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Burkhard Rost - Publications

Affiliations: 
Technische Universität München, München, Bayern, Germany 

156 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Miller M, Vitale D, Kahn PC, Rost B, Bromberg Y. funtrp: identifying protein positions for variation driven functional tuning. Nucleic Acids Research. PMID 31584091 DOI: 10.1093/nar/gkz818  0.96
2019 Littmann M, Goldberg T, Seitz S, Bodén M, Rost B. Detailed prediction of protein sub-nuclear localization. Bmc Bioinformatics. 20: 205. PMID 31014229 DOI: 10.1186/s12859-019-2790-9  0.52
2018 Peeken JC, Goldberg T, Pyka T, Bernhofer M, Wiestler B, Kessel KA, Tafti PD, Nüsslin F, Braun AE, Zimmer C, Rost B, Combs SE. Combining multimodal imaging and treatment features improves machine learning-based prognostic assessment in patients with glioblastoma multiforme. Cancer Medicine. PMID 30561851 DOI: 10.1002/cam4.1908  0.52
2018 Schelling M, Hopf TA, Rost B. Evolutionary couplings and sequence variation effect predict protein binding sites. Proteins. PMID 30020551 DOI: 10.1002/prot.25585  0.44
2018 Mahlich Y, Steinegger M, Rost B, Bromberg Y. HFSP: high speed homology-driven function annotation of proteins. Bioinformatics (Oxford, England). 34: i304-i312. PMID 29950013 DOI: 10.1093/bioinformatics/bty262  0.96
2018 Assur Sanghai Z, Liu Q, Clarke OB, Belcher-Dufrisne M, Wiriyasermkul P, Giese MH, Leal-Pinto E, Kloss B, Tabuso S, Love J, Punta M, Banerjee S, Rajashankar KR, Rost B, Logothetis D, et al. Structure-based analysis of CysZ-mediated cellular uptake of sulfate. Elife. 7. PMID 29792261 DOI: 10.7554/eLife.27829  0.4
2018 Peeken JC, Bernhofer M, Wiestler B, Goldberg T, Cremers D, Rost B, Wilkens JJ, Combs SE, Nüsslin F. Radiomics in radiooncology - Challenging the medical physicist. Physica Medica : Pm : An International Journal Devoted to the Applications of Physics to Medicine and Biology : Official Journal of the Italian Association of Biomedical Physics (Aifb). 48: 27-36. PMID 29728226 DOI: 10.1016/j.ejmp.2018.03.012  0.52
2018 Peeken JC, Goldberg T, Knie C, Komboz B, Bernhofer M, Pasa F, Kessel KA, Tafti PD, Rost B, Nüsslin F, Braun AE, Combs SE. Treatment-related features improve machine learning prediction of prognosis in soft tissue sarcoma patients. Strahlentherapie Und Onkologie : Organ Der Deutschen Rontgengesellschaft ... [Et Al]. PMID 29557486 DOI: 10.1007/s00066-018-1294-2  0.52
2018 Cejuela JM, Vinchurkar S, Goldberg T, Prabhu Shankar MS, Baghudana A, Bojchevski A, Uhlig C, Ofner A, Raharja-Liu P, Jensen LJ, Rost B. LocText: relation extraction of protein localizations to assist database curation. Bmc Bioinformatics. 19: 15. PMID 29343218 DOI: 10.1186/s12859-018-2021-9  0.52
2017 Dallago C, Goldberg T, Andrade-Navarro MA, Alanis-Lobato G, Rost B. CellMap visualizes protein-protein interactions and subcellular localization. F1000research. 6: 1824. PMID 29497493 DOI: 10.12688/f1000research.12707.2  0.52
2017 Bernhofer M, Goldberg T, Wolf S, Ahmed M, Zaugg J, Boden M, Rost B. NLSdb-major update for database of nuclear localization signals and nuclear export signals. Nucleic Acids Research. PMID 29106588 DOI: 10.1093/nar/gkx1021  0.52
2017 Hücker SM, Ardern Z, Goldberg T, Schafferhans A, Bernhofer M, Vestergaard G, Nelson CW, Schloter M, Rost B, Scherer S, Neuhaus K. Discovery of numerous novel small genes in the intergenic regions of the Escherichia coli O157:H7 Sakai genome. Plos One. 12: e0184119. PMID 28902868 DOI: 10.1371/journal.pone.0184119  0.52
2017 Mahlich Y, Reeb J, Hecht M, Schelling M, De Beer TAP, Bromberg Y, Rost B. Common sequence variants affect molecular function more than rare variants? Scientific Reports. 7: 1608. PMID 28487536 DOI: 10.1038/s41598-017-01054-2  0.96
2016 Goldberg T, Rost B, Bromberg Y. Computational prediction shines light on type III secretion origins. Scientific Reports. 6: 34516. PMID 27713481 DOI: 10.1038/srep34516  0.96
2016 Bernhofer M, Kloppmann E, Reeb J, Rost B. TMSEG: novel prediction of transmembrane helices. Proteins. PMID 27566436 DOI: 10.1002/prot.25155  0.44
2016 Reeb J, Hecht M, Mahlich Y, Bromberg Y, Rost B. Predicted Molecular Effects of Sequence Variants Link to System Level of Disease. Plos Computational Biology. 12: e1005047. PMID 27536940 DOI: 10.1371/journal.pcbi.1005047  0.56
2016 Rost B, Radivojac P, Bromberg Y. Protein function in precision medicine: deep understanding with machine learning. Febs Letters. PMID 27423136 DOI: 10.1002/1873-3468.12307  0.96
2016 Yachdav G, Wilzbach S, Rauscher B, Sheridan R, Sillitoe I, Procter J, Lewis S, Rost B, Goldberg T. MSAViewer: interactive JavaScript visualization of multiple sequence alignments. Bioinformatics (Oxford, England). PMID 27412096 DOI: 10.1093/bioinformatics/btw474  0.76
2016 Neuhaus K, Landstorfer R, Fellner L, Simon S, Schafferhans A, Goldberg T, Marx H, Ozoline ON, Rost B, Kuster B, Keim DA, Scherer S. Translatomics combined with transcriptomics and proteomics reveals novel functional, recently evolved orphan genes in Escherichia coli O157:H7 (EHEC). Bmc Genomics. 17: 133. PMID 26911138 DOI: 10.1186/s12864-016-2456-1  0.96
2016 Ramilowski JA, Goldberg T, Harshbarger J, Kloppmann E, Lizio M, Satagopam VP, Itoh M, Kawaji H, Carninci P, Rost B, Forrest AR. Corrigendum: A draft network of ligand-receptor-mediated multicellular signalling in human. Nature Communications. 7: 10706. PMID 26862012 DOI: 10.1038/ncomms10706  0.52
2016 Ardiccioni C, Clarke OB, Tomasek D, Issa HA, von Alpen DC, Pond HL, Banerjee S, Rajashankar KR, Liu Q, Guan Z, Li C, Kloss B, Bruni R, Kloppmann E, Rost B, et al. Structure of the polyisoprenyl-phosphate glycosyltransferase GtrB and insights into the mechanism of catalysis. Nature Communications. 7: 10175. PMID 26729507 DOI: 10.1038/ncomms10175  0.56
2016 Petrou VI, Herrera CM, Schultz KM, Clarke OB, Vendome J, Tomasek D, Banerjee S, Rajashankar KR, Dufrisne MB, Kloss B, Kloppmann E, Rost B, Klug CS, Trent MS, Shapiro L, et al. Structural biology: Structures of aminoarabinose transferase ArnT suggest a molecular basis for lipid A glycosylation Science. 351: 608-612. DOI: 10.1126/science.aad1172  0.56
2015 Vicedo E, Gasik Z, Dong YA, Goldberg T, Rost B. Protein disorder reduced in Saccharomyces cerevisiae to survive heat shock. F1000research. 4: 1222. PMID 26673203 DOI: 10.12688/f1000research.7178.1  0.52
2015 Perdigão N, Heinrich J, Stolte C, Sabir KS, Buckley MJ, Tabor B, Signal B, Gloss BS, Hammang CJ, Rost B, Schafferhans A, O'Donoghue SI. Unexpected features of the dark proteome. Proceedings of the National Academy of Sciences of the United States of America. PMID 26578815 DOI: 10.1073/pnas.1508380112  0.56
2015 Ison J, Rapacki K, Ménager H, Kalaš M, Rydza E, Chmura P, Anthon C, Beard N, Berka K, Bolser D, Booth T, Bretaudeau A, Brezovsky J, Casadio R, Cesareni G, ... ... Rost B, et al. Tools and data services registry: a community effort to document bioinformatics resources. Nucleic Acids Research. PMID 26538599 DOI: 10.1093/nar/gkv1116  0.76
2015 Vicedo E, Schlessinger A, Rost B. Environmental Pressure May Change the Composition Protein Disorder in Prokaryotes. Plos One. 10: e0133990. PMID 26252577 DOI: 10.1371/journal.pone.0133990  0.56
2015 Ramilowski JA, Goldberg T, Harshbarger J, Kloppman E, Lizio M, Satagopam VP, Itoh M, Kawaji H, Carninci P, Rost B, Forrest AR. A draft network of ligand-receptor-mediated multicellular signalling in human. Nature Communications. 6: 7866. PMID 26198319 DOI: 10.1038/ncomms8866  0.96
2015 Yachdav G, Goldberg T, Wilzbach S, Dao D, Shih I, Choudhary S, Crouch S, Franz M, García A, García LJ, Grüning BA, Inupakutika D, Sillitoe I, Thanki AS, Vieira B, ... ... Rost B, et al. Anatomy of BioJS, an open source community for the life sciences. Elife. 4. PMID 26153621 DOI: 10.7554/eLife.07009  0.76
2015 Hecht M, Bromberg Y, Rost B. Better prediction of functional effects for sequence variants. Bmc Genomics. 16: S1. PMID 26110438 DOI: 10.1186/1471-2164-16-S8-S1  0.56
2015 Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B. ISCB Ebola Award for Important Future Research on the Computational Biology of Ebola Virus. F1000research. 4: 12. PMID 26097686 DOI: 10.12688/f1000research.6038.1  0.96
2015 Hamp T, Rost B. Evolutionary profiles improve protein-protein interaction prediction from sequence. Bioinformatics (Oxford, England). 31: 1945-50. PMID 25657331 DOI: 10.1093/bioinformatics/btv077  0.96
2015 Guo Y, Kalathur RC, Liu Q, Kloss B, Bruni R, Ginter C, Kloppmann E, Rost B, Hendrickson WA. Protein structure. Structure and activity of tryptophan-rich TSPO proteins. Science (New York, N.Y.). 347: 551-5. PMID 25635100 DOI: 10.1126/science.aaa1534  0.96
2015 O'Donoghue SI, Sabir KS, Kalemanov M, Stolte C, Wellmann B, Ho V, Roos M, Perdigão N, Buske FA, Heinrich J, Rost B, Schafferhans A. Aquaria: simplifying discovery and insight from protein structures. Nature Methods. 12: 98-9. PMID 25633501 DOI: 10.1038/nmeth.3258  0.56
2015 Hamp T, Rost B. More challenges for machine-learning protein interactions. Bioinformatics (Oxford, England). 31: 1521-5. PMID 25586513 DOI: 10.1093/bioinformatics/btu857  0.96
2015 Reeb J, Kloppmann E, Bernhofer M, Rost B. Evaluation of transmembrane helix predictions in 2014. Proteins. 83: 473-84. PMID 25546441 DOI: 10.1002/prot.24749  0.96
2015 Yachdav G, Goldberg T, Wilzbach S, Dao D, Shih I, Choudhary S, Crouch S, Franz M, García A, García LJ, Grüning BA, Inupakutika D, Sillitoe I, Thanki AS, Vieira B, ... ... Rost B, et al. Anatomy of BioJS, an open source community for the life sciences Elife. 4: 1-7. DOI: 10.7554/eLife.07009.001  0.96
2014 Yang T, Liu Q, Kloss B, Bruni R, Kalathur RC, Guo Y, Kloppmann E, Rost B, Colecraft HM, Hendrickson WA. Structure and selectivity in bestrophin ion channels. Science (New York, N.Y.). 346: 355-9. PMID 25324390 DOI: 10.1126/science.1259723  0.96
2014 Schafferhans A, Rost B. Taking structure searches to the next dimension. Structure (London, England : 1993). 22: 938-9. PMID 25007224 DOI: 10.1016/j.str.2014.06.007  0.96
2014 Chang Y, Bruni R, Kloss B, Assur Z, Kloppmann E, Rost B, Hendrickson WA, Liu Q. Structural basis for a pH-sensitive calcium leak across membranes. Science (New York, N.Y.). 344: 1131-5. PMID 24904158 DOI: 10.1126/science.1252043  0.96
2014 Yachdav G, Hecht M, Pasmanik-Chor M, Yeheskel A, Rost B. HeatMapViewer: interactive display of 2D data in biology. F1000research. 3: 48. PMID 24860644 DOI: 10.12688/f1000research.3-48.v1  0.96
2014 Goldberg T, Hecht M, Hamp T, Karl T, Yachdav G, Ahmed N, Altermann U, Angerer P, Ansorge S, Balasz K, Bernhofer M, Betz A, Cizmadija L, Do KT, Gerke J, ... ... Rost B, et al. LocTree3 prediction of localization. Nucleic Acids Research. 42: W350-5. PMID 24848019 DOI: 10.1093/nar/gku396  0.96
2014 Yachdav G, Kloppmann E, Kajan L, Hecht M, Goldberg T, Hamp T, Hönigschmid P, Schafferhans A, Roos M, Bernhofer M, Richter L, Ashkenazy H, Punta M, Schlessinger A, Bromberg Y, ... ... Rost B, et al. PredictProtein--an open resource for online prediction of protein structural and functional features. Nucleic Acids Research. 42: W337-43. PMID 24799431 DOI: 10.1093/nar/gku366  0.96
2014 Cejuela JM, McQuilton P, Ponting L, Marygold SJ, Stefancsik R, Millburn GH, Rost B. tagtog: interactive and text-mining-assisted annotation of gene mentions in PLOS full-text articles. Database : the Journal of Biological Databases and Curation. 2014: bau033. PMID 24715220 DOI: 10.1093/database/bau033  0.96
2014 Kaján L, Hopf TA, Kalaš M, Marks DS, Rost B. FreeContact: fast and free software for protein contact prediction from residue co-evolution. Bmc Bioinformatics. 15: 85. PMID 24669753 DOI: 10.1186/1471-2105-15-85  0.96
2014 Feiglin A, Ashkenazi S, Schlessinger A, Rost B, Ofran Y. Co-expression and co-localization of hub proteins and their partners are encoded in protein sequence. Molecular Biosystems. 10: 787-94. PMID 24457447 DOI: 10.1039/c3mb70411d  0.96
2014 Rost B. ISCB: past-present perspective for the International Society for Computational Biology. Bioinformatics (Oxford, England). 30: 143-5. PMID 24352412 DOI: 10.1093/bioinformatics/btt669  0.96
2013 Rost B. ISCB: past-present perspective for the International Society for Computational Biology. Bioinformatics (Oxford, England). 29: 3243-5. PMID 24234004 DOI: 10.1093/bioinformatics/btt629  0.96
2013 Mistry J, Kloppmann E, Rost B, Punta M. An estimated 5% of new protein structures solved today represent a new Pfam family. Acta Crystallographica. Section D, Biological Crystallography. 69: 2186-93. PMID 24189229 DOI: 10.1107/S0907444913027157  0.96
2013 Bateman A, Kelso J, Mietchen D, Macintyre G, Di Domenico T, Abeel T, Logan DW, Radivojac P, Rost B. ISCB computational biology Wikipedia competition. Plos Computational Biology. 9: e1003242. PMID 24068913 DOI: 10.1371/journal.pcbi.1003242  0.96
2013 Kaján L, Yachdav G, Vicedo E, Steinegger M, Mirdita M, Angermüller C, Böhm A, Domke S, Ertl J, Mertes C, Reisinger E, Staniewski C, Rost B. Cloud prediction of protein structure and function with PredictProtein for Debian. Biomed Research International. 2013: 398968. PMID 23971032 DOI: 10.1155/2013/398968  0.96
2013 Bromberg Y, Kahn PC, Rost B. Neutral and weakly nonneutral sequence variants may define individuality. Proceedings of the National Academy of Sciences of the United States of America. 110: 14255-60. PMID 23940345 DOI: 10.1073/pnas.1216613110  0.96
2013 Hecht M, Bromberg Y, Rost B. News from the protein mutability landscape. Journal of Molecular Biology. 425: 3937-48. PMID 23896297 DOI: 10.1016/j.jmb.2013.07.028  0.96
2013 Hamp T, Goldberg T, Rost B. Accelerating the Original Profile Kernel. Plos One. 8: e68459. PMID 23825697 DOI: 10.1371/journal.pone.0068459  0.96
2013 Hamp T, Kassner R, Seemayer S, Vicedo E, Schaefer C, Achten D, Auer F, Boehm A, Braun T, Hecht M, Heron M, Hönigschmid P, Hopf TA, Kaufmann S, Kiening M, ... ... Rost B, et al. Homology-based inference sets the bar high for protein function prediction. Bmc Bioinformatics. 14: S7. PMID 23514582 DOI: 10.1186/1471-2105-14-S3-S7  0.96
2013 Pieper U, Schlessinger A, Kloppmann E, Chang GA, Chou JJ, Dumont ME, Fox BG, Fromme P, Hendrickson WA, Malkowski MG, Rees DC, Stokes DL, Stowell MH, Wiener MC, Rost B, et al. Coordinating the impact of structural genomics on the human α-helical transmembrane proteome. Nature Structural & Molecular Biology. 20: 135-8. PMID 23381628 DOI: 10.1038/nsmb.2508  0.96
2012 Goldberg T, Hamp T, Rost B. LocTree2 predicts localization for all domains of life. Bioinformatics (Oxford, England). 28: i458-i465. PMID 22962467 DOI: 10.1093/bioinformatics/bts390  0.96
2012 Hamp T, Rost B. Alternative protein-protein interfaces are frequent exceptions. Plos Computational Biology. 8: e1002623. PMID 22876170 DOI: 10.1371/journal.pcbi.1002623  0.96
2012 Rost B, Gaasterland T, Lengauer T, Linial M, Markel S, Morrison McKay BJ, Schneider R, Horton P, Kelso J. Paving the future: finding suitable ISMB venues. Bioinformatics (Oxford, England). 28: 2556-9. PMID 22796959 DOI: 10.1093/bioinformatics/bts420  0.96
2012 Schaefer C, Rost B. Predict impact of single amino acid change upon protein structure. Bmc Genomics. 13: S4. PMID 22759652 DOI: 10.1186/1471-2164-13-S4-S4  0.96
2012 Schaefer C, Bromberg Y, Achten D, Rost B. Disease-related mutations predicted to impact protein function. Bmc Genomics. 13: S11. PMID 22759649 DOI: 10.1186/1471-2164-13-S4-S11  0.96
2012 Wu Y, Punta M, Xiao R, Acton TB, Sathyamoorthy B, Dey F, Fischer M, Skerra A, Rost B, Montelione GT, Szyperski T. NMR structure of lipoprotein YxeF from Bacillus subtilis reveals a calycin fold and distant homology with the lipocalin Blc from Escherichia coli. Plos One. 7: e37404. PMID 22693626 DOI: 10.1371/journal.pone.0037404  0.96
2012 Kloppmann E, Punta M, Rost B. Structural genomics plucks high-hanging membrane proteins. Current Opinion in Structural Biology. 22: 326-32. PMID 22622032 DOI: 10.1016/j.sbi.2012.05.002  0.96
2012 Hopf TA, Colwell LJ, Sheridan R, Rost B, Sander C, Marks DS. Three-dimensional structures of membrane proteins from genomic sequencing. Cell. 149: 1607-21. PMID 22579045 DOI: 10.1016/j.cell.2012.04.012  0.96
2012 Snyder DA, Aramini JM, Yu B, Huang YJ, Xiao R, Cort JR, Shastry R, Ma LC, Liu J, Rost B, Acton TB, Kennedy MA, Montelione GT. Solution NMR structure of the ribosomal protein RP-L35Ae from Pyrococcus furiosus. Proteins. 80: 1901-6. PMID 22422653 DOI: 10.1002/prot.24071  0.96
2012 Schaefer C, Meier A, Rost B, Bromberg Y. SNPdbe: constructing an nsSNP functional impacts database. Bioinformatics (Oxford, England). 28: 601-2. PMID 22210871 DOI: 10.1093/bioinformatics/btr705  0.96
2011 Ranganathan S, Schönbach C, Kelso J, Rost B, Nathan S, Tan TW. Towards big data science in the decade ahead from ten years of InCoB and the 1st ISCB-Asia Joint Conference. Bmc Bioinformatics. 12: S1. PMID 22372736 DOI: 10.1186/1471-2105-12-S13-S1  0.96
2011 Schönbach C, Tan TW, Kelso J, Rost B, Nathan S, Ranganathan S. InCoB celebrates its tenth anniversary as first joint conference with ISCB-Asia. Bmc Genomics. 12: S1. PMID 22369160 DOI: 10.1186/1471-2164-12-S3-S1  0.96
2011 Zimprich A, Benet-Pagès A, Struhal W, Graf E, Eck SH, Offman MN, Haubenberger D, Spielberger S, Schulte EC, Lichtner P, Rossle SC, Klopp N, Wolf E, Seppi K, Pirker W, ... ... Rost B, et al. A mutation in VPS35, encoding a subunit of the retromer complex, causes late-onset Parkinson disease. American Journal of Human Genetics. 89: 168-75. PMID 21763483 DOI: 10.1016/j.ajhg.2011.06.008  0.96
2011 Offman MN, Krol M, Rost B, Silman I, Sussman JL, Futerman AH. 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: 773-5. PMID 21724649 DOI: 10.1093/protein/gzr032  0.96
2011 Schlessinger A, Schaefer C, Vicedo E, Schmidberger M, Punta M, Rost B. Protein disorder--a breakthrough invention of evolution? Current Opinion in Structural Biology. 21: 412-8. PMID 21514145 DOI: 10.1016/j.sbi.2011.03.014  0.96
2011 Shi W, Punta M, Bohon J, Sauder JM, D'Mello R, Sullivan M, Toomey J, Abel D, Lippi M, Passerini A, Frasconi P, Burley SK, Rost B, Chance MR. Characterization of metalloproteins by high-throughput X-ray absorption spectroscopy. Genome Research. 21: 898-907. PMID 21482623 DOI: 10.1101/gr.115097.110  0.96
2011 Cao Y, Jin X, Levin EJ, Huang H, Zong Y, Quick M, Weng J, Pan Y, Love J, Punta M, Rost B, Hendrickson WA, Javitch JA, Rajashankar KR, Zhou M. Crystal structure of a phosphorylation-coupled saccharide transporter. Nature. 473: 50-4. PMID 21471968 DOI: 10.1038/nature09939  0.96
2011 Lathrop RH, Rost B. ISCB Public Policy Statement on Open Access to Scientific and Technical Research Literature. Plos Computational Biology. 7: e1002014. PMID 21390278 DOI: 10.1371/journal.pcbi.1002014  0.96
2011 Cao Y, Jin X, Huang H, Derebe MG, Levin EJ, Kabaleeswaran V, Pan Y, Punta M, Love J, Weng J, Quick M, Ye S, Kloss B, Bruni R, Martinez-Hackert E, ... ... Rost B, et al. Crystal structure of a potassium ion transporter, TrkH. Nature. 471: 336-40. PMID 21317882 DOI: 10.1038/nature09731  0.96
2011 Lathrop RH, Rost B. ISCB public policy statement on open access to scientific and technical research literature. Bioinformatics (Oxford, England). 27: 291-4. PMID 21282182 DOI: 10.1093/bioinformatics/btq687  0.96
2011 Rastogi S, Rost B. LocDB: experimental annotations of localization for Homo sapiens and Arabidopsis thaliana. Nucleic Acids Research. 39: D230-4. PMID 21071420 DOI: 10.1093/nar/gkq927  0.96
2011 Yang Y, Ramelot TA, Cort JR, Wang D, Ciccosanti C, Hamilton K, Nair R, Rost B, Acton TB, Xiao R, Everett JK, Montelione GT, Kennedy MA. Solution NMR structure of photosystem II reaction center protein Psb28 from Synechocystis sp. Strain PCC 6803. Proteins. 79: 340-4. PMID 21058299 DOI: 10.1002/prot.22876  0.96
2010 Chen YH, Hu L, Punta M, Bruni R, Hillerich B, Kloss B, Rost B, Love J, Siegelbaum SA, Hendrickson WA. Homologue structure of the SLAC1 anion channel for closing stomata in leaves. Nature. 467: 1074-80. PMID 20981093 DOI: 10.1038/nature09487  0.96
2010 Love J, Mancia F, Shapiro L, Punta M, Rost B, Girvin M, Wang DN, Zhou M, Hunt JF, Szyperski T, Gouaux E, MacKinnon R, McDermott A, Honig B, Inouye M, et al. 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: 191-9. PMID 20690043 DOI: 10.1007/s10969-010-9094-7  0.96
2010 Tang Y, Xiao R, Ciccosanti C, Janjua H, Lee DY, Everett JK, Swapna GV, Acton TB, Rost B, Montelione GT. Solution NMR structure of Lin0431 protein from Listeria innocua reveals high structural similarity with domain II of bacterial transcription antitermination protein NusG. Proteins. 78: 2563-8. PMID 20602357 DOI: 10.1002/prot.22760  0.96
2010 Wainreb G, Ashkenazy H, Bromberg Y, Starovolsky-Shitrit A, Haliloglu T, Ruppin E, Avraham KB, Rost B, Ben-Tal N. MuD: an interactive web server for the prediction of non-neutral substitutions using protein structural data. Nucleic Acids Research. 38: W523-8. PMID 20542913 DOI: 10.1093/nar/gkq528  0.96
2010 Rastogi S, Rost B. Bioinformatics predictions of localization and targeting. Methods in Molecular Biology (Clifton, N.J.). 619: 285-305. PMID 20419417 DOI: 10.1007/978-1-60327-412-8_17  0.96
2010 Aramini JM, Tubbs JL, Kanugula S, Rossi P, Ertekin A, Maglaqui M, Hamilton K, Ciccosanti CT, Jiang M, Xiao R, Soong TT, Rost B, Acton TB, Everett JK, Pegg AE, et al. Structural basis of O6-alkylguanine recognition by a bacterial alkyltransferase-like DNA repair protein. The Journal of Biological Chemistry. 285: 13736-41. PMID 20212037 DOI: 10.1074/jbc.M109.093591  0.96
2010 Schaefer C, Schlessinger A, Rost B. Protein secondary structure appears to be robust under in silico evolution while protein disorder appears not to be. Bioinformatics (Oxford, England). 26: 625-31. PMID 20081223 DOI: 10.1093/bioinformatics/btq012  0.96
2010 Singarapu KK, Mills JL, Xiao R, Acton T, Punta M, Fischer M, Honig B, Rost B, Montelione GT, Szyperski T. 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: 779-84. PMID 19927321 DOI: 10.1002/prot.22630  0.96
2010 Wainreb G, Ashkenazy H, Bromberg Y, Starovolsky-Shitrit A, Haliloglu T, Ruppin E, Avraham KB, Rost B, Ben-Tal N. MuD: An interactive web server for the prediction of non-neutral substitutions using protein structural data (Nucleic Acids Research (2010) 38 (W523-W528) DOI:10.1093/nar/gkq528) Nucleic Acids Research. 38: 7869. DOI: 10.1093/nar/gkq1208  0.96
2010 Fiser A, Godzik A, Orengo C, Rost B. The Protein Structure Initiative Introduction to Protein Structure Prediction: Methods and Algorithms. 33-44. DOI: 10.1002/9780470882207.ch3  0.96
2009 Punta M, Love J, Handelman S, Hunt JF, Shapiro L, Hendrickson WA, Rost B. Structural genomics target selection for the New York consortium on membrane protein structure. Journal of Structural and Functional Genomics. 10: 255-68. PMID 19859826 DOI: 10.1007/s10969-009-9071-1  0.96
2009 Moult J, Fidelis K, Kryshtafovych A, Rost B, Tramontano A. Critical assessment of methods of protein structure prediction - Round VIII. Proteins. 77: 1-4. PMID 19774620 DOI: 10.1002/prot.22589  0.96
2009 Bromberg Y, Rost B. Correlating protein function and stability through the analysis of single amino acid substitutions. Bmc Bioinformatics. 10: S8. PMID 19758472 DOI: 10.1186/1471-2105-10-S8-S8  0.96
2009 Cozzetto D, Kryshtafovych A, Fidelis K, Moult J, Rost B, Tramontano A. Evaluation of template-based models in CASP8 with standard measures. Proteins. 77: 18-28. PMID 19731382 DOI: 10.1002/prot.22561  0.96
2009 Dessailly BH, Nair R, Jaroszewski L, Fajardo JE, Kouranov A, Lee D, Fiser A, Godzik A, Rost B, Orengo C. PSI-2: structural genomics to cover protein domain family space. Structure (London, England : 1993). 17: 869-81. PMID 19523904 DOI: 10.1016/j.str.2009.03.015  0.96
2009 Eletsky A, Sukumaran DK, Xiao R, Acton TB, Rost B, Montelione GT, Szyperski T. NMR structure of protein YvyC from Bacillus subtilis reveals unexpected structural similarity between two PFAM families. Proteins. 76: 1037-41. PMID 19455708 DOI: 10.1002/prot.22459  0.96
2009 Bromberg Y, Overton J, Vaisse C, Leibel RL, Rost B. In silico mutagenesis: a case study of the melanocortin 4 receptor. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. 23: 3059-69. PMID 19417090 DOI: 10.1096/fj.08-127530  0.96
2009 Bromberg Y, Yachdav G, Ofran Y, Schneider R, Rost B. New in protein structure and function annotation: hotspots, single nucleotide polymorphisms and the 'Deep Web'. Current Opinion in Drug Discovery & Development. 12: 408-19. PMID 19396742  0.96
2009 Schlessinger A, Punta M, Yachdav G, Kajan L, Rost B. Improved disorder prediction by combination of orthogonal approaches. Plos One. 4: e4433. PMID 19209228 DOI: 10.1371/journal.pone.0004433  0.96
2009 Nair R, Liu J, Soong TT, Acton TB, Everett JK, Kouranov A, Fiser A, Godzik A, Jaroszewski L, Orengo C, Montelione GT, Rost B. Structural genomics is the largest contributor of novel structural leverage. Journal of Structural and Functional Genomics. 10: 181-91. PMID 19194785 DOI: 10.1007/s10969-008-9055-6  0.96
2009 Bertonati C, Punta M, Fischer M, Yachdav G, Forouhar F, Zhou W, Kuzin AP, Seetharaman J, Abashidze M, Ramelot TA, Kennedy MA, Cort JR, Belachew A, Hunt JF, Tong L, ... ... Rost B, et al. Structural genomics reveals EVE as a new ASCH/PUA-related domain. Proteins. 75: 760-73. PMID 19191354 DOI: 10.1002/prot.22287  0.96
2009 Bigelow H, Rost B. Online tools for predicting integral membrane proteins. Methods in Molecular Biology (Clifton, N.J.). 528: 3-23. PMID 19153681 DOI: 10.1007/978-1-60327-310-7_1  0.96
2009 Liu G, Forouhar F, Eletsky A, Atreya HS, Aramini JM, Xiao R, Huang YJ, Abashidze M, Seetharaman J, Liu J, Rost B, Acton T, Montelione GT, Hunt JF, Szyperski T. 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. Journal of Structural and Functional Genomics. 10: 127-36. PMID 19101823 DOI: 10.1007/s10969-008-9054-7  0.96
2009 Price WN, Chen Y, Handelman SK, Neely H, Manor P, Karlin R, Nair R, Liu J, Baran M, Everett J, Tong SN, Forouhar F, Swaminathan SS, Acton T, Xiao R, ... ... Rost B, et al. Understanding the physical properties that control protein crystallization by analysis of large-scale experimental data. Nature Biotechnology. 27: 51-7. PMID 19079241 DOI: 10.1038/nbt.1514  0.96
2009 Galea CA, High AA, Obenauer JC, Mishra A, Park CG, Punta M, Schlessinger A, Ma J, Rost B, Slaughter CA, Kriwacki RW. Large-scale analysis of thermostable, mammalian proteins provides insights into the intrinsically disordered proteome. Journal of Proteome Research. 8: 211-26. PMID 19067583 DOI: 10.1021/pr800308v  0.96
2009 Rossi P, Aramini JM, Xiao R, Chen CX, Nwosu C, Owens LA, Maglaqui M, Nair R, Fischer M, Acton TB, Honig B, Rost B, Montelione GT. Structural elucidation of the Cys-His-Glu-Asn proteolytic relay in the secreted CHAP domain enzyme from the human pathogen Staphylococcus saprophyticus. Proteins. 74: 515-9. PMID 18951393 DOI: 10.1002/prot.22267  0.96
2009 Kernytsky A, Rost B. Using genetic algorithms to select most predictive protein features. Proteins. 75: 75-88. PMID 18798568 DOI: 10.1002/prot.22211  0.96
2009 Wrzeszczynski KO, Rost B. Cell cycle kinases predicted from conserved biophysical properties. Proteins. 74: 655-68. PMID 18704950 DOI: 10.1002/prot.22181  0.96
2008 Punta M, Rost B. Neural networks predict protein structure and function. Methods in Molecular Biology (Clifton, N.J.). 458: 203-30. PMID 19065812 DOI: 10/1007/978-1-60327-101_1  0.96
2008 Ofran Y, Schlessinger A, Rost B. Automated identification of complementarity determining regions (CDRs) reveals peculiar characteristics of CDRs and B cell epitopes. Journal of Immunology (Baltimore, Md. : 1950). 181: 6230-5. PMID 18941213  0.96
2008 Soong TT, Wrzeszczynski KO, Rost B. Physical protein-protein interactions predicted from microarrays. Bioinformatics (Oxford, England). 24: 2608-14. PMID 18829707 DOI: 10.1093/bioinformatics/btn498  0.96
2008 Bromberg Y, Yachdav G, Rost B. SNAP predicts effect of mutations on protein function. Bioinformatics (Oxford, England). 24: 2397-8. PMID 18757876 DOI: 10.1093/bioinformatics/btn435  0.96
2008 Aramini JM, Rossi P, Huang YJ, Zhao L, Jiang M, Maglaqui M, Xiao R, Locke J, Nair R, Rost B, Acton TB, Inouye M, Montelione GT. 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: 9715-7. PMID 18715016 DOI: 10.1021/bi8010779  0.96
2008 Bromberg Y, Rost B. Comprehensive in silico mutagenesis highlights functionally important residues in proteins. Bioinformatics (Oxford, England). 24: i207-12. PMID 18689826 DOI: 10.1093/bioinformatics/btn268  0.96
2008 Przybylski D, Rost B. Powerful fusion: PSI-BLAST and consensus sequences. Bioinformatics (Oxford, England). 24: 1987-93. PMID 18678588 DOI: 10.1093/bioinformatics/btn384  0.96
2008 Lippi M, Passerini A, Punta M, Rost B, Frasconi P. MetalDetector: a web server for predicting metal-binding sites and disulfide bridges in proteins from sequence. Bioinformatics (Oxford, England). 24: 2094-5. PMID 18635571 DOI: 10.1093/bioinformatics/btn371  0.96
2008 Nair R, Rost B. Protein subcellular localization prediction using artificial intelligence technology. Methods in Molecular Biology (Clifton, N.J.). 484: 435-63. PMID 18592195 DOI: 10.1007/978-1-59745-398-1_27  0.96
2008 Linial M, Mesirov JP, Morrison McKay BJ, Rost B. ISMB 2008 Toronto. Plos Computational Biology. 4: e1000094. PMID 18584023 DOI: 10.1371/journal.pcbi.1000094  0.96
2008 Aramini JM, Sharma S, Huang YJ, Swapna GV, Ho CK, Shetty K, Cunningham K, Ma LC, Zhao L, Owens LA, Jiang M, Xiao R, Liu J, Baran MC, Acton TB, ... Rost B, et al. Solution NMR structure of the SOS response protein YnzC from Bacillus subtilis. Proteins. 72: 526-30. PMID 18431750 DOI: 10.1002/prot.22064  0.96
2008 Trott O, Siggers K, Rost B, Palmer AG. Protein conformational flexibility prediction using machine learning. Journal of Magnetic Resonance (San Diego, Calif. : 1997). 192: 37-47. PMID 18313957 DOI: 10.1016/j.jmr.2008.01.011  0.96
2008 Singarapu KK, Xiao R, Acton T, Rost B, Montelione GT, Szyperski T. 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. 71: 1027-31. PMID 18247350 DOI: 10.1002/prot.21947  0.96
2008 Przybylski D, Rost B. Predicting Simplified Features of Protein Structure Bioinformatics-From Genomes to Therapies. 1: 261-295. DOI: 10.1002/9783527619368.ch9  0.96
2008 Rost B, Liu J, Przybylski D, Nair R, Wrzeszczynski KO, Bigelow H, Ofran Y. Prediction of Protein Structure Through Evolution Handbook of Chemoinformatics. 4: 1789-1811. DOI: 10.1002/9783527618279.ch45b  0.32
2007 Moult J, Fidelis K, Kryshtafovych A, Rost B, Hubbard T, Tramontano A. Critical assessment of methods of protein structure prediction-Round VII. Proteins. 69: 3-9. PMID 17918729 DOI: 10.1002/prot.21767  0.96
2007 Schlessinger A, Punta M, Rost B. Natively unstructured regions in proteins identified from contact predictions. Bioinformatics (Oxford, England). 23: 2376-84. PMID 17709338 DOI: 10.1093/bioinformatics/btm349  0.96
2007 Liu J, Montelione GT, Rost B. Novel leverage of structural genomics. Nature Biotechnology. 25: 849-51. PMID 17687356 DOI: 10.1038/nbt0807-849  0.96
2007 Schlessinger A, Liu J, Rost B. Natively unstructured loops differ from other loops. Plos Computational Biology. 3: e140. PMID 17658943 DOI: 10.1371/journal.pcbi.0030140  0.96
2007 Ofran Y, Mysore V, Rost B. Prediction of DNA-binding residues from sequence Bioinformatics. 23: i347-i353. PMID 17646316 DOI: 10.1093/bioinformatics/btm174  0.96
2007 Ofran Y, Rost B. Protein-protein interaction hotspots carved into sequences Plos Computational Biology. 3: e119. PMID 17630824 DOI: 10.1371/journal.pcbi.0030119  0.96
2007 Bromberg Y, Rost B. SNAP: Predict effect of non-synonymous polymorphisms on function Nucleic Acids Research. 35: 3823-3835. PMID 17526529 DOI: 10.1093/nar/gkm238  0.96
2007 Aramini JM, Huang YJ, Swapna GV, Cort JR, Rajan PK, Xiao R, Shastry R, Acton TB, Liu J, Rost B, Kennedy MA, Montelione GT. Solution NMR structure of Escherichia coli ytfP expands the structural coverage of the UPF0131 protein domain family. Proteins. 68: 789-95. PMID 17523190 DOI: 10.1002/prot.21450  0.96
2007 Przybylski D, Rost B. Consensus sequences improve PSI-BLAST through mimicking profile-profile alignments Nucleic Acids Research. 35: 2238-2246. PMID 17369271 DOI: 10.1093/nar/gkm107  0.96
2007 Punta M, Forrest LR, Bigelow H, Kernytsky A, Liu J, Rost B. Membrane protein prediction methods Methods. 41: 460-474. PMID 17367718 DOI: 10.1016/j.ymeth.2006.07.026  0.96
2007 Ofran Y, Rost B. ISIS: Interaction sites identified from sequence Bioinformatics. 23: e13-e16. PMID 17237081 DOI: 10.1093/bioinformatics/btl303  0.96
2007 Lengauer T, McKay BJM, Rost B. ISMB/ECCB 2007: The premier conference on computational biology Plos Computational Biology. 3: 0779-0782. DOI: 10.1371/journal.pcbi.0030096  0.96
2007 Lengauer T, Rost B, Schuster P. Editorial Bioinformatics. 23: i1-i4. DOI: 10.1093/bioinformatics/btm285  0.96
2006 Berman HM, Burley SK, Chiu W, Sali A, Adzhubei A, Bourne PE, Bryant SH, Dunbrack RL, Fidelis K, Frank J, Godzik A, Henrick K, Joachimiak A, Heymann B, Jones D, ... ... Rost B, et al. Outcome of a Workshop on Archiving Structural Models of Biological Macromolecules Structure. 14: 1211-1217. PMID 16955948 DOI: 10.1016/j.str.2006.06.005  0.96
2006 Passerini A, Punta M, Ceroni A, Rost B, Frasconi P. Identifying cysteines and histidines in transition-metal-binding sites using support vector machines and neural networks. Proteins. 65: 305-16. PMID 16927295 DOI: 10.1002/prot.21135  0.96
2006 Ofran Y, Yachdav G, Mozes E, Soong TT, Nair R, Rost B. Create and assess protein networks through molecular characteristics of individual proteins Bioinformatics. 22: e402-e407. PMID 16873500 DOI: 10.1093/bioinformatics/btl258  0.96
2006 Bigelow H, Rost B. PROFtmb: A web server for predicting bacterial transmembrane beta barrel proteins Nucleic Acids Research. 34: W186-W188. PMID 16844988 DOI: 10.1093/nar/gkl262  0.96
2006 Liu J, Gough J, Rost B. Distinguishing protein-coding from non-coding RNAs through support vector machines. Plos Genetics. 2: e29. PMID 16683024 DOI: 10.1371/journal.pgen.0020029  0.36
2006 Schlessinger A, Yachdav G, Rost B. PROFbval: Predict flexible and rigid residues in proteins Bioinformatics. 22: 891-893. PMID 16455751 DOI: 10.1093/bioinformatics/btl032  0.96
2006 Schlessinger A, Ofran Y, Yachdav G, Rost B. Epitome: database of structure-inferred antigenic epitopes. Nucleic Acids Research. 34: D777-80. PMID 16381978 DOI: 10.1093/nar/gkj053  1
2006 Liu J, Gough J, Rost B. Distinguishing protein-coding from non-coding RNAs through support vector machines Plos Genetics. 2: 529-536. DOI: 10.1371/journal.pgen.0020029  0.96
2006 Mika S, Rost B. Protein-protein interactions more conserved within species than across species Plos Computational Biology. 2: 0698-0709. DOI: 10.1371/journal.pcbi.0020079  0.96
2005 Snyder DA, Chen Y, Denissova NG, Acton T, Aramini JM, Ciano M, Karlin R, Liu J, Manor P, Rajan PA, Rossi P, Swapna GV, Xiao R, Rost B, Hunt J, et al. Comparisons of NMR spectral quality and success in crystallization demonstrate that NMR and X-ray crystallography are complementary methods for small protein structure determination. Journal of the American Chemical Society. 127: 16505-11. PMID 16305237 DOI: 10.1021/ja053564h  0.96
2005 Powers R, Mirkovic N, Goldsmith-Fischman S, Acton TB, Chiang Y, Huang YJ, Ma L, Rajan PK, Cort JR, Kennedy MA, Liu J, Rost B, Honig B, Murray D, Montelione GT. 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 : a Publication of the Protein Society. 14: 2849-61. PMID 16251366 DOI: 10.1110/ps.051666705  0.36
2005 Ofran Y, Punta M, Schneider R, Rost B. Beyond annotation transfer by homology: novel protein-function prediction methods to assist drug discovery. Drug Discovery Today. 10: 1475-82. PMID 16243268 DOI: 10.1016/S1359-6446(05)03621-4  0.96
2005 Graña O, Baker D, MacCallum RM, Meiler J, Punta M, Rost B, Tress ML, Valencia A. CASP6 assessment of contact prediction. Proteins. 61: 214-24. PMID 16187364 DOI: 10.1002/prot.20739  0.96
2005 Moult J, Fidelis K, Rost B, Hubbard T, Tramontano A. Critical assessment of methods of protein structure prediction (CASP) - Round 6 Proteins: Structure, Function and Genetics. 61: 3-7. PMID 16187341 DOI: 10.1002/prot.20716  0.96
2005 Schlessinger A, Rost B. Protein flexibility and rigidity predicted from sequence. Proteins. 61: 115-26. PMID 16080156 DOI: 10.1002/prot.20587  1
2005 Graña O, Eyrich VA, Pazos F, Rost B, Valencia A. EVAcon: a protein contact prediction evaluation service. Nucleic Acids Research. 33: W347-51. PMID 15980486 DOI: 10.1093/nar/gki411  0.96
2005 Punta M, Rost B. PROFcon: novel prediction of long-range contacts. Bioinformatics (Oxford, England). 21: 2960-8. PMID 15890748 DOI: 10.1093/bioinformatics/bti454  0.4
2005 Benach J, Edstrom WC, Lee I, Das K, Cooper B, Xiao R, Liu J, Rost B, Acton TB, Montelione GT, Hunt JF. The 2.35 Å structure of the TenA homolog from Pyrococcus furiosus supports an enzymatic function in thiamine metabolism Acta Crystallographica Section D: Biological Crystallography. 61: 589-598. PMID 15858269 DOI: 10.1107/S0907444905005147  0.96
2005 Punta M, Rost B. Protein folding rates estimated from contact predictions. Journal of Molecular Biology. 348: 507-12. PMID 15826649 DOI: 10.1016/j.jmb.2005.02.068  0.4
2005 Nair R, Rost B. Mimicking cellular sorting improves prediction of subcellular localization. Journal of Molecular Biology. 348: 85-100. PMID 15808855 DOI: 10.1016/j.jmb.2005.02.025  0.52
2004 Wrzeszczynski KO, Rost B. Cataloging proteins in cell cycle control. Methods in Molecular Biology (Clifton, N.J.). 241: 219-33. PMID 14970657  0.88
2003 Ofran Y, Rost B. Predicted protein-protein interaction sites from local sequence information. Febs Letters. 544: 236-9. PMID 12782323  0.96
2003 Ofran Y, Rost B. Analysing six types of protein-protein interfaces. Journal of Molecular Biology. 325: 377-87. PMID 12488102  0.96
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