard Rost (2004). Annotating protein function through lexical analysis. AI Magazine. 25 (1), 45-56. [www] [BibTex]
Sven Mika and Burkhard Rost (2004). NLProt: extracting protein names and sequences from papers. Nucleic Acids Research. 32 (Supplement 2), W634-W637. [www] [BibTex]
Sven Mika and Burkhard Rost (2004). Protein names precisely peeled off free text. Bioinformatics. 20 (Suppl 1), I241-I247. [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2004). CHOP: parsing proteins into structural domains. Nucleic Acids Research. 32 (Supplement 2), W569-W571. [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2004). Sequence-based prediction of protein domains. Nucleic Acids Research. 32 3522-3530. [Abstract] [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2004). CHOP proteins into structural domain-like fragments. Proteins: Structure, Function, and Bioinformatics. 55 (3), 678-688. [www] [BibTex]
Jinfeng Liu and Hedi Hegyi and Tom B. Acton and Gaetano T. Montelione and Burkhard Rost (2004). Automatic target selection for structural genomics on eukaryotes. Proteins: Structure, Function, and Bioinformatics. 56 188-200. [www] [BibTex]
Janice Glasgow and Igor Jurlsica and Burkhard Rost (2004). AI and Bioinformatics. AI Magazine. 25 (1), 7-8. [www] [BibTex]
Henry Bigelow and Donald Petrey and Jinfeng Liu and Dariusz Przybylski and Burkhard Rost (2004). Predicting transmembrane beta-barrels in proteomes. Nucleic Acids Research. 32 2566-2577. [Abstract] [www] [BibTex]

2003/02/20

Rajesh Nair and Burkhard Rost (2003/02/20). Better prediction of sub-cellular localization by combining evolutionary and structural information. Proteins: Structure, Function, and Bioinformatics. 53 (4), 917-930. [Abstract] [www] [BibTex]

2003

Raphael Zidovetzki and Burkhard Rost and D. L. Armstrong and Israel Pecht (2003). Role of transmembrane domains in the functions of Fc receptors. Journal of Biophysical Chemistry. 15 555-575. [www] [BibTex]
Kazimierz O. Wrzeszczynski and Burkhard Rost (2003). xx Cataloguing proteins in cell cycle control. 219-233. [www] [BibTex]
Burkhard Rost and Jinfeng Liu and Dariusz Przybylski and Rajesh Nair and Henry Bigelow and Kazimierz O. Wrzeszczynski and Yanay Ofran (2003). Prediction of protein structure through evolution. 1789-1811. [www] [BibTex]
Burkhard Rost and Jinfeng Liu and Rajesh Nair and Kazimierz O. Wrzeszczynski and Yanay Ofran (2003). Automatic prediction of protein function. Cellular and Molecular Life Sciences. 60 (12), 2637-2650. [www] [BibTex]
Burkhard Rost and Jinfeng Liu (2003). The PredictProtein server. Nucleic Acids Research. 31 (13), 3300-3304. [Abstract] [www] [BibTex]
Burkhard Rost (2003). xx Prediction in 1D: secondary structure, membrane helices, and accessibility. 557-585. [www] [BibTex]
Burkhard Rost (2003). Neural networks predict protein structure: hype or hit?. 34-50. [www] [BibTex]
Burkhard Rost (2003). Prediction in 1D: secondary structure, membrane helices, and accessibility. Methods Biochem Anal. 44 559-587. [www] [BibTex]
Burkhard Rost (2003). Rising accuracy of protein secondary structure prediction. 207-249. [Abstract] [www] [BibTex]
Yanay Ofran and Burkhard Rost (2003). Predicted protein-protein interaction sites from local sequence information. FEBS Letters. 544 236-239. [www] [BibTex]
Yanay Ofran and Burkhard Rost (2003). Analysing six types of protein-protein interfaces. Journal of Molecular Biology. 325 377-387. [www] [BibTex]
Rajesh Nair and Burkhard Rost (2003). LOC3D: annotate sub-cellular localization for protein structures. Nucleic Acids Research. 31 (13), 3337-3340. [Abstract] [www] [BibTex]
Rajesh Nair and Phil Carter and Burkhard Rost (2003). NLSdb: database of nuclear localization signals. Nucleic Acids Research. 31 397-399. [www] [BibTex]
Sven Mika and Burkhard Rost (2003). UniqueProt: creating representative protein sequence sets. Nucleic Acids Research. 31 (13), 3789-3791. [Abstract] [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2003). NORSp: predictions of long regions without regular secondary structure. Nucleic Acids Research. 31 (13), 3833-3835. [Abstract] [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2003). Domains, motifs, and clusters in the protein universe. Current Opinion in Chemical Biology. 7 5-11. [www] [BibTex]
Ingrid Y. Y. Koh and Volker A. Eyrich and Marc A. Marti-Renom and Dariusz Przybylski and Mallur S. Madhusudhan and Eswar Narayanan and Osvaldo Grana and Alfonso Valencia and Andrej Sali and Burkhard Rost (2003). EVA: evaluation of protein structure prediction servers. Nucleic Acids Research. 31 (13), 3311-3315. [Abstract] [www] [BibTex]
Andrew Kernytsky and Burkhard Rost (2003). Static benchmarking of membrane helix predictions. Nucleic Acids Research. 31 (13), 3642-3644. [Abstract] [www] [BibTex]
Volker A. Eyrich and Burkhard Rost (2003). META-PP: single interface to crucial prediction servers. Nucleic Acids Research. 31 (13), 3308-3310. [Abstract] [www] [BibTex]
Volker A. Eyrich and Ingrid Y. Y. Koh and Dariusz Przybylski and Osvaldo Gra\~na and Florencio Pazos and Alfonso Valencia and Burkhard Rost (2003). CAFASP3 in the spotlight of EVA. Proteins: Structure, Function, and Bioinformatics. 53 Suppl 6 548-560. [Abstract] [www] [BibTex]
Phil Carter and Jinfeng Liu and Burkhard Rost (2003). PEP: Predictions for Entire Proteomes. Nucleic Acids Research. 31 410-413. [www] [BibTex]
Phil Carter and Claus A. F. Andersen and Burkhard Rost (2003). DSSPcont: continuous secondary structure assignments for proteins. Nucleic Acids Research. 31 (13), 3293-3295. [Abstract] [www] [BibTex]
J. M. Aramini and Y. J. Huang and J. R. Cort and S. Goldsmith-Fischman and R. Xiao and L. Y. Shih and C. K. Ho and J. Liu and B. Rost and B. Honig and M. A. Kennedy and T. B. Acton and G. T. Montelione (2003). Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Protein Science. 12 (12), 2823-2830. [Abstract] [www] [BibTex]
Claus A. F. Andersen and Burkhard Rost (2003). xx Automatic secondary structure assignment. 339-361. [www] [BibTex]
Claus A. F. Andersen and Burkhard Rost (2003). Secondary structure assignment. Methods Biochem Anal.. 44 341-363. [www] [BibTex]

2002

Andrej Sali and Marc A. Marti-Renom and M. S. Madhusudhan and Andr\'as Fiser and Burkhard Rost (2002). Reply to Moult et al.. Structure. 10 292-293. [BibTex]
Burkhard Rost and Barry Honig and Alfonso Valencia (2002). Bioinformatics in structural genomics. Bioinformatics. 18 897. [www] [BibTex]
Burkhard Rost (2002). Did evolution leap to create the protein universe?. Current Opinion in Structural Biology. 12 (3), 409-416. [Abstract] [www] [BibTex]
Burkhard Rost (2002). Enzyme function less conserved than anticipated. Journal of Molecular Biology. 318 (2), 595-608. [Abstract] [www] [BibTex]
Dariusz Przybylski and Burkhard Rost (2002). Alignments grow, secondary structure prediction improves. Proteins: Structure, Function, and Bioinformatics. 46 195-205. [Abstract] [www] [BibTex]
Gianluca Pollastri and Dariusz Przybylski and Burkhard Rost and Pierre Baldi (2002). Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles. Proteins: Structure, Function, and Bioinformatics. 47 228-235. [Abstract] [www] [BibTex]
Rajesh Nair and Burkhard Rost (2002). Inferring sub-cellular localisation through automated lexical analysis. Bioinformatics. 18 (Supplement 1), S78-S86. [Abstract] [www] [BibTex]
Rajesh Nair and Burkhard Rost (2002). Sequence conserved for sub-cellular localization. Protein Science. 11 2836-2847. [www] [BibTex]
Marc A. Marti-Renom and M. S. Madhusudhan and Andras Fiser and Burkhard Rost and Andrej Sali (2002). Reliability of assessment of protein structure prediction methods. Structure. 10 435-440. [Abstract] [www] [BibTex]
Jinfeng Liu and Hepan Tan and Burkhard Rost (2002). Loopy proteins appear conserved in evolution. Journal of Molecular Biology. 322 53-64. [Abstract] [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2002). Target space for structural genomics revisited. Bioinformatics. 18 922-933. [Abstract] [www] [BibTex]
Chien Peter Chen and Burkhard Rost (2002). Long membrane helices and short loops predicted less accurately. Protein Science. (11), 2766-2773. [www] [BibTex]
Chien Peter Chen and Burkhard Rost (2002). State-of-the-art in membrane prediction. Applied Bioinformatics. 1 21-35. [www] [BibTex]
Chien Peter Chen and Andrew Kernytsky and Burkhard Rost (2002). Transmembrane helix predictions revisited. Protein Science. 11 2774-2791. [www] [BibTex]
Claus A. F. Andersen and Arthur G. Palmer and S{\o}ren Brunak and Burkhard Rost (2002). Continuum secondary structure captures protein flexibility. Structure. 10 (2), 175-184. [Abstract] [www] [BibTex]

2001-11

Burkhard Rost and Pierre Baldi (2001-11). New improvements in protein secondary structure prediction. [www] [BibTex]

2001-10-01

Burkhard Rost and Pierre Baldi and Geoff Barton and James Cuff and Volker Eyrich and David Jones and Kevin Karplus and Ross King and Mohammed Ouali and Gianluca Pollastri and Dariusz Przybylski (2001-10-01). Simple jury predicts protein secondary structure best. 5. [www] [BibTex]

2001-05

Rajesh Nair and Burkhard Rost (2001-05). Surface profiles predict sub-cellular localisation. [www] [BibTex]

2001

Burkhard Rost and Volker Eyrich (2001). EVA: large-scale analysis of secondary structure prediction. Proteins: Structure, Function, and Genetics. 45 Suppl 5 S192-S199. [Abstract] [www] [BibTex]
Burkhard Rost (2001). Protein secondary structure prediction continues to rise. Journal of Structural Biology. 134 204-218. [Abstract] [www] [BibTex]
Jinfeng Liu and Burkhard Rost (2001). Comparing function and structure between entire proteomes. Protein Science. 10 (10), 1970-1979. [Abstract] [www] [BibTex]
Daniel Fischer and Arne Elofsson and Leszek Rychlewski and Florencio Pazos and Alfonso Valencia and Burkhard Rost and Angel R. Ortiz and Roland L. Jr. Dunbrack (2001). CAFASP2: the second critical assessment of fully automated structure prediction methods. Proteins: Structure, Function, and Genetics. 45 Suppl 5 (Supplement 5), S171-S183. [Abstract] [www] [BibTex]
Volker Eyrich and Marc A. Mart{\'\i}-Renom and Dariusz Przybylski and Andras Fiser and Florencio Pazos and Alfonso Valencia and Andrej Sali and Burkhard Rost (2001). EVA: continuous automatic evaluation of protein structure prediction servers. Bioinformatics. 17 1242-1243. [Abstract] [www] [BibTex]

2000

Burkhard Rost and Chris Sander (2000). Third generation prediction of secondary structure. Methods in Molecular Biology. 143 71-95. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (2000). xxThird generation prediction of secondary structure. 71-95. [Abstract] [www] [BibTex]
B. Rost (2000). PROF: predicting one-dimensional protein structure by profile based neural networks. Unpublished. [BibTex]
N. A. Kolchanov and O. A. Podkolodnaya and E. A. Ananko and E. V. Ignatieva and I. L. Stepanenko and O. V. Kel-Margoulis and A. E. Kel and T. I. Merkulova and T. N. Goryachkovskaya and T. V. Busygina and F. A. Kolpakov and N. L. Podkolodny and A. N. Naumochkin and I. M. Korostishevskaya and A. G. Romashchenko and G. C. Overton (2000). Transcription regulatory regions database (TRRD): its status in 2000. Nucleic Acids Research. 28 (1), 298-301. [Abstract] [www] [BibTex]
Murat Cokol and Raj Nair and Burkhard Rost (2000). Finding nuclear localisation signals. EMBO Reports. 1 411-415. [Abstract] [www] [BibTex]

1999

Adam Zemla and Ceslovas Venclovas and Krzysztof Fidelis and Burkhard Rost (1999). A modified definition of SOV, a segment-based measure for protein secondary structure prediction assessment. Proteins: Structure, Function, and Genetics. 34 220-223. [Abstract] [www] [BibTex]
Burkhard Rost and Reinhard Schneider (1999). Pedestrian guide to analysing sequence databases. preprint. [Abstract] [www] [BibTex]
Burkhard Rost (1999). Short yeast ORFs: expressed protein or not?. [www] [BibTex]
Burkhard Rost (1999). Evolution teaches neural networks. 207-223. [www] [BibTex]
Burkhard Rost (1999). Neural networks for protein structure prediction: hype or hit?. [Abstract] [www] [BibTex]
Burkhard Rost (1999). Twilight zone of protein sequence alignments. Protein Engineering. 12 (2), 85-94. [Abstract] [www] [BibTex]
Florencio Pazos and Burkhard Rost and Alfonso Valencia (1999). A platform for integrating threading results with protein family analyses. Bioinformatics. 15 1062-1063. [Abstract] [www] [BibTex]
Osvaldo Olmea and Burkhard Rost and Alfonso Valencia (1999). Effective use of sequence correlation and conservation in fold recognition. Journal of Molecular Biology. 293 (5), 1221-1239. [Abstract] [www] [BibTex]
D. Fischer and C. Barret and K. Bryson and A. Elofsson and A. Godzik and D. Jones and K. J. Karplus and L. A. Kelley and R. M. MacCallum and K. Pawowski and B. Rost and L. Rychlewski and M. Sternberg (1999). CAFASP-1: critical assessment of fully automated structure prediction methods. Proteins: Structure, Function, and Genetics. Suppl 3 209-217. [Abstract] [www] [BibTex]

1998

Raphael Zidovetzki and Burkhard Rost and Israel Pecht (1998). Role of transmembrane domains in the functions of B-and T-cell receptors. Immunology Letters. 64 97-107. [Abstract] [www] [BibTex]
Burkhard Rost (1998). Marrying structure and genomics. Structure. 6 259-263. [Abstract] [www] [BibTex]
Burkhard Rost (1998). Protein structure prediction in 1D, 2D, and 3D. 3 2242-2255. [Abstract] [www] [BibTex]
Carolina Perez-Iratxeta and Burkhard Rost and Alfonso Valencia (1998). Variety of functions performed by proteins of similar structures. Journal of Molecular Evolution. in submission. [BibTex]
Miguel A. Andrade and Sean I. O'Donoghue and Burkhard Rost (1998). Adaptation of protein surfaces to subcellular location. Journal of Molecular Biology. 276 517-525. [Abstract] [www] [BibTex]

1997

Burkhard {Rost P} (1997). Sisyphus and protein structure prediction. Tutorial. [BibTex]
Burkhard Rost and Reinhard Schneider and Chris Sander (1997). Protein fold recognition by prediction-based threading. Journal of Molecular Biology. 270 471-480. [Abstract] [www] [BibTex]
Burkhard Rost and Sean I. O'Donoghue (1997). Sisyphus and prediction of protein structure. Computer Applications in Biological Science. 13 345-356. [Abstract] [www] [BibTex]
Burkhard Rost (1997). Learning from evolution to predict protein structure. 87-101. [Abstract] [www] [BibTex]
Burkhard Rost (1997). Better 1D predictions by experts with machines. Proteins: Structure, Function, and Genetics. Suppl. 1 192-197. [Abstract] [www] [BibTex]
Burkhard Rost (1997). Protein structures sustain evolutionary drift. Folding & Design. 2 S19-S24. [Abstract] [www] [BibTex]
Burkhard Rost (1997). NN which predicts protein secondary structure. G4.1. [Abstract] [www] [BibTex]
D. L. Gerloff and F. E. Cohen and C. Korostensky and M. Turcotte and G. H. Gonnet and S. A. Benner (1997). A predicted consensus structure for the N-terminal fragment of the heat shock protein HSP90 family. Proteins. 27 (3), 450-458. [BibTex]

1996

Burkhard Rost and Alfonso Valencia (1996). Pitfalls of protein sequence analysis. Current Opinion in Biotechnology. 7 457-461. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1996). Bridging the protein sequence-structure gap by structure predictions. Annual Review of Biophysics and Biomolecular Structure. 25 113-136. [Abstract] [www] [BibTex]
Burkhard Rost and Rita Casadio and Piero Fariselli (1996). Topology prediction for helical transmembrane proteins at 86% accuracy. Protein Science. 5 1704-1718. [Abstract] [www] [BibTex]
Burkhard Rost and Rita Casadio and Piero Fariselli (1996). Refining neural network predictions for helical transmembrane proteins by dynamic programming. 192-200. [Abstract] [www] [BibTex]
Burkhard Rost (1996). PHD: predicting one-dimensional protein structure by profile based neural networks. Methods in Enzymology. 266 525-539. [Abstract] [www] [BibTex]
Tim Hubbard and Anna Tramontano and Geoff Barton and David Jones and Manfred Sippl and Alfonso Valencia and Arthur Lesk and John Moult and Burkhard Rost and Chris Sander and Reinhard Schneider and Armin Lahm and Raphael Leplae and Christiane Buta and Miriam Eisenstein and Ola Fjellstr\"om and Hannes Floeckner and J Guenter Grossmann and Jan Hansen and Manuela Helmer-Citterich and Flemming Steen Joergensen and Aron Marchler-Bauer and Joel Osuna and Jong Park and Astrid Reinhardt and Lluis {Ribas de Pouplana} and Arturo Rojo-Dominguez and Vladimir Saudek and John Sinclair and Shane Sturrock and Ceslovas Venclovas and Carla Vinals (1996). Update on protein structure prediction: results of the 1995 IRBM workshop. Folding & Design. 1 R55-R63. [www] [BibTex]

1995

Burkhard Rost and Chris Sander (1995). Protein structure prediction by neural networks. 772-775. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1995). Progress of 1D protein structure prediction at last. Proteins: Structure, Function, and Genetics. 23 295-300. [Abstract] [www] [BibTex]
Burkhard Rost and Rita Casadio and Piero Fariselli and Chris Sander (1995). Transmembrane helix prediction at 95% accuracy. Protein Science. 4 521-533. [Abstract] [www] [BibTex]
Burkhard Rost (1995). Fitting 1-D predictions into 3-D structures. 132-151. [Abstract] [www] [BibTex]
Burkhard Rost (1995). TOPITS: Threading One-dimensional Predictions Into Three-dimensional Structures. 314-321. [Abstract] [www] [BibTex]
S \'ean O'Donoghue and Burkhard Rost (1995). Computational tools for experimental determination and theoretical prediction of protein structure. [BibTex]

1994

B. Rost and C. Sander and R. Schneider (1994). PHD--an automatic mail server for protein secondary structure prediction. Comput Appl Biosci. 10 (1), 53-60. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander and Reinhard Schneider (1994). Evolution and neural networks - protein secondary structure prediction above 71% accuracy. 5 385-394. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander and Reinhard Schneider (1994). PHD - an automatic server for protein secondary structure prediction. CABIOS. 10 53-60. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander and Reinhard Schneider (1994). Redefining the goals of protein secondary structure prediction. Journal of Molecular Biology. 235 13-26. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1994). 1D secondary structure prediction through evolutionary profiles. 257-276. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1994). Structure prediction of proteins - where are we now?. Current Opinion in Biotechnology. 5 (4), 372-380. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1994). Conservation and prediction of solvent accessibility in protein families. Proteins: Structure, Function, and Genetics. 20 (3), 216-226. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1994). Combining evolutionary information and neural networks to predict protein secondary structure. Proteins: Structure, Function, and Genetics. 19 55-72. [Abstract] [www] [BibTex]
Lisa Holm and Burkhard Rost and Chris Sander and Reinhard Schneider and Gerrit Vriend (1994). Data based modeling of proteins. 277-296. [BibTex]

1993

Burkhard Rost and Gerritt Vriend (1993). Neural networks in chemistry. CDA News. 8 (1), 24-27. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander and Reinhard Schneider (1993). Progress in protein structure prediction?. TIBS. 18 120-123. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1993). Secondary structure prediction of all-helical proteins in two states. Protein Engineering. 6 (8), 831-836. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1993). Improved prediction of protein secondary structure by use of sequence profiles and neural networks. Proceedings of the National Academy of Sciences. 90 7558-7562. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1993). Prediction of protein secondary structure at better than 70% accuracy. Journal of Molecular Biology. 232 584-599. [Abstract] [www] [BibTex]
Burkhard Rost (1993). Neural networks and evolution - advanced prediction of protein secondary structure. [www] [BibTex]
Thomas Meitinger and Alfons Meindl and Peer Bork and Burkhard Rost and Chris Sander and Martina Haasemann and Jan Murken (1993). Molecular modelling of the Norrie disease protein predicts a cystine knot growth factor tertiary structure. Nature Genetics. 5 376-380. [www] [BibTex]

1992

Burkhard Rost and Chris Sander (1992). Exercising multi-layered networks on protein secondary structure. 3 209-220. [Abstract] [www] [BibTex]
Burkhard Rost and Chris Sander (1992). Jury returns on structure prediction. Nature. 360 540. [www] [BibTex]

| Imprint | Sitemap | Contact