| Year |
Citation |
Score |
| 2024 |
Draizen EJ, Readey J, Mura C, Bourne PE. Prop3D: A flexible, Python-based platform for machine learning with protein structural properties and biophysical data. Bmc Bioinformatics. 25: 11. PMID 38177985 DOI: 10.1186/s12859-023-05586-5 |
0.81 |
|
| 2023 |
Mura C, Bourne PE. Ten simple rules for serving as an editor. Plos Computational Biology. 19: e1010911. PMID 36862619 DOI: 10.1371/journal.pcbi.1010911 |
0.638 |
|
| 2023 |
Cai T, Xie L, Zhang S, Chen M, He D, Badkul A, Liu Y, Namballa HK, Dorogan M, Harding WW, Mura C, Bourne PE, Xie L. End-to-end sequence-structure-function meta-learning predicts genome-wide chemical-protein interactions for dark proteins. Plos Computational Biology. 19: e1010851. PMID 36652496 DOI: 10.1371/journal.pcbi.1010851 |
0.762 |
|
| 2022 |
Bourne PE, Draizen EJ, Mura C. The curse of the protein ribbon diagram. Plos Biology. 20: e3001901. PMID 36508416 DOI: 10.1371/journal.pbio.3001901 |
0.782 |
|
| 2022 |
Gallo K, Goede A, Mura C, Abel R, Moahamed B, Preissner S, Nahles S, Heiland M, Bourne PE, Preissner R, Mallach M. A Comparative Analysis of COVID-19 Vaccines Based on over 580,000 Cases from the Vaccination Adverse Event Reporting System. Vaccines. 10. PMID 35335040 DOI: 10.3390/vaccines10030408 |
0.616 |
|
| 2022 |
Gohlke BO, Zincke F, Eckert A, Kobelt D, Preissner S, Liebeskind JM, Gunkel N, Putzker K, Lewis J, Preissner S, Kortüm B, Walther W, Mura C, Bourne PE, Stein U, et al. Real-world evidence for preventive effects of statins on cancer incidence: A trans-Atlantic analysis. Clinical and Translational Medicine. 12: e726. PMID 35184411 DOI: 10.1002/ctm2.726 |
0.622 |
|
| 2021 |
Zhao Z, Xie L, Bourne PE. Correction to "Structural Insights into Characterizing Binding Sites in Epidermal Growth Factor Receptor Kinase Mutants". Journal of Chemical Information and Modeling. PMID 34929085 DOI: 10.1021/acs.jcim.1c01357 |
0.375 |
|
| 2021 |
Cai T, Xie L, Chen M, Liu Y, He D, Zhang S, Mura C, Bourne P, Xie L. Exploration of Dark Chemical Genomics Space via Portal Learning: Applied to Targeting the Undruggable Genome and COVID-19 Anti-Infective Polypharmacology. Research Square. PMID 34873596 DOI: 10.21203/rs.3.rs-1109318/v1 |
0.713 |
|
| 2021 |
Mura C, Preissner S, Preissner R, Bourne PE. A Birds-Eye (Re)View of Acid-Suppression Drugs, COVID-19, and the Highly Variable Literature. Frontiers in Pharmacology. 12: 700703. PMID 34456726 DOI: 10.3389/fphar.2021.700703 |
0.665 |
|
| 2021 |
Mura C, Preissner S, Nahles S, Heiland M, Bourne PE, Preissner R. Real-world evidence for improved outcomes with histamine antagonists and aspirin in 22,560 COVID-19 patients. Signal Transduction and Targeted Therapy. 6: 267. PMID 34262013 DOI: 10.1038/s41392-021-00689-y |
0.619 |
|
| 2021 |
Donlan AN, Sutherland TE, Marie C, Preissner S, Bradley BT, Carpenter RM, Sturek JM, Ma JZ, Moreau GB, Donowitz JR, Buck GA, Serrano MG, Burgess SL, Abhyankar MM, Mura C, ... Bourne PE, et al. IL-13 is a driver of COVID-19 severity. Jci Insight. PMID 34185704 DOI: 10.1172/jci.insight.150107 |
0.62 |
|
| 2021 |
Donlan AN, Sutherland TE, Marie C, Preissner S, Bradley BT, Carpenter RM, Sturek JM, Ma JZ, Moreau GB, Donowitz JR, Buck GA, Serrano MG, Burgess SL, Abhyankar MM, Mura C, ... Bourne PE, et al. IL-13 is a driver of COVID-19 severity. Medrxiv : the Preprint Server For Health Sciences. PMID 33688686 DOI: 10.1101/2020.06.18.20134353 |
0.622 |
|
| 2020 |
Abel R, Paredes Ramos M, Chen Q, Pérez-Sánchez H, Coluzzi F, Rocco M, Marchetti P, Mura C, Simmaco M, Bourne PE, Preissner R, Banerjee P. Computational Prediction of Potential Inhibitors of the Main Protease of SARS-CoV-2. Frontiers in Chemistry. 8: 590263. PMID 33425850 DOI: 10.3389/fchem.2020.590263 |
0.665 |
|
| 2020 |
Seeland U, Coluzzi F, Simmaco M, Mura C, Bourne PE, Heiland M, Preissner R, Preissner S. Evidence for treatment with estradiol for women with SARS-CoV-2 infection. Bmc Medicine. 18: 369. PMID 33234138 DOI: 10.1186/s12916-020-01851-z |
0.626 |
|
| 2020 |
Mura C, Chalupa M, Newbury AM, Chalupa J, Bourne PE. Ten simple rules for starting research in your late teens. Plos Computational Biology. 16: e1008403. PMID 33211694 DOI: 10.1371/journal.pcbi.1008403 |
0.63 |
|
| 2020 |
Zhao Z, Bourne PE. Structural Insights into the Binding Modes of Viral RNA-Dependent RNA Polymerases Using a Function-Site Interaction Fingerprint Method for RNA Virus Drug Discovery. Journal of Proteome Research. PMID 32946692 DOI: 10.1021/Acs.Jproteome.0C00623 |
0.306 |
|
| 2019 |
Mura C, Veretnik S, Bourne PE. The Urfold: Structural Similarity Just above the Superfold Level? Protein Science : a Publication of the Protein Society. PMID 31599042 DOI: 10.1002/Pro.3742 |
0.811 |
|
| 2019 |
Bliven SE, Lafita A, Rose PW, Capitani G, Prlić A, Bourne PE. Analyzing the symmetrical arrangement of structural repeats in proteins with CE-Symm. Plos Computational Biology. 15: e1006842. PMID 31009453 DOI: 10.1371/Journal.Pcbi.1006842 |
0.483 |
|
| 2019 |
Zhao Z, Xie L, Bourne PE. Structural Insights into Characterizing Binding Sites in Epidermal Growth Factor Receptor Kinase Mutants. Journal of Chemical Information and Modeling. 59: 453-462. PMID 30582689 DOI: 10.1021/Acs.Jcim.8B00458 |
0.471 |
|
| 2018 |
Youkharibache P, Veretnik S, Li Q, Stanek KA, Mura C, Bourne PE. The Small β-Barrel Domain: A Survey-Based Structural Analysis. Structure (London, England : 1993). PMID 30393050 DOI: 10.1016/J.Str.2018.09.012 |
0.812 |
|
| 2018 |
Mura C, Draizen EJ, Bourne PE. Structural biology meets data science: does anything change? Current Opinion in Structural Biology. 52: 95-102. PMID 30267935 DOI: 10.1016/J.Sbi.2018.09.003 |
0.798 |
|
| 2017 |
Zhao Z, Xie L, Bourne PE. Insights into the binding mode of MEK type-III inhibitors. A step towards discovering and designing allosteric kinase inhibitors across the human kinome. Plos One. 12: e0179936. PMID 28628649 DOI: 10.1371/Journal.Pone.0179936 |
0.469 |
|
| 2017 |
Gao J, Prlic A, Bi C, Bluhm WF, Dimitropoulos D, Xu D, Bourne PE, Rose PW. BioJava-ModFinder: identification of protein modifications in 3D structures from the Protein Data Bank. Bioinformatics (Oxford, England). PMID 28334105 DOI: 10.1093/Bioinformatics/Btx101 |
0.464 |
|
| 2017 |
Zhao Z, Liu Q, Bliven S, Xie L, Bourne PE. Determining cysteines available for covalent inhibition across the human kinome. Journal of Medicinal Chemistry. PMID 28326775 DOI: 10.1021/Acs.Jmedchem.6B01815 |
0.491 |
|
| 2016 |
Xie L, Draizen EJ, Bourne PE. Harnessing Big Data for Systems Pharmacology. Annual Review of Pharmacology and Toxicology. PMID 27814027 DOI: 10.1146/Annurev-Pharmtox-010716-104659 |
0.79 |
|
| 2016 |
Wilkinson MD, Dumontier M, Aalbersberg IJ, Appleton G, Axton M, Baak A, Blomberg N, Boiten JW, da Silva Santos LB, Bourne PE, Bouwman J, Brookes AJ, Clark T, Crosas M, Dillo I, et al. The FAIR Guiding Principles for scientific data management and stewardship. Scientific Data. 3: 160018. PMID 26978244 DOI: 10.1038/Sdata.2016.18 |
0.303 |
|
| 2016 |
Brunk E, Mih N, Monk J, Zhang Z, O'Brien EJ, Bliven SE, Chen K, Chang RL, Bourne PE, Palsson BO. Systems biology of the structural proteome. Bmc Systems Biology. 10: 26. PMID 26969117 DOI: 10.1186/S12918-016-0271-6 |
0.678 |
|
| 2016 |
Zhao Z, Xie L, Xie L, Bourne PE. Delineation of polypharmacology across the human structural kinome using a functional site interaction fingerprint approach. Journal of Medicinal Chemistry. PMID 26929980 DOI: 10.1021/Acs.Jmedchem.5B02041 |
0.488 |
|
| 2016 |
Zhao Z, Martin C, Fan R, Bourne PE, Xie L. Drug repurposing to target Ebola virus replication and virulence using structural systems pharmacology. Bmc Bioinformatics. 17: 90. PMID 26887654 DOI: 10.1186/S12859-016-0941-9 |
0.495 |
|
| 2015 |
Xie L, Bourne PE. Developing multi-target therapeutics to fine-tune the evolutionary dynamics of the cancer ecosystem. Frontiers in Pharmacology. 6: 209. PMID 26441664 DOI: 10.3389/Fphar.2015.00209 |
0.41 |
|
| 2015 |
Tsai LC, Xie L, Dore K, Xie L, Del Rio JC, King CC, Martinez-Ariza G, Hulme C, Malinow R, Bourne PE, Newton AC. Zeta Inhibitory Peptide Disrupts Electrostatic Interactions That Maintain Atypical Protein Kinase C in Its Active Conformation on the Scaffold p62. The Journal of Biological Chemistry. PMID 26187466 DOI: 10.1074/Jbc.M115.676221 |
0.5 |
|
| 2015 |
Bourne PE, Brenner SE, Eisen MB. Ten Years of PLoS‡ Computational Biology: A Decade of Appreciation and Innovation. Plos Computational Biology. 11: e1004317. PMID 26107720 DOI: 10.1371/Journal.Pcbi.1004317 |
0.301 |
|
| 2015 |
Bliven SE, Bourne PE, Prlić A. Detection of circular permutations within protein structures using CE-CP. Bioinformatics (Oxford, England). 31: 1316-8. PMID 25505094 DOI: 10.1093/Bioinformatics/Btu823 |
0.444 |
|
| 2015 |
Rose PW, Prli? A, Bi C, Bluhm WF, Christie CH, Dutta S, Green RK, Goodsell DS, Westbrook JD, Woo J, Young J, Zardecki C, Berman HM, Bourne PE, Burley SK. The RCSB Protein Data Bank: views of structural biology for basic and applied research and education. Nucleic Acids Research. 43: D345-56. PMID 25428375 DOI: 10.1093/Nar/Gku1214 |
0.444 |
|
| 2015 |
Quinn GB, Bi C, Christie CH, Pang K, Prli? A, Nakane T, Zardecki C, Voigt M, Berman HM, Bourne PE, Rose PW. RCSB PDB Mobile: iOS and Android mobile apps to provide data access and visualization to the RCSB Protein Data Bank. Bioinformatics (Oxford, England). 31: 126-7. PMID 25183487 DOI: 10.1093/Bioinformatics/Btu596 |
0.34 |
|
| 2014 |
Rougier NP, Droettboom M, Bourne PE. Ten simple rules for better figures. Plos Computational Biology. 10: e1003833. PMID 25210732 DOI: 10.1371/Journal.Pcbi.1003833 |
0.303 |
|
| 2014 |
Xie L, Ge X, Tan H, Xie L, Zhang Y, Hart T, Yang X, Bourne PE. Towards structural systems pharmacology to study complex diseases and personalized medicine. Plos Computational Biology. 10: e1003554. PMID 24830652 DOI: 10.1371/Journal.Pcbi.1003554 |
0.51 |
|
| 2014 |
Myers-Turnbull D, Bliven SE, Rose PW, Aziz ZK, Youkharibache P, Bourne PE, Prli? A. Systematic detection of internal symmetry in proteins using CE-Symm. Journal of Molecular Biology. 426: 2255-68. PMID 24681267 DOI: 10.1016/J.Jmb.2014.03.010 |
0.454 |
|
| 2014 |
Ng C, Hauptman R, Zhang Y, Bourne PE, Xie L. Anti-infectious drug repurposing using an integrated chemical genomics and structural systems biology approach. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 136-47. PMID 24297541 |
0.404 |
|
| 2013 |
Garijo D, Kinnings S, Xie L, Xie L, Zhang Y, Bourne PE, Gil Y. Quantifying reproducibility in computational biology: the case of the tuberculosis drugome. Plos One. 8: e80278. PMID 24312207 DOI: 10.1371/Journal.Pone.0080278 |
0.486 |
|
| 2013 |
Chang RL, Xie L, Bourne PE, Palsson BO. Antibacterial mechanisms identified through structural systems pharmacology. Bmc Systems Biology. 7: 102. PMID 24112686 DOI: 10.1186/1752-0509-7-102 |
0.723 |
|
| 2013 |
Xie L, Ng C, Ali T, Valencia R, Ferreira BL, Xue V, Tanweer M, Zhou D, Haddad GG, Bourne PE, Xie L. Multiscale modeling of the causal functional roles of nsSNPs in a genome-wide association study: application to hypoxia. Bmc Genomics. 14: S9. PMID 23819581 DOI: 10.1186/1471-2164-14-S3-S9 |
0.535 |
|
| 2013 |
Rose PW, Bi C, Bluhm WF, Christie CH, Dimitropoulos D, Dutta S, Green RK, Goodsell DS, Prlic A, Quesada M, Quinn GB, Ramos AG, Westbrook JD, Young J, Zardecki C, ... ... Bourne PE, et al. The RCSB Protein Data Bank: new resources for research and education. Nucleic Acids Research. 41: D475-82. PMID 23193259 DOI: 10.1093/Nar/Gks1200 |
0.401 |
|
| 2012 |
Prlić A, Yates A, Bliven SE, Rose PW, Jacobsen J, Troshin PV, Chapman M, Gao J, Koh CH, Foisy S, Holland R, Rimsa G, Heuer ML, Brandstätter-Müller H, Bourne PE, et al. BioJava: an open-source framework for bioinformatics in 2012. Bioinformatics (Oxford, England). 28: 2693-5. PMID 22877863 DOI: 10.1093/Bioinformatics/Bts494 |
0.418 |
|
| 2012 |
Ho Sui SJ, Lo R, Fernandes AR, Caulfield MD, Lerman JA, Xie L, Bourne PE, Baillie DL, Brinkman FS. Raloxifene attenuates Pseudomonas aeruginosa pyocyanin production and virulence. International Journal of Antimicrobial Agents. 40: 246-51. PMID 22819149 DOI: 10.1016/J.Ijantimicag.2012.05.009 |
0.435 |
|
| 2012 |
Xie L, Xie L, Kinnings SL, Bourne PE. Novel computational approaches to polypharmacology as a means to define responses to individual drugs. Annual Review of Pharmacology and Toxicology. 52: 361-79. PMID 22017683 DOI: 10.1146/Annurev-Pharmtox-010611-134630 |
0.439 |
|
| 2012 |
Dickin R, Hall CJ, Taylor LK, Collings AM, Nussinov R, Bourne PE. A review of 2011 for plos computational biology Plos Computational Biology. 8. DOI: 10.1371/Journal.Pcbi.1002387 |
0.307 |
|
| 2012 |
Evangelidis T, Bourne PE, Xie L. An integrated workflow for proteome-wide off-target identification and polypharmacology drug design Proceedings - 2012 Ieee International Conference On Bioinformatics and Biomedicine Workshops, Bibmw 2012. 32-39. DOI: 10.1109/BIBMW.2012.6470348 |
0.419 |
|
| 2012 |
Xie L, Kinnings SL, Bourne PE. Predicting the Polypharmacology of Drugs: Identifying New Uses through Chemoinformatics, Structural Informatics, and Molecular Modeling-Based Approaches Drug Repositioning: Bringing New Life to Shelved Assets and Existing Drugs. 163-205. DOI: 10.1002/9781118274408.ch7 |
0.425 |
|
| 2011 |
Xie L, Evangelidis T, Xie L, Bourne PE. Drug discovery using chemical systems biology: weak inhibition of multiple kinases may contribute to the anti-cancer effect of nelfinavir. Plos Computational Biology. 7: e1002037. PMID 21552547 DOI: 10.1371/Journal.Pcbi.1002037 |
0.48 |
|
| 2011 |
Kinnings SL, Liu N, Tonge PJ, Jackson RM, Xie L, Bourne PE. Correction to "Machine learning-based method to improve docking scoring functions and its application to drug repurposing". Journal of Chemical Information and Modeling. 51: 1195-7. PMID 21526828 DOI: 10.1021/Ci2001346 |
0.368 |
|
| 2011 |
Bluhm WF, Beran B, Bi C, Dimitropoulos D, Prliá A, Quinn GB, Rose PW, Shah C, Young J, Yukich B, Berman HM, Bourne PE. Quality assurance for the query and distribution systems of the RCSB Protein Data Bank Database. 2011. PMID 21382834 DOI: 10.1093/Database/Bar003 |
0.376 |
|
| 2011 |
Dickin R, Marden C, Collings AM, Nussinov R, Bourne PE. A Review of 2010 for PLoS Computational Biology. Plos Computational Biology. 7: e1002003. PMID 21298077 DOI: 10.1371/Journal.Pcbi.1002003 |
0.305 |
|
| 2011 |
Xie L, Xie L, Bourne PE. Structure-based systems biology for analyzing off-target binding. Current Opinion in Structural Biology. 21: 189-99. PMID 21292475 DOI: 10.1016/J.Sbi.2011.01.004 |
0.465 |
|
| 2011 |
Kinnings SL, Liu N, Tonge PJ, Jackson RM, Xie L, Bourne PE. A machine learning-based method to improve docking scoring functions and its application to drug repurposing. Journal of Chemical Information and Modeling. 51: 408-19. PMID 21291174 DOI: 10.1021/Ci100369F |
0.474 |
|
| 2011 |
von Eichborn J, Murgueitio MS, Dunkel M, Koerner S, Bourne PE, Preissner R. PROMISCUOUS: a database for network-based drug-repositioning. Nucleic Acids Research. 39: D1060-6. PMID 21071407 DOI: 10.1093/Nar/Gkq1037 |
0.342 |
|
| 2011 |
Rose PW, Beran B, Bi C, Bluhm WF, Dimitropoulos D, Goodsell DS, Prli? A, Quesada M, Quinn GB, Westbrook JD, Young J, Yukich B, Zardecki C, Berman HM, Bourne PE. The RCSB Protein Data Bank: Redesigned web site and web services Nucleic Acids Research. 39: D392-D401. PMID 21036868 DOI: 10.1093/Nar/Gkq1021 |
0.414 |
|
| 2011 |
Ponomarenko J, Papangelopoulos N, Zajonc DM, Peters B, Sette A, Bourne PE. IEDB-3D: structural data within the immune epitope database. Nucleic Acids Research. 39: D1164-70. PMID 21030437 DOI: 10.1093/Nar/Gkq888 |
0.358 |
|
| 2011 |
null AP, Bliven S, Rose PW, Youkharibache P, Bourne PE. The RCSB PDB Protein Comparison Tool F1000research. 2. DOI: 10.7490/F1000Research.2104.1 |
0.386 |
|
| 2011 |
Bliven S, Prlić A, Bourne P. A Comprehensive Review of Protein Fold Space and the Correlation of Structure with Function F1000research. 2. DOI: 10.7490/F1000Research.2021.1 |
0.311 |
|
| 2011 |
Rose PW, Bluhm WF, Beran B, Bi C, Dimitropoulos D, Goodsell DS, Prlić A, Quinn GB, Yukich B, Berman HM, Bourne PE. The RCSB Protein Data Bank: site functionality and bioinformatics use cases Nci Nature Pathway Interaction Database. DOI: 10.1038/Pid.2011.1 |
0.341 |
|
| 2011 |
Gramada A, Evangelidis T, Bourne PE. Comparison of the Charge Distribution of Protein Molecules via Multipole Parameterizations Biophysical Journal. 100: 320a. DOI: 10.1016/J.Bpj.2010.12.1950 |
0.337 |
|
| 2011 |
Bourne PE, Beran B, Bi C, Bluhm WF, Dimitropoulos D, Feng Z, Goodsell DS, Prli? A, Quinn GB, Rose PW, Westbrook J, Yukich B, Young J, Zardecki C, Berman HM. The evolution of the RCSB Protein Data Bank website Wiley Interdisciplinary Reviews: Computational Molecular Science. 1: 782-789. DOI: 10.1002/Wcms.57 |
0.468 |
|
| 2010 |
Kinnings SL, Xie L, Fung KH, Jackson RM, Xie L, Bourne PE. The Mycobacterium tuberculosis drugome and its polypharmacological implications. Plos Computational Biology. 6: e1000976. PMID 21079673 DOI: 10.1371/journal.pcbi.1000976 |
0.391 |
|
| 2010 |
Chang RL, Xie L, Xie L, Bourne PE, Palsson BØ. Drug off-target effects predicted using structural analysis in the context of a metabolic network model. Plos Computational Biology. 6: e1000938. PMID 20957118 DOI: 10.1371/Journal.Pcbi.1000938 |
0.693 |
|
| 2010 |
Prlic A, Bliven S, Rose PW, Bluhm WF, Bizon C, Godzik A, Bourne PE. Pre-calculated protein structure alignments at the RCSB PDB website. Bioinformatics (Oxford, England). 26: 2983-5. PMID 20937596 DOI: 10.1093/Bioinformatics/Btq572 |
0.449 |
|
| 2010 |
Alden K, Veretnik S, Bourne PE. dConsensus: a tool for displaying domain assignments by multiple structure-based algorithms and for construction of a consensus assignment. Bmc Bioinformatics. 11: 310. PMID 20529369 DOI: 10.1186/1471-2105-11-310 |
0.808 |
|
| 2010 |
Bourne PE. What do I want from the publisher of the future? Plos Computational Biology. 6: e1000787. PMID 20523744 DOI: 10.1371/Journal.Pcbi.1000787 |
0.303 |
|
| 2010 |
Dupont CL, Butcher A, Valas RE, Bourne PE, Caetano-Anollés G. History of biological metal utilization inferred through phylogenomic analysis of protein structures. Proceedings of the National Academy of Sciences of the United States of America. 107: 10567-72. PMID 20498051 DOI: 10.1073/Pnas.0912491107 |
0.37 |
|
| 2010 |
Ren J, Xie L, Li WW, Bourne PE. SMAP-WS: a parallel web service for structural proteome-wide ligand-binding site comparison. Nucleic Acids Research. 38: W441-4. PMID 20484373 DOI: 10.1093/Nar/Gkq400 |
0.555 |
|
| 2010 |
Prlić A, Martinez MA, Dimitropoulos D, Beran B, Yukich BT, Rose PW, Bourne PE, Fink JL. Integration of open access literature into the RCSB Protein Data Bank using BioLit. Bmc Bioinformatics. 11: 220. PMID 20429930 DOI: 10.1186/1471-2105-11-220 |
0.375 |
|
| 2010 |
Bourne PE, Beran B, Bi C, Bluhm W, Dunbrack R, Prlić A, Quinn G, Rose P, Shah R, Tao W, Weitzner B, Yukich B. Will widgets and semantic tagging change computational biology? Plos Computational Biology. 6: e1000673. PMID 20195550 DOI: 10.1371/Journal.Pcbi.1000673 |
0.346 |
|
| 2010 |
Zhang H, Wang P, Papangelopoulos N, Xu Y, Sette A, Bourne PE, Lund O, Ponomarenko J, Nielsen M, Peters B. Limitations of Ab initio predictions of peptide binding to MHC class II molecules. Plos One. 5: e9272. PMID 20174654 DOI: 10.1371/Journal.Pone.0009272 |
0.303 |
|
| 2010 |
Durrant JD, Amaro RE, Xie L, Urbaniak MD, Ferguson MA, Haapalainen A, Chen Z, Di Guilmi AM, Wunder F, Bourne PE, McCammon JA. A multidimensional strategy to detect polypharmacological targets in the absence of structural and sequence homology. Plos Computational Biology. 6: e1000648. PMID 20098496 DOI: 10.1371/Journal.Pcbi.1000648 |
0.577 |
|
| 2010 |
Dickin R, Marden C, Nancarrow C, Bourne PE. A review of 2009 for PLoS Computational Biology Plos Computational Biology. 6. DOI: 10.1371/Journal.Pcbi.1000687 |
0.309 |
|
| 2010 |
Bourne PE, Briedis K, Dupont C, Valas R, Yang S. Genome Evolution Studied Through Protein Structure Evolutionary Genomics and Systems Biology. 153-164. DOI: 10.1002/9780470570418.ch8 |
0.802 |
|
| 2009 |
Yang S, Bourne PE. The evolutionary history of protein domains viewed by species phylogeny. Plos One. 4: e8378. PMID 20041107 DOI: 10.1371/Journal.Pone.0008378 |
0.482 |
|
| 2009 |
Kinnings SL, Liu N, Buchmeier N, Tonge PJ, Xie L, Bourne PE. Drug discovery using chemical systems biology: repositioning the safe medicine Comtan to treat multi-drug and extensively drug resistant tuberculosis. Plos Computational Biology. 5: e1000423. PMID 19578428 DOI: 10.1371/Journal.Pcbi.1000423 |
0.433 |
|
| 2009 |
Xie L, Xie L, Bourne PE. A unified statistical model to support local sequence order independent similarity searching for ligand-binding sites and its application to genome-based drug discovery. Bioinformatics (Oxford, England). 25: i305-12. PMID 19478004 DOI: 10.1093/Bioinformatics/Btp220 |
0.52 |
|
| 2009 |
Xie L, Li J, Xie L, Bourne PE. Drug discovery using chemical systems biology: identification of the protein-ligand binding network to explain the side effects of CETP inhibitors. Plos Computational Biology. 5: e1000387. PMID 19436720 DOI: 10.1371/Journal.Pcbi.1000387 |
0.51 |
|
| 2009 |
Valas RE, Yang S, Bourne PE. Nothing about protein structure classification makes sense except in the light of evolution. Current Opinion in Structural Biology. 19: 329-34. PMID 19394812 DOI: 10.1016/J.Sbi.2009.03.011 |
0.553 |
|
| 2009 |
Veretnik S, Wills C, Youkharibache P, Valas RE, Bourne PE. Sm/Lsm genes provide a glimpse into the early evolution of the spliceosome. Plos Computational Biology. 5: e1000315. PMID 19282982 DOI: 10.1371/Journal.Pcbi.1000315 |
0.773 |
|
| 2008 |
Bourne PE, Fink JL. I am not a scientist, I am a number. Plos Computational Biology. 4: e1000247. PMID 19112480 DOI: 10.1371/Journal.Pcbi.1000247 |
0.309 |
|
| 2008 |
Ponomarenko J, Bui HH, Li W, Fusseder N, Bourne PE, Sette A, Peters B. ElliPro: a new structure-based tool for the prediction of antibody epitopes. Bmc Bioinformatics. 9: 514. PMID 19055730 DOI: 10.1186/1471-2105-9-514 |
0.369 |
|
| 2008 |
Veretnik S, Fink JL, Bourne PE. Computational biology resources lack persistence and usability. Plos Computational Biology. 4: e1000136. PMID 18636105 DOI: 10.1371/Journal.Pcbi.1000136 |
0.777 |
|
| 2008 |
Fink JL, Kushch S, Williams PR, Bourne PE. BioLit: integrating biological literature with databases. Nucleic Acids Research. 36: W385-9. PMID 18515836 DOI: 10.1093/Nar/Gkn317 |
0.353 |
|
| 2008 |
Bauer RA, Bourne PE, Formella A, Frömmel C, Gille C, Goede A, Guerler A, Hoppe A, Knapp EW, Pöschel T, Wittig B, Ziegler V, Preissner R. Superimpose: a 3D structural superposition server. Nucleic Acids Research. 36: W47-54. PMID 18492720 DOI: 10.1093/Nar/Gkn285 |
0.455 |
|
| 2008 |
Valas RE, Bourne PE. Rethinking proteasome evolution: two novel bacterial proteasomes. Journal of Molecular Evolution. 66: 494-504. PMID 18389302 DOI: 10.1007/S00239-008-9075-7 |
0.382 |
|
| 2008 |
Xie L, Bourne PE. Detecting evolutionary relationships across existing fold space, using sequence order-independent profile-profile alignments. Proceedings of the National Academy of Sciences of the United States of America. 105: 5441-6. PMID 18385384 DOI: 10.1073/Pnas.0704422105 |
0.575 |
|
| 2008 |
Bourne PE, Fink JL, Gerstein M. Open access: taking full advantage of the content. Plos Computational Biology. 4: e1000037. PMID 18369428 DOI: 10.1371/Journal.Pcbi.1000037 |
0.449 |
|
| 2008 |
Briedis KM, Starr A, Bourne PE. Analysis of the human kinome using methods including fold recognition reveals two novel kinases. Plos One. 3: e1597. PMID 18270584 DOI: 10.1371/Journal.Pone.0001597 |
0.807 |
|
| 2008 |
Xie L, Buchmeier N, Xie L, Bourne PE. A Systematic Approach to Identifying Protein-Ligand Binding Profiles on a Proteome Scale Nature Precedings. DOI: 10.1038/Npre.2008.2207.1 |
0.517 |
|
| 2007 |
Gu J, Bourne PE. Ten simple rules for graduate students. Plos Computational Biology. 3: e229. PMID 18052537 DOI: 10.1371/Journal.Pcbi.0030229 |
0.442 |
|
| 2007 |
Xie L, Wang J, Bourne PE. In silico elucidation of the molecular mechanism defining the adverse effect of selective estrogen receptor modulators. Plos Computational Biology. 3: e217. PMID 18052534 DOI: 10.1371/Journal.Pcbi.0030217 |
0.503 |
|
| 2007 |
Ponomarenko JV, Bourne PE. Antibody-protein interactions: benchmark datasets and prediction tools evaluation. Bmc Structural Biology. 7: 64. PMID 17910770 DOI: 10.1186/1472-6807-7-64 |
0.342 |
|
| 2007 |
Bourne PE, Brenner SE. Developing computational biology. Plos Computational Biology. 3: 1669. PMID 17907793 DOI: 10.1371/Journal.Pcbi.0030157 |
0.308 |
|
| 2007 |
Chung JL, Beaver JE, Scheeff ED, Bourne PE. Con-Struct Map: a comparative contact map analysis tool. Bioinformatics (Oxford, England). 23: 2491-2. PMID 17709340 DOI: 10.1093/Bioinformatics/Btm356 |
0.809 |
|
| 2007 |
Chung JL, Wang W, Bourne PE. High-throughput identification of interacting protein-protein binding sites. Bmc Bioinformatics. 8: 223. PMID 17594507 DOI: 10.1186/1471-2105-8-223 |
0.369 |
|
| 2007 |
Xie L, Bourne PE. A robust and efficient algorithm for the shape description of protein structures and its application in predicting ligand binding sites Bmc Bioinformatics. 8. PMID 17570152 DOI: 10.1186/1471-2105-8-S4-S9 |
0.593 |
|
| 2007 |
Beaver JE, Bourne PE, Ponomarenko JV. EpitopeViewer: a Java application for the visualization and analysis of immune epitopes in the Immune Epitope Database and Analysis Resource (IEDB). Immunome Research. 3: 3. PMID 17313688 DOI: 10.1186/1745-7580-3-3 |
0.333 |
|
| 2007 |
Gu J, Bourne PE. Identifying allosteric fluctuation transitions between different protein conformational states as applied to Cyclin Dependent Kinase 2. Bmc Bioinformatics. 8: 45. PMID 17286863 DOI: 10.1186/1471-2105-8-45 |
0.566 |
|
| 2007 |
Guda P, Bourne PE, Guda C. Conserved motifs in voltage-sensing and pore-forming modules of voltage-gated ion channel proteins. Biochemical and Biophysical Research Communications. 352: 292-8. PMID 17126810 DOI: 10.1016/J.Bbrc.2006.10.190 |
0.313 |
|
| 2006 |
Bourne PE, McEntyre J. Biocurators: Contributors to the World of Science Plos Computational Biology. 2: 1185. PMID 17411327 DOI: 10.1371/Journal.Pcbi.0020142 |
0.374 |
|
| 2006 |
Dupont CL, Yang S, Palenik B, Bourne PE. Modern proteomes contain putative imprints of ancient shifts in trace metal geochemistry. Proceedings of the National Academy of Sciences of the United States of America. 103: 17822-7. PMID 17098870 DOI: 10.1073/Pnas.0605798103 |
0.473 |
|
| 2006 |
Scheeff ED, Bourne PE. Application of protein structure alignments to iterated hidden Markov model protocols for structure prediction. Bmc Bioinformatics. 7: 410. PMID 16970830 DOI: 10.1186/1471-2105-7-410 |
0.801 |
|
| 2006 |
Holland TA, Veretnik S, Shindyalov IN, Bourne PE. Partitioning protein structures into domains: why is it so difficult? Journal of Molecular Biology. 361: 562-90. PMID 16863650 DOI: 10.1016/J.Jmb.2006.05.060 |
0.799 |
|
| 2006 |
Gu J, Gribskov M, Bourne PE. Wiggle-predicting functionally flexible regions from primary sequence. Plos Computational Biology. 2: e90. PMID 16839194 DOI: 10.1371/Journal.Pcbi.0020090 |
0.595 |
|
| 2006 |
Gramada A, Bourne PE. Multipolar representation of protein structure Bmc Bioinformatics. 7. PMID 16674828 DOI: 10.1186/1471-2105-7-242 |
0.436 |
|
| 2006 |
Kouranov A, Xie L, de la Cruz J, Chen L, Westbrook J, Bourne PE, Berman HM. The RCSB PDB information portal for structural genomics. Nucleic Acids Research.. 34: D302-305. PMID 16381872 DOI: 10.1093/Nar/Gkj120 |
0.548 |
|
| 2006 |
Chung JL, Wang W, Bourne PE. Exploiting sequence and structure homologs to identify protein-protein binding sites. Proteins. 62: 630-40. PMID 16329107 DOI: 10.1002/Prot.20741 |
0.416 |
|
| 2006 |
Fitzgerald PMD, Westbrook JD, Bourne PE, McMahon B, Watenpaugh KD, Berman HM. Classification and use of macromolecular data International Tables For Crystallography. DOI: 10.1107/97809553602060000738 |
0.416 |
|
| 2006 |
Berman HM, Westbrook J, Feng Z, Gilliland GL, Bhat TN, Weissig H, Shindyalov IN, Bourne PE. The Protein Data Bank, 1999– International Tables For Crystallography. 675-684. DOI: 10.1107/97809553602060000722 |
0.75 |
|
| 2006 |
Bourne PE, Bluhm WF, Deshpande N, Zhang Q, Berman HM, Flippen-Anderson JL. The research collaboratory for structural bioinformatics protein data bank Comprehensive Medicinal Chemistry Ii. 3: 373-388. |
0.31 |
|
| 2005 |
Scheeff ED, Bourne PE. Structural evolution of the protein kinase-like superfamily. Plos Computational Biology. 1: e49. PMID 16244704 DOI: 10.1371/Journal.Pcbi.0010049 |
0.778 |
|
| 2005 |
Xie L, Bourne PE. Functional coverage of the human genome by existing structures, structural genomics targets, and homology models. Plos Computational Biology. 1: e31. PMID 16118666 DOI: 10.1371/Journal.Pcbi.0010031 |
0.597 |
|
| 2005 |
Babbitt PC, Bourne PE, Mooney SD. Introduction to informatics approaches in structural genomics: modeling and representation of function from macromolecular structure. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 319-21. PMID 15759637 |
0.305 |
|
| 2005 |
Ponomarenko JV, Bourne PE, Shindyalov IN. Assigning new GO annotations to Protein Data Bank sequences by combining structure and sequence homology Proteins: Structure, Function and Genetics. 58: 855-865. PMID 15645518 DOI: 10.1002/Prot.20355 |
0.785 |
|
| 2005 |
Yang S, Doolittle RF, Bourne PE. Phylogeny determined by protein domain content. Proceedings of the National Academy of Sciences of the United States of America. 102: 373-8. PMID 15630082 DOI: 10.1073/Pnas.0408810102 |
0.469 |
|
| 2005 |
Deshpande N, Addess KJ, Bluhm WF, Merino-Ott JC, Townsend-Merino W, Zhang Q, Knezevich C, Xie L, Chen L, Feng Z, Green RK, Flippen-Anderson JL, Westbrook J, Berman HM, Bourne PE. The RCSB Protein Databa Bank: A redesigned query system and relational database based on the mmCIF schema Nucleic Acids Research. 33: D233-D237. PMID 15608185 DOI: 10.1093/Nar/Gki057 |
0.416 |
|
| 2005 |
Zhang Q, Veretnik S, Bourne PE. Overview of structural bioinformatics Bioinformatics Technologies. 15-44. DOI: 10.1007/3-540-26888-X_2 |
0.829 |
|
| 2004 |
Jia Y, Dewey TG, Shindyalov IN, Bourne PE. A new scoring function and associated statistical significance for structure alignment by CE. Journal of Computational Biology : a Journal of Computational Molecular Cell Biology. 11: 787-99. PMID 15700402 DOI: 10.1089/Cmb.2004.11.787 |
0.751 |
|
| 2004 |
Krebs WG, Bourne PE. Statistical and visual morph movie analysis of crystallographic mutant selection bias in protein mutation resource data. Journal of Bioinformatics and Computational Biology. 2: 61-75. PMID 15272433 DOI: 10.1142/S0219720004000478 |
0.812 |
|
| 2004 |
Guda C, Lu S, Scheeff ED, Bourne PE, Shindyalov IN. CE-MC: a multiple protein structure alignment server. Nucleic Acids Research. 32: W100-3. PMID 15215359 DOI: 10.1093/Nar/Gkh464 |
0.796 |
|
| 2004 |
Bourne PE, Westbrook J, Berman HM. The Protein Data Bank and lessons in data management. Briefings in Bioinformatics. 5: 23-30. PMID 15153303 DOI: 10.1093/Bib/5.1.23 |
0.378 |
|
| 2004 |
Veretnik S, Bourne PE, Alexandrov NN, Shindyalov IN. Toward consistent assignment of structural domains in proteins Journal of Molecular Biology. 339: 647-678. PMID 15147847 DOI: 10.1016/J.Jmb.2004.03.053 |
0.799 |
|
| 2004 |
Pekurovsky D, Shindyalov IN, Bourne PE. A case study of high-throughput biological data processing on parallel platforms Bioinformatics. 20: 1940-1947. PMID 15044237 DOI: 10.1093/Bioinformatics/Bth184 |
0.748 |
|
| 2004 |
Bourne PE, Allerston CK, Krebs W, Li W, Shindyalov IN, Godzik A, Friedberg I, Liu T, Wild D, Hwang S, Ghahramani Z, Chen L, Westbrook J. The status of structural genomics defined through the analysis of current targets and structures. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 375-86. PMID 14992518 DOI: 10.1142/9789812704856_0036 |
0.817 |
|
| 2004 |
Krebs WG, Bourne PE. Statistically rigorous automated protein annotation. Bioinformatics (Oxford, England). 20: 1066-73. PMID 14764575 DOI: 10.1093/Bioinformatics/Bth039 |
0.815 |
|
| 2004 |
Bourne PE, Addess KJ, Bluhm WF, Chen L, Deshpande N, Feng Z, Fleri W, Green R, Merino-Ott JC, Townsend-Merino W, Weissig H, Westbrook J, Berman HM. The distribution and query systems of the RCSB Protein Data Bank Nucleic Acids Research. 32: D223-D225. PMID 14681399 DOI: 10.1093/Nar/Gkh096 |
0.369 |
|
| 2004 |
Berman H, Bourne P, Westbrook J. The Protein Data Bank: A Case Study in Management of Community Data Current Proteomics. 1: 49-57. DOI: 10.2174/1570164043488252 |
0.414 |
|
| 2004 |
Li WW, Byrnes RW, Hayes J, Birnbaum A, Reyes VM, Shahab A, Mosley C, Pekurovsky D, Quinn GB, Shindyalov IN, Casanova H, Ang L, Berman F, Arzberger PW, Miller MA, ... Bourne PE, et al. The encyclopedia of life project: grid software and deployment New Generation Computing. 22: 127-136. DOI: 10.1007/Bf03040951 |
0.338 |
|
| 2004 |
Li WW, Byrnes RW, Hayes J, Birnbaum A, Reyes VM, Shahab A, Mosley C, Pekurovsky D, Quinn GB, Shindyalov IN, Casanova H, Ang L, Berman F, Arzberger PW, Miller MA, ... Bourne PE, et al. The encyclopedia of life project: Grid software and deployment New Generation Computing. 22: 127-136. |
0.642 |
|
| 2003 |
Krebs WG, Bourne PE. Statistical and visual morph movie analysis of crystallographic mutant selection bias in protein mutation resource data. Proceedings / Ieee Computer Society Bioinformatics Conference. Ieee Computer Society Bioinformatics Conference. 2: 180-9. PMID 16452792 DOI: 10.1109/CSB.2003.1227317 |
0.789 |
|
| 2003 |
Li WW, Quinn GB, Alexandrov NN, Bourne PE, Shindyalov IN. A comparative proteomics resource: proteins of Arabidopsis thaliana Genome Biology. 4: R51. PMID 12914659 DOI: 10.1186/Gb-2003-4-8-R51 |
0.769 |
|
| 2003 |
Doctor KS, Reed JC, Godzik A, Bourne PE. The apoptosis database. Cell Death and Differentiation. 10: 621-33. PMID 12761571 DOI: 10.1038/Sj.Cdd.4401230 |
0.373 |
|
| 2003 |
Yang P, Craig PA, Goodsell D, Bourne PE. BioEditor - Simplifying macromolecular structure annotation Bioinformatics. 19: 897-898. PMID 12724304 DOI: 10.1093/Bioinformatics/Btg103 |
0.422 |
|
| 2003 |
Bourne PE. CASP and CAFASP experiments and their findings Methods of Biochemical Analysis. 44: 501-507. PMID 12647401 DOI: 10.1002/0471721204.Ch24 |
0.409 |
|
| 2003 |
Bourne PE, Shindyalov IN. Structure comparison and alignment Methods of Biochemical Analysis. 44: 321-337. PMID 12647393 DOI: 10.1002/0471721204.Ch16 |
0.769 |
|
| 2003 |
Reedy BV, Bourne PE. Protein structure evolution and the SCOP database Methods of Biochemical Analysis. 44: 239-248. PMID 12647389 DOI: 10.1002/0471721204.Ch12 |
0.479 |
|
| 2003 |
Weissig H, Bourne PE. Other structure-based databases Methods of Biochemical Analysis. 44: 217-236. PMID 12647388 DOI: 10.1002/0471721204.Ch11 |
0.415 |
|
| 2003 |
Bourne PE. The status of structural genomics Targets. 2: 181-182. DOI: 10.1016/S1477-3627(03)02370-5 |
0.395 |
|
| 2002 |
Ponomarenko JV, Bourne PE, Shindyalov IN. Building an automated classification of DNA-binding protein domains Bioinformatics. 18: S192-S201. PMID 12386003 |
0.736 |
|
| 2002 |
Greer DS, Westbrook JD, Bourne PE. An ontology driven architecture for derived representations of macromolecular structure Bioinformatics. 18: 1280-1281. PMID 12217927 DOI: 10.1093/Bioinformatics/18.9.1280 |
0.345 |
|
| 2002 |
Weissig H, Bourne PE. Protein structure resources Acta Crystallographica Section D: Biological Crystallography. 58: 908-915. PMID 12037328 DOI: 10.1107/S0907444902003906 |
0.461 |
|
| 2002 |
Berman HM, Battistuz T, Bhat TN, Bluhm WF, Bourne PE, Burkhardt K, Feng Z, Gilliland GL, Iype L, Jain S, Fagan P, Marvin J, Padilla D, Ravichandran V, Schneider B, et al. The Protein Data Bank. Acta Crystallographica. Section D, Biological Crystallography. 58: 899-907. PMID 12037327 DOI: 10.1107/S0907444902003451 |
0.395 |
|
| 2002 |
Reddy BV, Li WW, Bourne PE. Use of conserved key amino acid positions to morph protein folds. Biopolymers. 64: 139-45. PMID 12012349 DOI: 10.1002/Bip.10152 |
0.444 |
|
| 2002 |
Li WW, Reddy BV, Tate JG, Shindyalov IN, Bourne PE. CKAAPs DB: a Conserved Key Amino Acid Positions DataBase. Nucleic Acids Research. 30: 409-11. PMID 11752351 DOI: 10.1093/Nar/29.1.329 |
0.774 |
|
| 2002 |
Westbrook J, Feng Z, Jain S, Bhat TN, Thanki N, Ravichandran V, Gilliland GL, Bluhm W, Weissig H, Greer DS, Bourne PE, Berman HM. The protein data bank: Unifying the archive Nucleic Acids Research. 30: 245-248. PMID 11752306 DOI: 10.1093/Nar/30.1.245 |
0.358 |
|
| 2002 |
Berman HM, Goodsell DS, Bourne PE. Protein Structures: From Famine to Feast American Scientist. 90: 350-359. DOI: 10.1511/2002.27.785 |
0.456 |
|
| 2002 |
Bluhm WF, Battistuz T, Clingman E, Deshpande N, Fleri W, Greer DS, Padilla D, Stoner D, Weissig H, Bourne PE. The Protein Data Bank: data distribution and query functionality Acta Crystallographica Section a Foundations of Crystallography. 58: c214-c214. DOI: 10.1107/S010876730209356X |
0.345 |
|
| 2002 |
Bourne PE, Murray-Rust J, Gill KL. Web alert Current Opinion in Structural Biology. 12: 427-428. DOI: 10.1016/S0959-440X(02)00342-1 |
0.319 |
|
| 2001 |
Tate JG, Moreland JL, Bourne PE. Design and implementation of a collaborative molecular graphics environment. Journal of Molecular Graphics & Modelling. 19: 280-7, 369-73. PMID 11449565 DOI: 10.1016/S1093-3263(00)00055-3 |
0.331 |
|
| 2001 |
Guda C, Scheeff ED, Bourne PE, Shindyalov IN. A new algorithm for the alignment of multiple protein structures using Monte Carlo optimization. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 275-86. PMID 11262947 |
0.798 |
|
| 2001 |
Bourne P, Murray-Rust J, Lakey JH. Protein-nucleic acid interactions: Folding and binding: Web alert Current Opinion in Structural Biology. 11: 9-10. PMID 11179884 DOI: 10.1016/S0959-440X(00)00162-7 |
0.313 |
|
| 2001 |
Shindyalov IN, Bourne PE. A database and tools for 3-D protein structure comparison and alignment using the Combinatorial Extension (CE) algorithm. Nucleic Acids Research. 29: 228-9. PMID 11125099 DOI: 10.1093/Nar/29.1.228 |
0.789 |
|
| 2001 |
Bhat TN, Bourne P, Feng Z, Gilliland G, Jain S, Ravichandran V, Schneider B, Schneider K, Thanki N, Weissig H, Westbrook J, Berman HM. The PDB data uniformity project. Nucleic Acids Research. 29: 214-8. PMID 11125095 DOI: 10.1093/Nar/29.1.214 |
0.344 |
|
| 2001 |
Reddy BV, Li WW, Shindyalov IN, Bourne PE. Conserved key amino acid positions (CKAAPs) derived from the analysis of common substructures in proteins. Proteins. 42: 148-63. PMID 11119639 DOI: 10.1002/1097-0134(20010201)42:2<148::Aid-Prot20>3.0.Co;2-R |
0.784 |
|
| 2001 |
Lakey JH, Bourne PE, Murray-Rust J. Web Alert: Biophysical methods Current Opinion in Structural Biology. 11: 511-512. DOI: 10.1016/S0959-440X(00)00241-4 |
0.326 |
|
| 2000 |
Berman HM, Bhat TN, Bourne PE, Feng Z, Gilliland G, Weissig H, Westbrook J. The Protein Data Bank and the challenge of structural genomics. Nature Structural Biology. 7: 957-9. PMID 11103999 DOI: 10.1038/80734 |
0.406 |
|
| 2000 |
Bourne PE, Murray-Rust J, Lakey JH. Engineering and design membrane proteins lipids. Web alert Current Opinion in Structural Biology. 10: 397-398. PMID 10981624 DOI: 10.1016/S0959-440X(00)00103-2 |
0.333 |
|
| 2000 |
Bourne PE. Bioinformatics meets data mining: time to dance? Trends in Biotechnology. 18: 228-30. PMID 10928784 DOI: 10.1016/S0167-7799(00)01430-X |
0.388 |
|
| 2000 |
Westbrook JD, Bourne PE. STAR/mmCIF: an ontology for macromolecular structure. Bioinformatics (Oxford, England). 16: 159-68. PMID 10842738 DOI: 10.1093/Bioinformatics/16.2.159 |
0.399 |
|
| 2000 |
Tsigelny I, Shindyalov IN, Bourne PE, Südhof TC, Taylor P. Common EF-hand motifs in cholinesterases and neuroligins suggest a role for Ca2+ binding in cell surface associations. Protein Science : a Publication of the Protein Society. 9: 180-5. PMID 10739260 DOI: 10.1110/Ps.9.1.180 |
0.727 |
|
| 2000 |
Shindyalov IN, Bourne PE. An alternative view of protein fold space. Proteins. 38: 247-60. PMID 10713986 DOI: 10.1002/(Sici)1097-0134(20000215)38:3<247::Aid-Prot2>3.0.Co;2-T |
0.783 |
|
| 2000 |
Weissig H, Bourne PE. An analysis of the Protein Data Bank in search of temporal and global trends. Bioinformatics (Oxford, England). 15: 807-31. PMID 10705434 DOI: 10.1093/Bioinformatics/15.10.807 |
0.371 |
|
| 2000 |
Berman HM, Westbrook J, Feng Z, Gilliland G, Bhat TN, Weissig H, Shindyalov IN, Bourne PE. The Protein Data Bank. Nucleic Acids Research. 28: 235-42. PMID 10592235 DOI: 10.1093/Nar/28.1.235 |
0.745 |
|
| 1999 |
Quinn G, Wang HP, Martinez D, Bourne PE. Developing protein documentaries and other multimedia presentations for molecular biology. Pacific Symposium On Biocomputing. Pacific Symposium On Biocomputing. 380-91. PMID 10380212 DOI: 10.1142/9789814447300_0037 |
0.335 |
|
| 1999 |
Weissig H, Shindyalov IN, Bourne PE. Macromolecular structure databases: past progress and future challenges. Acta Crystallographica. Section D, Biological Crystallography. 54: 1085-94. PMID 10089484 DOI: 10.1107/S0907444998009846 |
0.772 |
|
| 1999 |
Shindyalov IN, Bourne PE. Protein structure alignment by incremental combinatorial extension (CE) of the optimal path. Protein Engineering. 11: 739-47. PMID 9796821 DOI: 10.1093/Protein/11.9.739 |
0.774 |
|
| 1999 |
Tate JG, Moreland J, Bourne PE. MSG(Molecular Scene Generator): a Web-based application for the visualization of macromolecular structures Journal of Applied Crystallography. 32: 1026-1027. DOI: 10.1107/S0021889899010602 |
0.312 |
|
| 1998 |
Murray-Rust J, Lakey JH, Bourne PE. Catalysis and regulation. Proteins. Web alert Current Opinion in Structural Biology. 8: 673-674. PMID 10026004 DOI: 10.1016/S0959-440X(98)80084-5 |
0.358 |
|
| 1998 |
Bourne PE, Murray-Rust J, Lakey JH. Protein-nucleic acid interactions folding and binding. Web alert Current Opinion in Structural Biology. 8: 9-10. PMID 9519289 DOI: 10.1016/S0959-440X(98)80002-X |
0.313 |
|
| 1998 |
Smith CM, Shindyalov IN, Veretnik S, Gribskov M, Taylor SS, Ten Eyck LF, Bourne PE. The protein kinase resource. Trends in Biochemical Sciences. 22: 444-6. PMID 9397688 DOI: 10.1016/S0968-0004(97)01131-6 |
0.781 |
|
| 1998 |
Bernstein HJ, Bernstein FC, Bourne PE. CIF Applications. VIII. pdb2cif: translating PDB entries into mmCIF format Journal of Applied Crystallography. 31: 282-295. DOI: 10.1107/S0021889897007309 |
0.332 |
|
| 1998 |
Murray-Rust J, Lakey J, Bourne P. Nucleic acids. Sequences and topology Web alert. Current Opinion in Structural Biology. 8: 273-274. DOI: 10.1016/S0959-440X(98)80057-2 |
0.338 |
|
| 1997 |
Murray-Rust J, Lakey JH, Bourne PE. Web alert. Catalysis and regulation. Proteins Current Opinion in Structural Biology. 7: 765. PMID 9836855 DOI: 10.1016/S0959-440X(97)80143-1 |
0.373 |
|
| 1997 |
Shindyalov IN, Bourne PE. Protein data representation and query using optimized data decomposition. Computer Applications in the Biosciences : Cabios. 13: 487-96. PMID 9367122 DOI: 10.1093/Bioinformatics/13.5.487 |
0.75 |
|
| 1997 |
Lakey JH, Bourne PE, Murray-Rust J. Web alert. Theory and simulation. Macromolecular assemblages Current Opinion in Structural Biology. 7: 285. PMID 9094338 DOI: 10.1016/S0959-440X(97)80038-3 |
0.305 |
|
| 1997 |
Bourne PE, Murray-Rust J, Lakey JH. Web alert. Folding and binding. Protein-nucleic acid interactions Current Opinion in Structural Biology. 7: 135. PMID 9032070 DOI: 10.1016/S0959-440X(97)80017-6 |
0.313 |
|
| 1997 |
Bourne PE, Berman HM, McMahon B, Watenpaugh KD, Westbrook JD, Fitzgerald PMD. Macromolecular crystallographic information file Methods in Enzymology. 277: 571-590. DOI: 10.1016/S0076-6879(97)77032-0 |
0.393 |
|
| 1996 |
Bourne PE, Shindyalov IN. A local macromolecular structure database for crystallographic laboratories Acta Crystallographica Section a Foundations of Crystallography. 52: C78-C79. DOI: 10.1107/S0108767396095967 |
0.713 |
|
| 1996 |
Biggs J, Pu C, Groeninger A, Bourne PE. PDBtool: An interactive browser and geometry checker for protein structures Journal of Applied Crystallography. 29: 484-490. DOI: 10.1107/S002188989600026X |
0.44 |
|
| 1995 |
Shindyalov IN, Bourne PE. WPDB– PC Windows-based interrogation of macromolecular structure Journal of Applied Crystallography. 28: 847-852. DOI: 10.1107/S0021889895005723 |
0.714 |
|
| 1994 |
Chang W, Shindyalov IN, Pu C, Bourne PE. Design and application of PDBlib, a C++ macromolecular class library. Computer Applications in the Biosciences : Cabios. 10: 575-86. PMID 7704656 DOI: 10.1093/Bioinformatics/10.6.575 |
0.731 |
|
| 1994 |
Shindyalov IN, Chang W, Pu C, Bourne PE. Macromolecular query language (MMQL): prototype data model and implementation. Protein Engineering. 7: 1311-22. PMID 7700863 DOI: 10.1093/Protein/7.11.1311 |
0.727 |
|
| 1990 |
Bourne PE, Hendrickson WA. A CPU benchmark for protein crystallographic refinement. Computers in Biology and Medicine. 20: 219-30. PMID 2225778 DOI: 10.1016/0010-4825(90)90046-R |
0.388 |
|
| 1989 |
Bourne PE, Hendrickson WA. Selecting a processor for computations in molecular biophysics. Computers in Biology and Medicine. 18: 341-9. PMID 3197407 DOI: 10.1016/0010-4825(88)90021-2 |
0.317 |
|
| 1987 |
Bourne PE, Desai N. PRONUC: a software package for the analysis of protein and nucleic acid sequences. Computer Methods and Programs in Biomedicine. 24: 27-36. PMID 3829646 DOI: 10.1016/0169-2607(87)90062-9 |
0.357 |
|
| 1985 |
Bourne PE, Sato A, Corfield PW, Rosen LS, Birken S, Low BW. Erabutoxin b. Initial protein refinement and sequence analysis at 0.140-nm resolution. European Journal of Biochemistry / Febs. 153: 521-7. PMID 4076189 DOI: 10.1111/J.1432-1033.1985.Tb09333.X |
0.317 |
|
| 1984 |
Bourne PE, Corfield PWR, Sato A, Low BW, Smith JL. The structure of erabutoxin B at 1.4 Å resolution. Structure/function relations including functional implications of the extensive water structure and side-chain disorder in the reactive site Acta Crystallographica Section a Foundations of Crystallography. 40: C28-C28. DOI: 10.1107/S0108767384098950 |
0.342 |
|
| 1981 |
Clegg GA, Stansfield RF, Bourne PE, Harrison PM. Helix packing and subunit conformation in horse spleen apoferritin. Nature. 288: 298-300. PMID 7432529 DOI: 10.1038/288298A0 |
0.307 |
|
| Show low-probability matches. |
