| Year |
Citation |
Score |
| 2023 |
Weissenow K, Rost B. Rendering protein mutation movies with MutAmore. Bmc Bioinformatics. 24: 469. PMID 38087198 DOI: 10.1186/s12859-023-05610-8 |
0.358 |
|
| 2023 |
Abakarova M, Marquet C, Rera M, Rost B, Laine E. Alignment-based Protein Mutational Landscape Prediction: Doing More with Less. Genome Biology and Evolution. 15. PMID 37936309 DOI: 10.1093/gbe/evad201 |
0.383 |
|
| 2023 |
Llorián-Salvador Ó, Akhgar J, Pigorsch S, Borm K, Münch S, Bernhardt D, Rost B, Andrade-Navarro MA, Combs SE, Peeken JC. The importance of planning CT-based imaging features for machine learning-based prediction of pain response. Scientific Reports. 13: 17427. PMID 37833283 DOI: 10.1038/s41598-023-43768-6 |
0.471 |
|
| 2023 |
Foreman SC, Llorián-Salvador O, David DE, Rösner VKN, Rischewski JF, Feuerriegel GC, Kramp DW, Luiken I, Lohse AK, Kiefer J, Mogler C, Knebel C, Jung M, Andrade-Navarro MA, Rost B, et al. Development and Evaluation of MR-Based Radiogenomic Models to Differentiate Atypical Lipomatous Tumors from Lipomas. Cancers. 15. PMID 37046811 DOI: 10.3390/cancers15072150 |
0.465 |
|
| 2023 |
Zatorski N, Sun Y, Elmas A, Dallago C, Karl T, Stein D, Rost B, Huang KL, Walsh M, Schlessinger A. Structural Analysis of Genomic and Proteomic Signatures Reveal Dynamic Expression of Intrinsically Disordered Regions in Breast Cancer and Tissue. Biorxiv : the Preprint Server For Biology. PMID 36865220 DOI: 10.1101/2023.02.23.529755 |
0.608 |
|
| 2023 |
Bordin N, Sillitoe I, Nallapareddy V, Rauer C, Lam SD, Waman VP, Sen N, Heinzinger M, Littmann M, Kim S, Velankar S, Steinegger M, Rost B, Orengo C. AlphaFold2 reveals commonalities and novelties in protein structure space for 21 model organisms. Communications Biology. 6: 160. PMID 36755055 DOI: 10.1038/s42003-023-04488-9 |
0.335 |
|
| 2023 |
Nallapareddy V, Bordin N, Sillitoe I, Heinzinger M, Littmann M, Waman VP, Sen N, Rost B, Orengo C. CATHe: detection of remote homologues for CATH superfamilies using embeddings from protein language models. Bioinformatics (Oxford, England). 39. PMID 36648327 DOI: 10.1093/bioinformatics/btad029 |
0.333 |
|
| 2022 |
Bordin N, Dallago C, Heinzinger M, Kim S, Littmann M, Rauer C, Steinegger M, Rost B, Orengo C. Novel machine learning approaches revolutionize protein knowledge. Trends in Biochemical Sciences. PMID 36504138 DOI: 10.1016/j.tibs.2022.11.001 |
0.392 |
|
| 2022 |
Schütze K, Heinzinger M, Steinegger M, Rost B. Nearest neighbor search on embeddings rapidly identifies distant protein relations. Frontiers in Bioinformatics. 2: 1033775. PMID 36466147 DOI: 10.3389/fbinf.2022.1033775 |
0.422 |
|
| 2022 |
Olenyi T, Marquet C, Heinzinger M, Kröger B, Nikolova T, Bernhofer M, Sändig P, Schütze K, Littmann M, Mirdita M, Steinegger M, Dallago C, Rost B. LambdaPP: Fast and accessible protein-specific phenotype predictions. Protein Science : a Publication of the Protein Society. e4524. PMID 36454227 DOI: 10.1002/pro.4524 |
0.5 |
|
| 2022 |
Ilzhöfer D, Heinzinger M, Rost B. SETH predicts nuances of residue disorder from protein embeddings. Frontiers in Bioinformatics. 2: 1019597. PMID 36304335 DOI: 10.3389/fbinf.2022.1019597 |
0.414 |
|
| 2022 |
Foley G, Mora A, Ross CM, Bottoms S, Sützl L, Lamprecht ML, Zaugg J, Essebier A, Balderson B, Newell R, Thomson RES, Kobe B, Barnard RT, Guddat L, Schenk G, ... ... Rost B, et al. Engineering indel and substitution variants of diverse and ancient enzymes using Graphical Representation of Ancestral Sequence Predictions (GRASP). Plos Computational Biology. 18: e1010633. PMID 36279274 DOI: 10.1371/journal.pcbi.1010633 |
0.316 |
|
| 2022 |
Bernhofer M, Rost B. TMbed: transmembrane proteins predicted through language model embeddings. Bmc Bioinformatics. 23: 326. PMID 35941534 DOI: 10.1186/s12859-022-04873-x |
0.409 |
|
| 2022 |
Heinzinger M, Littmann M, Sillitoe I, Bordin N, Orengo C, Rost B. Contrastive learning on protein embeddings enlightens midnight zone. Nar Genomics and Bioinformatics. 4: lqac043. PMID 35702380 DOI: 10.1093/nargab/lqac043 |
0.392 |
|
| 2022 |
Weissenow K, Heinzinger M, Rost B. Protein language-model embeddings for fast, accurate, and alignment-free protein structure prediction. Structure (London, England : 1993). PMID 35609601 DOI: 10.1016/j.str.2022.05.001 |
0.489 |
|
| 2021 |
Stärk H, Dallago C, Heinzinger M, Rost B. Light attention predicts protein location from the language of life. Bioinformatics Advances. 1: vbab035. PMID 36700108 DOI: 10.1093/bioadv/vbab035 |
0.372 |
|
| 2021 |
Marquet C, Heinzinger M, Olenyi T, Dallago C, Erckert K, Bernhofer M, Nechaev D, Rost B. Embeddings from protein language models predict conservation and variant effects. Human Genetics. PMID 34967936 DOI: 10.1007/s00439-021-02411-y |
0.448 |
|
| 2021 |
Littmann M, Heinzinger M, Dallago C, Weissenow K, Rost B. Protein embeddings and deep learning predict binding residues for various ligand classes. Scientific Reports. 11: 23916. PMID 34903827 DOI: 10.1038/s41598-021-03431-4 |
0.353 |
|
| 2021 |
Marot-Lassauzaie V, Goldberg T, Armenteros JJA, Nielsen H, Rost B. Spectrum of Protein Location in Proteomes Captures Evolutionary Relationship Between Species. Journal of Molecular Evolution. PMID 34328525 DOI: 10.1007/s00239-021-10022-4 |
0.379 |
|
| 2021 |
Elnaggar A, Heinzinger M, Dallago C, Rehawi G, Yu W, Jones L, Gibbs T, Feher T, Angerer C, Steinegger M, Bhowmik D, Rost B. ProtTrans: Towards Cracking the Language of Lifes Code Through Self-Supervised Deep Learning and High Performance Computing. Ieee Transactions On Pattern Analysis and Machine Intelligence. PMID 34232869 DOI: 10.1109/TPAMI.2021.3095381 |
0.373 |
|
| 2021 |
Elnaggar A, Heinzinger M, Dallago C, Rehawi G, Yu W, Jones L, Gibbs T, Feher T, Angerer C, Steinegger M, Bhowmik D, Rost B. ProtTrans: Towards Cracking the Language of Lifes Code Through Self-Supervised Deep Learning and High Performance Computing. Ieee Transactions On Pattern Analysis and Machine Intelligence. PMID 34232869 DOI: 10.1109/TPAMI.2021.3095381 |
0.373 |
|
| 2021 |
Bernhofer M, Dallago C, Karl T, Satagopam V, Heinzinger M, Littmann M, Olenyi T, Qiu J, Schütze K, Yachdav G, Ashkenazy H, Ben-Tal N, Bromberg Y, Goldberg T, Kajan L, ... ... Rost B, et al. PredictProtein - Predicting Protein Structure and Function for 29 Years. Nucleic Acids Research. PMID 33999203 DOI: 10.1093/nar/gkab354 |
0.859 |
|
| 2021 |
Dallago C, Schütze K, Heinzinger M, Olenyi T, Littmann M, Lu AX, Yang KK, Min S, Yoon S, Morton JT, Rost B. Learned Embeddings from Deep Learning to Visualize and Predict Protein Sets. Current Protocols. 1: e113. PMID 33961736 DOI: 10.1002/cpz1.113 |
0.376 |
|
| 2021 |
Littmann M, Heinzinger M, Dallago C, Olenyi T, Rost B. Embeddings from deep learning transfer GO annotations beyond homology. Scientific Reports. 11: 1160. PMID 33441905 DOI: 10.1038/s41598-020-80786-0 |
0.387 |
|
| 2020 |
Zaucha J, Heinzinger M, Tarnovskaya S, Rost B, Frishman D. Family-specific analysis of variant pathogenicity prediction tools. Nar Genomics and Bioinformatics. 2: lqaa014. PMID 33575576 DOI: 10.1093/nargab/lqaa014 |
0.377 |
|
| 2020 |
Zaucha J, Heinzinger M, Tarnovskaya S, Rost B, Frishman D. Family-specific analysis of variant pathogenicity prediction tools. Nar Genomics and Bioinformatics. 2: lqaa014. PMID 33575576 DOI: 10.1093/nargab/lqaa014 |
0.377 |
|
| 2020 |
Qiu J, Nechaev D, Rost B. Protein-protein and protein-nucleic acid binding residues important for common and rare sequence variants in human. Bmc Bioinformatics. 21: 452. PMID 33050876 DOI: 10.1186/s12859-020-03759-0 |
0.436 |
|
| 2020 |
Zaucha J, Heinzinger M, Kulandaisamy A, Kataka E, Salvádor ÓL, Popov P, Rost B, Gromiha MM, Zhorov BS, Frishman D. Mutations in transmembrane proteins: diseases, evolutionary insights, prediction and comparison with globular proteins. Briefings in Bioinformatics. PMID 32672331 DOI: 10.1093/Bib/Bbaa132 |
0.45 |
|
| 2020 |
Lai JS, Rost B, Kobe B, Bodén M. Evolutionary model of protein secondary structure capable of revealing new biological relationships. Proteins. PMID 32394426 DOI: 10.1002/Prot.25898 |
0.527 |
|
| 2020 |
Reeb J, Wirth T, Rost B. Variant effect predictions capture some aspects of deep mutational scanning experiments. Bmc Bioinformatics. 21: 107. PMID 32183714 DOI: 10.1186/S12859-020-3439-4 |
0.404 |
|
| 2020 |
Dallago C, Goldberg T, Andrade-Navarro MA, Alanis-Lobato G, Rost B. Visualizing Human Protein-Protein Interactions and Subcellular Localizations on Cell Images Through CellMap. Current Protocols in Bioinformatics. 69: e97. PMID 32150354 DOI: 10.1002/Cpbi.97 |
0.616 |
|
| 2020 |
Qiu J, Bernhofer M, Heinzinger M, Kemper S, Norambuena T, Melo F, Rost B. ProNA2020 predicts protein-DNA, protein-RNA and protein-protein binding proteins and residues from sequence. Journal of Molecular Biology. PMID 32142788 DOI: 10.1016/J.Jmb.2020.02.026 |
0.495 |
|
| 2020 |
Zaucha J, Heinzinger M, Tarnovskaya S, Rost B, Frishman D. Family-specific analysis of variant pathogenicity prediction tools Nar Genomics and Bioinformatics. 2. DOI: 10.1093/nargab/lqaa014 |
0.377 |
|
| 2019 |
Littmann M, Goldberg T, Seitz S, Bodén M, Rost B. Correction to: Detailed prediction of protein sub-nuclear localization. Bmc Bioinformatics. 20: 727. PMID 31861997 DOI: 10.1186/S12859-019-3305-4 |
0.372 |
|
| 2019 |
Heinzinger M, Elnaggar A, Wang Y, Dallago C, Nechaev D, Matthes F, Rost B. Modeling aspects of the language of life through transfer-learning protein sequences. Bmc Bioinformatics. 20: 723. PMID 31847804 DOI: 10.1186/S12859-019-3220-8 |
0.482 |
|
| 2019 |
Zhou N, Jiang Y, Bergquist TR, Lee AJ, Kacsoh BZ, Crocker AW, Lewis KA, Georghiou G, Nguyen HN, Hamid MN, Davis L, Dogan T, Atalay V, Rifaioglu AS, Dalkıran A, ... ... Rost B, et al. The CAFA challenge reports improved protein function prediction and new functional annotations for hundreds of genes through experimental screens. Genome Biology. 20: 244. PMID 31744546 DOI: 10.1186/S13059-019-1835-8 |
0.441 |
|
| 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 |
0.724 |
|
| 2019 |
Scheibenreif L, Littmann M, Orengo C, Rost B. FunFam protein families improve residue level molecular function prediction. Bmc Bioinformatics. 20: 400. PMID 31319797 DOI: 10.1186/S12859-019-2988-X |
0.496 |
|
| 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 |
0.472 |
|
| 2018 |
Schafferhans A, O'Donoghue SI, Heinzinger M, Rost B. Dark Proteins Important for Cellular Function. Proteomics. e1800227. PMID 30318701 DOI: 10.1002/Pmic.201800227 |
0.522 |
|
| 2018 |
Tran L, Hamp T, Rost B. ProfPPIdb: Pairs of physical protein-protein interactions predicted for entire proteomes. Plos One. 13: e0199988. PMID 30020956 DOI: 10.1371/Journal.Pone.0199988 |
0.519 |
|
| 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 |
0.45 |
|
| 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 |
0.831 |
|
| 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 |
0.379 |
|
| 2018 |
Marot-Lassauzaie V, Bernhofer M, Rost B. Correcting mistakes in predicting distributions. Bioinformatics (Oxford, England). PMID 29762646 DOI: 10.1093/Bioinformatics/Bty346 |
0.39 |
|
| 2018 |
Cevost J, Vaillant C, Meyer S, Rost B. ThreaDNA: predicting DNA mechanics' contribution to sequence selectivity of proteins along whole genomes. Bioinformatics (Oxford, England). 34: 609-616. PMID 29444234 DOI: 10.1093/Bioinformatics/Btx634 |
0.405 |
|
| 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 |
0.433 |
|
| 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 |
0.596 |
|
| 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 |
0.432 |
|
| 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 |
0.326 |
|
| 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 |
0.812 |
|
| 2017 |
Miguel Cejuela J, Bojchevski A, Uhlig C, Bekmukhametov R, Kumar Karn S, Mahmuti S, Baghudana A, Dubey A, Satagopam VP, Rost B. nala: text mining natural language mutation mentions. Bioinformatics (Oxford, England). PMID 28200120 DOI: 10.1093/Bioinformatics/Btx083 |
0.324 |
|
| 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 |
0.678 |
|
| 2016 |
Jiang Y, Oron TR, Clark WT, Bankapur AR, D'Andrea D, Lepore R, Funk CS, Kahanda I, Verspoor KM, Ben-Hur A, Koo da CE, Penfold-Brown D, Shasha D, Youngs N, Bonneau R, ... ... Rost B, et al. An expanded evaluation of protein function prediction methods shows an improvement in accuracy. Genome Biology. 17: 184. PMID 27604469 DOI: 10.1186/S13059-016-1037-6 |
0.647 |
|
| 2016 |
Bernhofer M, Kloppmann E, Reeb J, Rost B. TMSEG: novel prediction of transmembrane helices. Proteins. PMID 27566436 DOI: 10.1002/Prot.25155 |
0.428 |
|
| 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 |
0.804 |
|
| 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 |
0.666 |
|
| 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 |
0.407 |
|
| 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 |
0.516 |
|
| 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 |
0.67 |
|
| 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 |
0.713 |
|
| 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: 10.1371/Journal.Pcbi.1004087 |
0.333 |
|
| 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 |
0.53 |
|
| 2015 |
Karp PD, Berger B, Kovats D, Lengauer T, Linial M, Sabeti P, Hide W, Rost B. Message from the ISCB: ISCB Ebola award for important future research on the computational biology of Ebola virus. Bioinformatics (Oxford, England). 31: 616-7. PMID 25644272 DOI: 10.1093/Bioinformatics/Btv019 |
0.335 |
|
| 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 |
0.425 |
|
| 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 |
0.492 |
|
| 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 |
0.385 |
|
| 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 |
0.504 |
|
| 2015 |
Eletsky A, Liu G, Atreya H, Sukumaran D, Wang D, Cunningham K, Janjua H, Ma L, Xiao R, Liu J, Baran M, Acton T, Rost B, Montelione G, Szyperski T. 1H, 13C, and 15N Chemical Shift Assignments for Bacillus subtilis Hypothetical Protein yvyC: Northeast Structural Genomics Consortium target SR482 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr7170 |
0.369 |
|
| 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 |
0.422 |
|
| 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 |
0.521 |
|
| 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 |
0.858 |
|
| 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 |
0.5 |
|
| 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 |
0.81 |
|
| 2014 |
Hecht M, Bromberg Y, Rost B. Erratum for “News from the Protein Mutability Landscape” [J. Mol. Biol. 425 (2013) 3937–3948] Journal of Molecular Biology. 426: 501. DOI: 10.1016/J.Jmb.2013.11.016 |
0.67 |
|
| 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 |
0.44 |
|
| 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 |
0.5 |
|
| 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 |
0.704 |
|
| 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 |
0.726 |
|
| 2013 |
Hamp T, Goldberg T, Rost B. Accelerating the Original Profile Kernel. Plos One. 8: e68459. PMID 23825697 DOI: 10.1371/Journal.Pone.0068459 |
0.318 |
|
| 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 |
0.845 |
|
| 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 |
0.67 |
|
| 2013 |
Radivojac P, Clark WT, Oron TR, Schnoes AM, Wittkop T, Sokolov A, Graim K, Funk C, Verspoor K, Ben-Hur A, Pandey G, Yunes JM, Talwalkar AS, Repo S, Souza ML, ... ... Rost B, et al. A large-scale evaluation of computational protein function prediction. Nature Methods. 10: 221-7. PMID 23353650 DOI: 10.1038/Nmeth.2340 |
0.848 |
|
| 2013 |
Yang Y, Ramelot T, Lee D, Ciccosanti C, Sapin A, Janjua H, Nair R, Rost B, Acton T, Xiao R, Everett J, Montelione G, Kennedy M. Solution NMR structure of the Polyketide_cyc-like protein Cgl2372 from Corynebacterium glutamicum, Northeast Structural Genomics Consortium Target CgR160 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr18989 |
0.418 |
|
| 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 |
0.378 |
|
| 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 |
0.435 |
|
| 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 |
0.466 |
|
| 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 |
0.464 |
|
| 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 |
0.672 |
|
| 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 |
0.352 |
|
| 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 |
0.48 |
|
| 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 |
0.683 |
|
| 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 |
0.469 |
|
| 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 |
0.654 |
|
| 2012 |
Eletsky A, Sukumaran D, Lee H, Lee D, Ciccosanti C, Janjua H, Liu J, Rost B, Acton T, Xiao R, Everett J, Prestegard J, Montelione G, Szyperski T. Solution NMR Structure () from B.subtilis, Northeast Structural Genomics Consortium Target Target SR518 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16942 |
0.312 |
|
| 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 |
0.659 |
|
| 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 |
0.425 |
|
| 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 |
0.312 |
|
| 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 |
0.467 |
|
| 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 |
0.455 |
|
| 2011 |
Bromberg Y, Daniels C, Yachdav G, Marks D, Rost B. Improved manuscript search through PubSeq F1000research. 2. DOI: 10.7490/F1000Research.797.1 |
0.59 |
|
| 2011 |
Vicedo E, Schlessinger A, Schmidberger M, Rost B. Are protein disordered regions equal to loops F1000research. 2. DOI: 10.7490/F1000Research.2121.1 |
0.352 |
|
| 2011 |
Kajan L, Yachdav G, Rost B. High-throughput protein analysis in the cloud F1000research. 2. DOI: 10.7490/F1000Research.2084.1 |
0.383 |
|
| 2011 |
Schafferhans A, O’Donoghue S, Rost B. SRS 3D: Integrating structures, sequences and annotations F1000research. 2. DOI: 10.7490/F1000Research.1925.1 |
0.353 |
|
| 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 |
0.442 |
|
| 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 |
0.431 |
|
| 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/Gkq1208 |
0.748 |
|
| 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 |
0.542 |
|
| 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 |
0.779 |
|
| 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 |
0.667 |
|
| 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 |
0.536 |
|
| 2010 |
Aramini J, Hamilton K, Ciccosanti C, Wang H, Lee H, Rost B, Acton T, Xiao R, Everett J, Montelione G. Solution NMR Structure of a putative Uracil DNA glycosylase from Methanosarcina acetivorans, Northeast Structural Genomics Consortium Target MvR76 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr17191 |
0.327 |
|
| 2010 |
Ertekin A, Cooper B, Ciccosanti C, Rost B, Acton T, Xiao R, Everett J, Montelione G, Rossi P, Maglaqui M, Janjua H, Prestegard J, Lee H, Aramini J. Solution NMR Structure of Peptide methionine sulfoxide reductase msrB from Bacillus subtilis, Northeast Structural Genomics Consortium Target SR10 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr17008 |
0.313 |
|
| 2010 |
Lee H, Wang H, Buchwald W, Janjua H, Nair R, Rost B, Acton T, Xiao R, Everett J, Montelione G, Prestegard J. Chemical shift assignment of GmR58A from Geobacter metallireducens. Northeast Structural Genomics Consortium Target GmR58A Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16746 |
0.319 |
|
| 2010 |
Ramelot T, Cort J, Maglaqui M, Ciccosanti C, Janjua H, Nair R, Rost B, Acton T, Xiao R, Everett J, Montelione G, Kennedy M. Solution NMR structure of SH3 domain from CPF_0587 (fragment 415-479) from Clostridium perfringens. Northeast Structural Genomics Consortium (NESG) Target CpR74A. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16647 |
0.327 |
|
| 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 |
0.325 |
|
| 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 |
0.378 |
|
| 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 |
0.5 |
|
| 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 |
0.448 |
|
| 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 |
0.701 |
|
| 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 |
0.345 |
|
| 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 |
0.446 |
|
| 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 |
0.452 |
|
| 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 |
0.679 |
|
| 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 |
0.852 |
|
| 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 |
0.664 |
|
| 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 |
0.813 |
|
| 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 |
0.417 |
|
| 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 |
0.511 |
|
| 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 |
0.35 |
|
| 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 |
0.421 |
|
| 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 |
0.712 |
|
| 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 |
0.402 |
|
| 2009 |
Wrzeszczynski KO, Rost B. Cell cycle kinases predicted from conserved biophysical properties. Proteins. 74: 655-68. PMID 18704950 DOI: 10.1002/Prot.22181 |
0.763 |
|
| 2009 |
Aramini J, Rossi P, Lee H, Alexander L, Wang H, Foote E, Jiang M, Xiao R, Nair R, Swapna G, Acton T, Rost B, Everett J, Montelione G. Solution Nmr Structure Of The Ob-Fold Domain Of Heme Chaperone Ccme From Desulfovibrio Vulgaris. Northeast Structural Genomics Target Dvr115G. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.2210/Pdb2Kct/Pdb |
0.343 |
|
| 2009 |
Eletsky A, Sathyamoorthy B, Sukumaran D, Wang D, Buchwald W, Ciccosanti C, Janjua H, Nair R, Rost B, Acton T, Xiao R, Everett J, Montelione G, Szyperski T. Solution NMR structure of the N-terminal domain of cg2496 protein from Corynebacterium glutamicum. Northeast Structural Genomics Consortium Target CgR26A Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16569 |
0.396 |
|
| 2009 |
Eletsky A, Garcia E, Wang H, Ciccosanti C, Jiang M, Nair R, Rost B, Acton T, Xiao R, Everett J, Lee H, Prestegard J, Montelione G, Szyperski T. Solution NMR structure of the ACT domain from GTP pyrophosphokinase of Chlorobium tepidum. Northeast Structural Genomics Consortium Target CtR148A Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16486 |
0.332 |
|
| 2009 |
Yang Y, Ramelot T, Wang D, Foote E, Jiang M, Nair R, Rost B, Swapna GVT, Acton T, Xiao R, Everett J, Montelio G, Kennedy M. Solution NMR structure of FHA domain of Mb1858 from Mycobacterium bovis. Northeast Structural Genomics Consortium Target MbR243C (24-155). Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16364 |
0.328 |
|
| 2009 |
Liu G, Wang D, Nwosu C, Owens L, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G. SOLUTION STRUCTURE OF C-terminal Domain of Tyrosine-protein kinase ABL2 FROM HOMO SAPIENS, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET HR5537A Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16349 |
0.379 |
|
| 2009 |
Liu G, Wang D, Nwosu C, Owens L, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G. Solution Structure Of Dead Ringer-Like Protein 1 (At-Rich Interactive Domain-Containing Protein 3A) From Homo Sapiens, Northeast Structural Genomics Consortium (Nesg) Target Hr4394C Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16348 |
0.441 |
|
| 2009 |
Ramelot T, Cort J, Shastry R, Ciccosanti C, Jiang M, Nair R, Rost B, Swapna GVT, Acton T, Xiao R, Everett J, Montelione G, Kennedy M. Solution NMR structure of the N-terminal Ubiquitin-like Domain from Tubulin-binding Cofactor B, CG11242, from Drosophila melanogaster. Northeast Structural Genomics Consortium Target FR629A (residues 8-92) Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16338 |
0.338 |
|
| 2009 |
Mani R, Gurla S, Shastry R, Foote E, Ciccosanti C, Jiang M, Xiao R, Nair R, Everett J, Huang Y, Acton T, Rost B, Montelione G. NMR Solution Structure of a Tubulin folding cofactor B obtained from Arabidopsis thaliana: Northeast Structural Genomics Consortium target AR3436A Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16313 |
0.336 |
|
| 2009 |
Aramini J, Belote R, Ciccosanti C, Jiang M, Rost B, Nair R, Swapna G, Acton T, Xiao R, Everett J, Montelione G. Solution NMR structure of an O6-methylguanine DNA methyltransferase family protein from Vibrio parahaemolyticus. Northeast Structural Genomics Consortium target VpR247. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16272 |
0.379 |
|
| 2009 |
Wu Y, Eletsky A, Zhao L, Hua J, Sukumaran D, Jiang M, Foote E, Xiao R, Nair R, Everett J, Swapna GVT, Acton T, Rost B, Montelione G, Szyperski T. Solution structure of protein SRU_2040 from Salinibacter ruber (strain DSM 13855). Northeast Structural Genomics Consortium target SrR106 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16093 |
0.39 |
|
| 2009 |
Eletsky A, Wu Y, Sukumaran D, Lee H, Lee D, Jiang M, Foote E, Xiao R, Nair R, Everett J, Swapna GVT, Acton T, Rost B, Montelione G, Prestegard J, et al. Solution NMR structure of Bacteroides fragilis protein BF1650. Northeast Structural Genomics Consortium target BfR218 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16064 |
0.415 |
|
| 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_11 |
0.434 |
|
| 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 DOI: 10.4049/Jimmunol.181.9.6230 |
0.766 |
|
| 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 |
0.81 |
|
| 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 |
0.698 |
|
| 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 |
0.348 |
|
| 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 |
0.661 |
|
| 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 |
0.753 |
|
| 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 |
0.55 |
|
| 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 |
0.34 |
|
| 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 |
0.469 |
|
| 2008 |
Rost B, Casadio R, Fariselli P, Sander C. Transmembrane helices predicted at 95% accuracy Protein Science. 4: 521-533. PMID 7795533 DOI: 10.1002/Pro.5560040318 |
0.639 |
|
| 2008 |
Mills J, Zhang Q, Sukumaran D, Wang D, Jiang M, Foote E, Xiao R, Nair R, Everett J, Swapna GVT, Acton T, Rost B, Montelione G, Szyperski T. NMR solution structure of an uncharacterized protein from Chlorobium tepidum. Northeast Structural Genomics target CtR107 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr16097 |
0.416 |
|
| 2008 |
Ramelot T, Cort J, Zhao L, Jiang M, Foote E, Xiao R, Nair R, Baran M, Swapna GVT, Acton T, Rost B, Montelione G, Kennedy M. Solution NMR structure of HTH_XRE family transcriptional regulator BT_p548217 from Bacteroidesthetaiotaomicron. Northeast Structural Genomics Consortium Target BtR244. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15999 |
0.306 |
|
| 2008 |
Ramelot T, Ding K, Lee D, Jiang M, Ciccosanti C, Xiao R, Nair R, Everett J, Swapna GVT, Acton T, Rost B, Montelione G, Kennedy M. Solution NMR structure of the OB domain of Ta0387 from Thermoplasma acidophilum. Northeast Structural Genomics Consortium target TaR80b. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15902 |
0.329 |
|
| 2008 |
Aramini J, Maglaqui M, Jiang M, Ciccosanti C, Xiao R, Nair R, Everett J, Swapna G, Acton T, Rost B, Montelione G. SOLUTION NMR STRUCTURE OF the second OB-fold domain of replication protein A from Methanococcus maripaludis. NORTHEAST STRUCTURAL GENOMICS TARGET MrR110B. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15849 |
0.405 |
|
| 2008 |
Liu G, Wang H, Foote E, Jiang M, Xiao R, Swapna GVT, Nair R, Everett J, Acton T, Rost B, Montelione G. Nmr Chemical Shift Assignments Of Iron(Ii) Transport Protein A From Clostridium Thermocellum , Northeast Structural Genomics Consortium (Nesg) Target Vr131 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15837 |
0.355 |
|
| 2008 |
Liu G, Zhao L, Ciccosanti C, Jiang M, Xiao R, Swapna GVT, Nair R, Everett J, Acton T, Rost B, Montelione G. NMR CHEMICAL SHIFT ASSIGNMENTS OF PUTATIVE UNCHARACTERIZED PROTEIN. FROM METHANOCALDOCOCCUS JANNASCHII, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM (NESG) TARGET GsR195 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15833 |
0.418 |
|
| 2008 |
Rossi P, Xiao R, Maglaqui M, Foote E, Ciccosanti C, Swapna GVT, Acton T, Rost B, Everett J, Montelione G. Solution NMR Structure of the replication Factor A Related Protein from Methanobacterium thermoautotrophicum. Northeast Structural Genomics Target TR91A. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15819 |
0.398 |
|
| 2008 |
Ramelot T, Zhao L, Hamilton K, Maglaqui M, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G, Kennedy M. Solution NMR Structure of the folded C-terminal fragment of YiaD from Escherichia coli, Northeast Structural Genomics Consortium Target ER553. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15683 |
0.335 |
|
| 2008 |
Lee H, Wylie G, Bansal S, Wang X, Shastry R, Jiang M, Cunningham K, Ma L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, Montelione G, et al. Chemical Shift assignment of SeR13 from Staphylococcus Epidermidis, North East Structural Genomics Consortium Target SeR13 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15678 |
0.309 |
|
| 2008 |
Rossi P, Wang H, Jiang M, Foote E, Xiao R, Liu J, Swapna GVT, Acton T, Baran M, Rost B, Montelione G. Solution NMR structure of the uncharacterized protein from Rhodospirillum rubrum gene locus Rru_A0810. Northeast Structural Genomics Target RrR43. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15652 |
0.381 |
|
| 2008 |
Przybylski D, Rost B. Predicting Simplified Features of Protein Structure Bioinformatics-From Genomes to Therapies. 1: 261-295. DOI: 10.1002/9783527619368.ch9 |
0.418 |
|
| 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 |
0.847 |
|
| 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 |
0.487 |
|
| 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 |
0.71 |
|
| 2007 |
Liu J, Montelione GT, Rost B. Novel leverage of structural genomics. Nature Biotechnology. 25: 849-51. PMID 17687356 DOI: 10.1038/Nbt0807-849 |
0.331 |
|
| 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 |
0.711 |
|
| 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 |
0.67 |
|
| 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 |
0.785 |
|
| 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 |
0.678 |
|
| 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 |
0.345 |
|
| 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 |
0.776 |
|
| 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 |
0.548 |
|
| 2007 |
Ofran Y, Rost B. ISIS: Interaction sites identified from sequence Bioinformatics. 23: e13-e16. PMID 17237081 DOI: 10.1093/Bioinformatics/Btl303 |
0.747 |
|
| 2007 |
Liu G, Xiao R, Chen C, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G. SOLUTION NMR STRUCTURE OF UNCHARACTERIZED LIPOPROTEIN yajI FROM Escherichia coli: NORTHEAST STRUCTURAL GENOMICS TARGET ER540 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15542 |
0.331 |
|
| 2007 |
Wang X, Ho C, Janjua H, Cunningham K, Ma L, Xiao R, Liu J, Baran M, Acton T, Rost B, Montelione G, Bansal S, Prestegard J. Back bone chemical shifts of B. subtillis protein YkuJ, Northeast Structural Genomics Consortium Target SR360. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15529 |
0.364 |
|
| 2007 |
Aramini J, Wang D, Nwosu C, Owens L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, Montelione G. Solution NMR structure of uncharacterized protein Q5E7H1 from Vibrio fischeri. Northeast Structural Genomics target VfR117. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15491 |
0.417 |
|
| 2007 |
Ding K, Ramelot T, Cort J, Wang D, Nwosu C, Owens L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, Montelione G, Kennedy M. Solution NMR Structure of HI0947 from Haemophilus influenzae, Northeast Structural Genomics Consortium Target IR123 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15462 |
0.317 |
|
| 2007 |
Ramelot T, John C, Wang D, Nwosu C, Owens L, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G, Kennedy M. NMR Solution Structure of homodimer protein SO_2176 from Shewanella oneidensis. Northeast Structural Genomics Consortium Target SoR77. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15456 |
0.416 |
|
| 2007 |
Aramini J, Rossi P, Wang H, Nwosu C, Cunningham K, Ma L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, Montelione G. Solution NMR structure of PefI protein from Salmonella typhimurium. Northeast Structural Genomics target StR82. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15386 |
0.413 |
|
| 2007 |
Macnaughtan M, Weldeghiorghis T, Wang X, Bansal S, Tian F, Wang D, Janjua H, Cunningham K, Ma L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, et al. Northeast Structural Genomics Target SR478 Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15350 |
0.314 |
|
| 2007 |
Ding K, Ramelot T, Cort J, Wang H, Nwosu C, Cunningham K, Owens L, Ma L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, Montelione G, et al. NMR Structure of Protein YfgJ from Salmonella Typhimurium. Northeast Structural Genomics Target StR86. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15338 |
0.429 |
|
| 2007 |
Rossi P, Aramini J, Chen C, Nwosu C, Cunningham K, Owens L, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G. Structure of Staphylococcus saprophyticus CHAP domain protein. Northeast Structural Genomics Target SyR11. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15335 |
0.421 |
|
| 2007 |
Aramini J, Rossi P, Shastry R, Nwosu C, Cunningham K, Xiao R, Liu J, Baran M, Rajan P, Acton T, Rost B, Montelione G. Solution NMR structure of Tubulin polymerization-promoting protein family member 3 from Homo sapiens. Northeast Structural Genomics target HR387. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15329 |
0.396 |
|
| 2007 |
Ramelot T, Cort J, Wang H, Nwosu C, Cunningham K, Owens L, Ma L, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G, Kennedy M. NMR Solution Structure of Colwellia psychrerythraea protein CPS_2611. Northeast Structural Genomics target CsR4. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15317 |
0.414 |
|
| 2007 |
Ramelot T, Cort J, Wang H, Nwosu C, Cunningham K, Owens L, Ma L, Xiao R, Liu J, Baran M, Swapna GVT, Acton T, Rost B, Montelione G, Kennedy M. NMR solution structure of Vibrio parahaemolyticus VP2129 homodimer. Northeast Structural Genomics target VpR61. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15258 |
0.334 |
|
| 2007 |
Ding K, Ramelot T, Cort J, Chen C, Jiang M, Cunningham K, Ma L, Xiao R, Liu J, Baran M, Swapna G, Acton T, Rost B, Montelione G, Kennedy M. NMR Structure of E. Coli YehR Protein. Northeast Structural Genomics Target ER538. Journal of Back and Musculoskeletal Rehabilitation. DOI: 10.13018/Bmr15167 |
0.404 |
|
| 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 |
0.429 |
|
| 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 |
0.791 |
|
| 2006 |
Mika S, Rost B. Protein-protein interactions more conserved within species than across species. Plos Computational Biology. 2: e79. PMID 16854211 DOI: 10.1371/Journal.Pcbi.0020079 |
0.46 |
|
| 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 |
0.515 |
|
| 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 |
0.363 |
|
| 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 |
0.705 |
|
| 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 |
0.769 |
|
| 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 |
0.394 |
|
| 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 |
0.46 |
|
| 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 |
0.784 |
|
| 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 |
0.572 |
|
| 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 |
0.372 |
|
| 2005 |
Schlessinger A, Rost B. Protein flexibility and rigidity predicted from sequence. Proteins. 61: 115-26. PMID 16080156 DOI: 10.1002/Prot.20587 |
0.737 |
|
| 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 |
0.584 |
|
| 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 |
0.545 |
|
| 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 |
0.456 |
|
| 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 |
0.469 |
|
| 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 |
0.542 |
|
| 2005 |
Mika S, Rost B. NMPdb: Database of Nuclear Matrix Proteins. Nucleic Acids Research. 33: D160-3. PMID 15608168 DOI: 10.1093/Nar/Gki132 |
0.459 |
|
| 2005 |
Mika S, Rost B. Protein-protein interactions more conserved within than across species Plos Computational Biology. DOI: 10.1371/Journal.Pcbi.0020079.Eor |
0.419 |
|
| 2004 |
Powers R, Acton TB, Chiang Y, Rajan PK, Cort JR, Kennedy MA, Liu J, Ma L, Rost B, Montelione GT. (1)H, (13)C and (15)N assignments for the Archaeglobus fulgidis protein AF2095. Journal of Biomolecular Nmr. 30: 107-8. PMID 15452442 DOI: 10.1023/B:Jnmr.0000042947.19593.80 |
0.531 |
|
| 2004 |
Przybylski D, Rost B. Improving fold recognition without folds. Journal of Molecular Biology. 341: 255-69. PMID 15312777 DOI: 10.1016/J.Jmb.2004.05.041 |
0.81 |
|
| 2004 |
Liu J, Rost B. Sequence-based prediction of protein domains. Nucleic Acids Research. 32: 3522-30. PMID 15240828 DOI: 10.1093/Nar/Gkh684 |
0.538 |
|
| 2004 |
Mika S, Rost B. NLProt: extracting protein names and sequences from papers. Nucleic Acids Research. 32: W634-7. PMID 15215466 DOI: 10.1093/Nar/Gkh427 |
0.437 |
|
| 2004 |
Liu J, Rost B. CHOP: parsing proteins into structural domains. Nucleic Acids Research. 32: W569-71. PMID 15215452 DOI: 10.1093/Nar/Gkh481 |
0.499 |
|
| 2004 |
Nair R, Rost B. LOCnet and LOCtarget: sub-cellular localization for structural genomics targets. Nucleic Acids Research. 32: W517-21. PMID 15215440 DOI: 10.1093/Nar/Gkh441 |
0.514 |
|
| 2004 |
Rost B, Yachdav G, Liu J. The PredictProtein server. Nucleic Acids Research. 32: W321-6. PMID 15215403 DOI: 10.1093/Nar/Gkh377 |
0.493 |
|
| 2004 |
Liu J, Hegyi H, Acton TB, Montelione GT, Rost B. Automatic target selection for structural genomics on eukaryotes. Proteins. 56: 188-200. PMID 15211504 DOI: 10.1002/Prot.20012 |
0.435 |
|
| 2004 |
Wunderlich Z, Acton TB, Liu J, Kornhaber G, Everett J, Carter P, Lan N, Echols N, Gerstein M, Rost B, Montelione GT. The protein target list of the Northeast Structural Genomics Consortium. Proteins. 56: 181-7. PMID 15211503 DOI: 10.1002/Prot.20091 |
0.434 |
|
| 2004 |
Wrzeszczynski KO, Rost B. Annotating proteins from endoplasmic reticulum and Golgi apparatus in eukaryotic proteomes. Cellular and Molecular Life Sciences : Cmls. 61: 1341-53. PMID 15170512 DOI: 10.1007/S00018-004-4005-3 |
0.775 |
|
| 2004 |
Bigelow HR, Petrey DS, Liu J, Przybylski D, Rost B. Predicting transmembrane beta-barrels in proteomes. Nucleic Acids Research. 32: 2566-77. PMID 15141026 DOI: 10.1093/Nar/Gkh580 |
0.806 |
|
| 2004 |
Liu J, Rost B. CHOP proteins into structural domain-like fragments. Proteins. 55: 678-88. PMID 15103630 DOI: 10.1002/Prot.20095 |
0.42 |
|
| 2004 |
Wrzeszczynski KO, Rost B. Cataloging proteins in cell cycle control. Methods in Molecular Biology (Clifton, N.J.). 241: 219-33. PMID 14970657 DOI: 10.1385/1-59259-646-0:219 |
0.737 |
|
| 2004 |
Rost B, Liu J, Nair R, Wrzeszczynski KO, Ofran Y. Automatic prediction of protein function. Cellular and Molecular Life Sciences : Cmls. 60: 2637-50. PMID 14685688 DOI: 10.1007/S00018-003-3114-8 |
0.852 |
|
| 2004 |
Nair R, Rost B. Better prediction of sub-cellular localization by combining evolutionary and structural information. Proteins. 53: 917-30. PMID 14635133 DOI: 10.1002/Prot.10507 |
0.594 |
|
| 2004 |
Nair R, Rost B. Inferring sub-cellular localization through automated lexical analysis. Bioinformatics (Oxford, England). S78-86. PMID 12169534 DOI: 10.1093/BIOINFORMATICS/18.SUPPL_1.S78 |
0.337 |
|
| 2004 |
Nair R, Rost B. Annotating protein function through lexical analysis Ai Magazine. 25: 45-56. DOI: 10.1609/Aimag.V25I1.1746 |
0.45 |
|
| 2003 |
Aramini JM, Huang YJ, Cort JR, Goldsmith-Fischman S, Xiao R, Shih LY, Ho CK, Liu J, Rost B, Honig B, Kennedy MA, Acton TB, Montelione GT. Solution NMR structure of the 30S ribosomal protein S28E from Pyrococcus horikoshii. Protein Science : a Publication of the Protein Society. 12: 2823-30. PMID 14627742 DOI: 10.1110/Ps.03359003 |
0.451 |
|
| 2003 |
Eyrich VA, Przybylski D, Koh IY, Grana O, Pazos F, Valencia A, Rost B. CAFASP3 in the spotlight of EVA. Proteins. 53: 548-60. PMID 14579345 DOI: 10.1002/Prot.10534 |
0.803 |
|
| 2003 |
Liu J, Rost B. NORSp: Predictions of long regions without regular secondary structure. Nucleic Acids Research. 31: 3833-5. PMID 12824431 DOI: 10.1093/Nar/Gkg515 |
0.486 |
|
| 2003 |
Mika S, Rost B. UniqueProt: Creating representative protein sequence sets. Nucleic Acids Research. 31: 3789-91. PMID 12824419 DOI: 10.1093/Nar/Gkg620 |
0.332 |
|
| 2003 |
Kernytsky A, Rost B. Static benchmarking of membrane helix predictions. Nucleic Acids Research. 31: 3642-4. PMID 12824384 DOI: 10.1093/Nar/Gkg532 |
0.423 |
|
| 2003 |
Nair R, Rost B. LOC3D: annotate sub-cellular localization for protein structures. Nucleic Acids Research. 31: 3337-40. PMID 12824321 DOI: 10.1093/Nar/Gkg514 |
0.537 |
|
| 2003 |
Koh IY, Eyrich VA, Marti-Renom MA, Przybylski D, Madhusudhan MS, Eswar N, Graña O, Pazos F, Valencia A, Sali A, Rost B. EVA: Evaluation of protein structure prediction servers. Nucleic Acids Research. 31: 3311-5. PMID 12824315 DOI: 10.1093/Nar/Gkg619 |
0.834 |
|
| 2003 |
Eyrich VA, Rost B. META-PP: single interface to crucial prediction servers. Nucleic Acids Research. 31: 3308-10. PMID 12824314 DOI: 10.1093/Nar/Gkg572 |
0.471 |
|
| 2003 |
Rost B, Liu J. The PredictProtein server. Nucleic Acids Research. 31: 3300-4. PMID 12824312 DOI: 10.1093/nar/gkg508 |
0.374 |
|
| 2003 |
Carter P, Andersen CA, Rost B. DSSPcont: Continuous secondary structure assignments for proteins. Nucleic Acids Research. 31: 3293-5. PMID 12824310 DOI: 10.1093/Nar/Gkg626 |
0.382 |
|
| 2003 |
Ofran Y, Rost B. Predicted protein-protein interaction sites from local sequence information. Febs Letters. 544: 236-9. PMID 12782323 DOI: 10.1016/S0014-5793(03)00456-3 |
0.777 |
|
| 2003 |
Zidovetzki R, Rost B, Armstrong DL, Pecht I. Transmembrane domains in the functions of Fc receptors. Biophysical Chemistry. 100: 555-75. PMID 12646391 DOI: 10.1016/S0301-4622(02)00306-X |
0.355 |
|
| 2003 |
Liu J, Rost B. Domains, motifs and clusters in the protein universe. Current Opinion in Chemical Biology. 7: 5-11. PMID 12547420 DOI: 10.1016/S1367-5931(02)00003-0 |
0.471 |
|
| 2003 |
Carter P, Liu J, Rost B. PEP: Predictions for Entire Proteomes. Nucleic Acids Research. 31: 410-3. PMID 12520036 DOI: 10.1093/Nar/Gkg102 |
0.494 |
|
| 2003 |
Nair R, Carter P, Rost B. NLSdb: database of nuclear localization signals. Nucleic Acids Research. 31: 397-9. PMID 12520032 DOI: 10.1093/Nar/Gkg001 |
0.474 |
|
| 2003 |
Ofran Y, Rost B. Analysing six types of protein-protein interfaces. Journal of Molecular Biology. 325: 377-87. PMID 12488102 DOI: 10.1016/S0022-2836(02)01223-8 |
0.727 |
|
| 2003 |
Nair R, Rost B. Sequence conserved for subcellular localization. Protein Science : a Publication of the Protein Society. 11: 2836-47. PMID 12441382 DOI: 10.1110/Ps.0207402 |
0.468 |
|
| 2003 |
Rost B. Did evolution leap to create the protein universe? Current Opinion in Structural Biology. 12: 409-16. PMID 12127462 DOI: 10.1016/S0959-440X(02)00337-8 |
0.507 |
|
| 2003 |
Rost B. Prediction in 1D: secondary structure, membrane helices, and accessibility. Methods of Biochemical Analysis. 44: 559-587. DOI: 10.1002/0471721204.Ch28 |
0.356 |
|
| 2003 |
Andersen CAF, Rost B. Secondary structure assignment. Methods of Biochemical Analysis. 44: 339-363. DOI: 10.1002/0471721204.Ch17 |
0.337 |
|
| 2002 |
Chen CP, Rost B. State-of-the-art in membrane protein prediction Appl Bioinformatics. 1: 21-35. PMID 15130854 |
0.319 |
|
| 2002 |
Chen CP, Kernytsky A, Rost B. Transmembrane helix predictions revisited Protein Science. 11: 2774-2791. PMID 12441377 DOI: 10.1110/Ps.0214502 |
0.457 |
|
| 2002 |
Chen CP, Rost B. Long membrane helices and short loops predicted less accurately Protein Science. 11: 2766-2773. PMID 12441376 DOI: 10.1110/Ps.0214602 |
0.412 |
|
| 2002 |
Liu J, Tan H, Rost B. Loopy proteins appear conserved in evolution. Journal of Molecular Biology. 322: 53-64. PMID 12215414 DOI: 10.1016/S0022-2836(02)00736-2 |
0.536 |
|
| 2002 |
Liu J, Rost B. Target space for structural genomics revisited. Bioinformatics (Oxford, England). 18: 922-33. PMID 12117789 DOI: 10.1093/Bioinformatics/18.7.922 |
0.469 |
|
| 2002 |
Rost B, Honig B, Valencia A. Bioinformatics in structural genomics Bioinformatics. 18: 897-898. PMID 12117786 DOI: 10.1093/Bioinformatics/18.7.897 |
0.496 |
|
| 2002 |
Rost B. Enzyme function less conserved than anticipated. Journal of Molecular Biology. 318: 595-608. PMID 12051862 DOI: 10.1016/S0022-2836(02)00016-5 |
0.406 |
|
| 2002 |
Marti-Renom MA, Madhusudhan MS, Fiser A, Rost B, Sali A. Reliability of assessment of protein structure prediction methods. Structure. 10: 435-440. PMID 12005441 DOI: 10.1016/S0969-2126(02)00731-1 |
0.457 |
|
| 2002 |
Pollastri G, Przybylski D, Rost B, Baldi P. Improving the prediction of protein secondary structure in three and eight classes using recurrent neural networks and profiles. Proteins. 47: 228-35. PMID 11933069 DOI: 10.1002/Prot.10082 |
0.45 |
|
| 2002 |
Andersen CA, Palmer AG, Brunak S, Rost B. Continuum secondary structure captures protein flexibility. Structure (London, England : 1993). 10: 175-84. PMID 11839303 DOI: 10.1016/S0969-2126(02)00700-1 |
0.407 |
|
| 2002 |
Przybylski D, Rost B. Alignments grow, secondary structure prediction improves. Proteins. 46: 197-205. PMID 11807948 DOI: 10.1002/Prot.10029 |
0.79 |
|
| 2001 |
Rost B, Eyrich VA. EVA: large-scale analysis of secondary structure prediction. Proteins. 192-9. PMID 11835497 DOI: 10.1002/Prot.10051 |
0.488 |
|
| 2001 |
Fischer D, Elofsson A, Rychlewski L, Pazos F, Valencia A, Rost B, Ortiz AR, Dunbrack RL. CAFASP2: the second critical assessment of fully automated structure prediction methods. Proteins. 171-83. PMID 11835495 DOI: 10.1002/Prot.10036 |
0.57 |
|
| 2001 |
Eyrich VA, Martí-Renom MA, Przybylski D, Madhusudhan MS, Fiser A, Pazos F, Valencia A, Sali A, Rost B. EVA: continuous automatic evaluation of protein structure prediction servers. Bioinformatics (Oxford, England). 17: 1242-3. PMID 11751240 DOI: 10.1093/Bioinformatics/17.12.1242 |
0.836 |
|
| 2001 |
Liu J, Rost B. Comparing function and structure between entire proteomes. Protein Science : a Publication of the Protein Society. 10: 1970-9. PMID 11567088 DOI: 10.1110/Ps.10101 |
0.568 |
|
| 2001 |
Rost B. Review: protein secondary structure prediction continues to rise. Journal of Structural Biology. 134: 204-18. PMID 11551180 DOI: 10.1006/Jsbi.2001.4336 |
0.525 |
|
| 2001 |
Rost B, Sander C. Third generation prediction of secondary structures. Methods in Molecular Biology (Clifton, N.J.). 143: 71-95. PMID 11084903 DOI: 10.1385/1-59259-368-2:71 |
0.576 |
|
| 2000 |
Cokol M, Nair R, Rost B. Finding nuclear localization signals. Embo Reports. 1: 411-415. PMID 11258480 DOI: 10.1093/Embo-Reports/Kvd092 |
0.46 |
|
| 2000 |
Pazos F, Rost B, Valencia A. A platform for integrating threading results with protein family analyses. Bioinformatics (Oxford, England). 15: 1062-3. PMID 10745999 DOI: 10.1093/Bioinformatics/15.12.1062 |
0.58 |
|
| 2000 |
Olmea O, Rost B, Valencia A. Effective use of sequence correlation and conservation in fold recognition. Journal of Molecular Biology. 293: 1221-39. PMID 10547297 DOI: 10.1006/Jmbi.1999.3208 |
0.589 |
|
| 1999 |
Fischer D, Barret C, Bryson K, Elofsson A, Godzik A, Jones D, Karplus KJ, Kelley LA, MacCallum RM, Pawowski K, Rost B, Rychlewski L, Sternberg M. CAFASP-1: critical assessment of fully automated structure prediction methods. Proteins. 209-17. PMID 10526371 DOI: 10.1002/(Sici)1097-0134(1999)37:3+<209::Aid-Prot27>3.0.Co;2-Y |
0.471 |
|
| 1999 |
Rost B. Twilight zone of protein sequence alignments. Protein Engineering. 12: 85-94. PMID 10195279 DOI: 10.1093/Protein/12.2.85 |
0.466 |
|
| 1999 |
Zemla A, Venclovas Č, Fidelis K, Rost B. A modified definition of Sov, a segment-based measure for protein secondary structure prediction assessment. Proteins. 34: 220-223. PMID 10022357 DOI: 10.1002/(Sici)1097-0134(19990201)34:2<220::Aid-Prot7>3.0.Co;2-K |
0.451 |
|
| 1998 |
Zidovetzki R, Rost B, Pecht I. Role of transmembrane domains in the functions of B- and T-cell receptors Immunology Letters. 64: 97-107. PMID 9870660 DOI: 10.1016/S0165-2478(98)00100-X |
0.308 |
|
| 1998 |
Rost B. Marrying structure and genomics Structure. 6: 259-263. PMID 9551548 DOI: 10.1016/S0969-2126(98)00029-X |
0.463 |
|
| 1998 |
Andrade MA, O'Donoghue SI, Rost B. Adaptation of protein surfaces to subcellular location. Journal of Molecular Biology. 276: 517-25. PMID 9512720 DOI: 10.1006/Jmbi.1997.1498 |
0.497 |
|
| 1997 |
Rost B, O'Donoghue S. Sisyphus and prediction of protein structure. Computer Applications in the Biosciences : Cabios. 13: 345-56. PMID 9283749 DOI: 10.1093/Bioinformatics/13.4.345 |
0.494 |
|
| 1997 |
Rost B, Schneider R, Sander C. Protein fold recognition by prediction-based threading. Journal of Molecular Biology. 270: 471-80. PMID 9237912 DOI: 10.1006/Jmbi.1997.1101 |
0.699 |
|
| 1997 |
Rost B. Protein structures sustain evolutionary drift Folding and Design. 2. PMID 9218962 DOI: 10.1016/S1359-0278(97)00059-X |
0.516 |
|
| 1997 |
Rost B. Better 1D predictions by experts with machines Proteins. 29: 192-197. DOI: 10.1002/(Sici)1097-0134(1997)1+<192::Aid-Prot25>3.0.Co;2-I |
0.49 |
|
| 1996 |
Rost B, Fariselli P, Casadio R. Topology prediction for helical transmembrane proteins at 86% accuracy. Protein Science. 5: 1704-1718. PMID 8844859 DOI: 10.1002/Pro.5560050824 |
0.53 |
|
| 1996 |
Rost B, Sander C. Bridging the Protein Sequence-Structure Gap by Structure Predictions Annual Review of Biophysics and Biomolecular Structure. 25: 113-136. PMID 8800466 DOI: 10.1146/Annurev.Bb.25.060196.000553 |
0.689 |
|
| 1996 |
Rost B, Valencia A. Pitfalls of protein sequence analysis. Commentary Current Opinion in Biotechnology. 7: 457-461. PMID 8768907 DOI: 10.1016/S0958-1669(96)80124-8 |
0.606 |
|
| 1996 |
Rost B. PHD: predicting one-dimensional protein structure by profile-based neural networks. Methods in Enzymology. 266: 525-539. PMID 8743704 DOI: 10.1016/S0076-6879(96)66033-9 |
0.517 |
|
| 1995 |
Rost B, Sander C. Progress of 1D protein structure prediction at last. Proteins. 23: 295-300. PMID 8710823 DOI: 10.1002/Prot.340230304 |
0.674 |
|
| 1994 |
Rost B, Sander C, Schneider R. Redefining the goals of protein secondary structure prediction. Journal of Molecular Biology. 235: 13-26. PMID 8289237 DOI: 10.1016/S0022-2836(05)80007-5 |
0.713 |
|
| 1994 |
Rost B, Sander C, Schneider R. PHD--an automatic mail server for protein secondary structure prediction. Computer Applications in the Biosciences : Cabios. 10: 53-60. PMID 8193956 DOI: 10.1093/Bioinformatics/10.1.53 |
0.759 |
|
| 1994 |
Rost B, Sander C. Combining evolutionary information and neural networks to predict protein secondary structure. Proteins. 19: 55-72. PMID 8066087 DOI: 10.1002/Prot.340190108 |
0.642 |
|
| 1994 |
Rost B, Sander C. Conservation and prediction of solvent accessibility in protein families Proteins. 20: 216-226. PMID 7892171 DOI: 10.1002/Prot.340200303 |
0.625 |
|
| 1994 |
Rost B, Sander C. Structure prediction of proteins--where are we now? Current Opinion in Biotechnology. 5: 372-380. PMID 7765169 DOI: 10.1016/0958-1669(94)90045-0 |
0.618 |
|
| 1993 |
Rost B, Schneider R, Sander C. Progress in protein structure prediction? Trends in Biochemical Sciences. 18: 120-3. PMID 8493721 DOI: 10.1016/0968-0004(93)90017-H |
0.738 |
|
| 1993 |
Rost B, Sander C. Improved prediction of protein secondary structure by use of sequence profiles and neural networks Proceedings of the National Academy of Sciences of the United States of America. 90: 7558-7562. PMID 8356056 DOI: 10.1073/Pnas.90.16.7558 |
0.66 |
|
| 1993 |
Rost B, Sander C. Prediction of Protein Secondary Structure at Better than 70% Accuracy Journal of Molecular Biology. 232: 584-599. PMID 8345525 DOI: 10.1006/Jmbi.1993.1413 |
0.669 |
|
| 1993 |
Rost B, sander C. Secondary structure prediction of all-helical proteins in two states. Protein Engineering. 6: 831-836. PMID 8309930 DOI: 10.1093/Protein/6.8.831 |
0.616 |
|
| 1993 |
Rost B, Sander C. Jury returns on structure prediction. Nature. 360: 540. PMID 1281284 DOI: 10.1038/360540B0 |
0.574 |
|
| 1992 |
Rost B, Sander C. EXERCISING MULTI-LAYERED NETWORKS ON PROTEIN SECONDARY STRUCTURE International Journal of Neural Systems. 3: 209-220. DOI: 10.1142/S0129065792000541 |
0.55 |
|
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