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Data publication with the structural biology data grid supports live analysis.

التفاصيل البيبلوغرافية
العنوان: Data publication with the structural biology data grid supports live analysis.
المؤلفون: Meyer PA; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Socias S; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Key J; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Ransey E; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Tjon EC; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Buschiazzo A; Laboratory of Molecular &Structural Microbiology, Institut Pasteur de Montevideo, Montevideo 11400, Uruguay.; Department of Structural Biology &Chemistry, Institut Pasteur, 75015 Paris, France., Lei M; Institute of Biochemistry and Cell Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China., Botka C; Harvard Medical School, Boston, Massachusetts 02115, USA., Withrow J; NE-CAT and Department of Chemistry and Chemical Biology, Cornell University, Building 436E, Argonne National Laboratory, 9700S. Cass Avenue, Argonne, Illinois 60439, USA., Neau D; NE-CAT and Department of Chemistry and Chemical Biology, Cornell University, Building 436E, Argonne National Laboratory, 9700S. Cass Avenue, Argonne, Illinois 60439, USA., Rajashankar K; NE-CAT and Department of Chemistry and Chemical Biology, Cornell University, Building 436E, Argonne National Laboratory, 9700S. Cass Avenue, Argonne, Illinois 60439, USA., Anderson KS; Departments of Pharmacology and Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, Connecticut 06520, USA., Baxter RH; Department of Chemistry, Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut 06520, USA., Blacklow SC; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Boggon TJ; Departments of Pharmacology and Molecular Biophysics and Biochemistry, Yale University School of Medicine, New Haven, Connecticut 06520, USA., Bonvin AM; Bijvoet Center, Faculty of Science, Utrecht University, 3584 CH Utrecht, The Netherlands., Borek D; Departments of Biophysics and Biochemistry, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA., Brett TJ; Department of Internal Medicine, Washington University School of Medicine, St Louis, Missouri 63110, USA., Caflisch A; Department of Biochemistry, University of Zurich, CH-8057 Zurich, Switzerland., Chang CI; Institute of Biological Chemistry, Academia Sinica, Taipei 11529, Taiwan., Chazin WJ; Departments of Biochemistry and Chemistry, Center for Structural Biology, Vanderbilt University, Nashville, Tennessee 37232, USA., Corbett KD; Ludwig Institute for Cancer Research, San Diego Branch, La Jolla, California 92093, USA.; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, California 92093, USA., Cosgrove MS; Department of Biochemistry and Molecular Biology, SUNY Upstate Medical University, Syracuse, New York 13210, USA., Crosson S; Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, Illinois 60637, USA., Dhe-Paganon S; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA., Di Cera E; Edward A. Doisy Department of Biochemistry and Molecular Biology, Saint Louis University School of Medicine, St Louis, Missouri 63104, USA., Drennan CL; Departments of Chemistry and Biology and the Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA., Eck MJ; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA.; Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, Massachusetts 02115, USA., Eichman BF; Department of Biological Sciences and Center for Structural Biology, Vanderbilt University, Nashville, Tennessee 37235, USA., Fan QR; Departments of Pharmacology and Pathology and Cell Biology, Columbia University, New York, New York 10032, USA., Ferré-D'Amaré AR; Laboratory of RNA Biophysics, National Heart, Lung and Blood Institute, NIH, Bethesda, Maryland 20892, USA., Fromme JC; Department of Molecular Biology and Genetics, Weill Institute for Cell and Molecular Biology, Cornell University, Ithaca, New York 14853, USA., Garcia KC; Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, California 94305, USA.; Department of Molecular and Cellular Physiology, Stanford University School of Medicine, Stanford, California 94305, USA.; Department of Structural Biology, Stanford University School of Medicine, Stanford, California 94305, USA., Gaudet R; Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts 02138, USA., Gong P; Key Laboratory of Special Pathogens and Biosafety, Wuhan Institute of Virology, Chinese Academy of Sciences, Wuhan 430071, China., Harrison SC; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA.; Howard Hughes Medical Institute, Harvard Medical School, Boston, Massachusetts 02115, USA.; Laboratory of Molecular Medicine, Boston Children's Hospital, Harvard Medical School, Boston, Massachusetts 02115, USA., Heldwein EE; Department of Molecular Biology and Microbiology, Tufts University School of Medicine, Boston, Massachusetts 02111, USA., Jia Z; Department of Biomedical and Molecular Sciences, Queen's University, Kingston, Ontario, Canada K7M 3G5., Keenan RJ; Department of Biochemistry and Molecular Biology, University of Chicago, Chicago, Illinois 60637, USA., Kruse AC; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA., Kvansakul M; Department of Biochemistry and Genetics, La Trobe University, Melbourne, Victoria 3086, Australia., McLellan JS; Department of Biochemistry, Geisel School of Medicine at Dartmouth, Hanover, New Hampshire 03755, USA., Modis Y; Department of Medicine, University of Cambridge, MRC Laboratory of Molecular Biology, Francis Crick Avenue, Cambridge CB2 0QH, UK., Nam Y; University of Texas, Southwestern Medical Center, Dallas, Texas 75390, USA., Otwinowski Z; Departments of Biophysics and Biochemistry, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA., Pai EF; Departments of Biochemistry, Medical Biophysics and Molecular Genetics, University of Toronto, Toronto, Ontario, Canada M5S 1A8.; Campbell Family Institute for Cancer Research, Ontario Cancer Institute/University Health Network, Toronto, Ontario, Canada M5G 2M9., Pereira PJ; IBMC-Instituto de Biologia Molecular e Celular and Instituto de Investigação e Inovação em Saúde, Universidade do Porto, 4150 Porto, Portugal., Petosa C; Université Grenoble Alpes/CNRS/CEA, Institut de Biologie Structurale, 38027 Grenoble, France., Raman CS; Department of Pharmaceutical Sciences, University of Maryland, Baltimore, Maryland 21201, USA., Rapoport TA; Howard Hughes Medical Institute and Harvard Medical School, Department of Cell Biology, Boston, Massachusetts 02115, USA., Roll-Mecak A; Cell Biology and Biophysics Unit, Porter Neuroscience Research Center, National Institute of Neurological Disorders and Stroke, Bethesda, Maryland 20892, USA.; National Heart, Lung and Blood Institute, Bethesda, Maryland 20892, USA., Rosen MK; Department of Biophysics and Howard Hughes Medical Institute, University of Texas Southwestern Medical Center, Dallas, Texas 75390, USA., Rudenko G; Department of Pharmacology and Toxicology, Sealy Center for Structural Biology and Molecular Biophysics, University of Texas Medical Branch, Galveston, Texas 77555, USA., Schlessinger J; Department of Pharmacology, Yale University School of Medicine, New Haven, Connecticut 06520, USA., Schwartz TU; Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA., Shamoo Y; Department of BioSciences, Rice University, Houston, Texas 77005, USA., Sondermann H; Department of Molecular Medicine, College of Veterinary Medicine, Cornell University, Ithaca, New York 14853, USA., Tao YJ; Department of BioSciences, Rice University, Houston, Texas 77005, USA., Tolia NH; Department of Molecular Microbiology, Washington University School of Medicine, St Louis, Missouri 63110, USA., Tsodikov OV; Department of Pharmaceutical Sciences, College of Pharmacy, University of Kentucky, Lexington, Kentucky 40536, USA., Westover KD; Departments of Biochemistry and Radiation Oncology, University of Texas, Southwestern Medical Center, Dallas, Texas 75390, USA., Wu H; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA.; Program in Cellular and Molecular Medicine, Boston Children's Hospital, Boston, Massachusetts 02115, USA., Foster I; Mathematics and Computer Science Division, Argonne National Laboratory, Argonne, Illinois, and Department of Computer Science, University of Chicago, Chicago, Illinois 60637, USA., Fraser JS; Department of Bioengineering and Therapeutic Sciences, University of California San Francisco, San Francisco, California 94158, USA., Maia FR; Laboratory of Molecular Biophysics, Department of Cell and Molecular Biology, Uppsala University, Husargatan 3 (Box 596), SE-751 24 Uppsala, Sweden.; NERSC, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA., Gonen T; Janelia Research Campus, Howard Hughes Medical Institute, Ashburn, Virginia 20147 USA., Kirchhausen T; Program in Cellular and Molecular Medicine and Department of Pediatrics, Boston Children's Hospital, Boston, Massachusetts 02115, USA.; Departments of Cell Biology, Harvard Medical School, Boston, Massachusetts 02115, USA., Diederichs K; Department of Biology, University of Konstanz, D-78457 Konstanz, Germany., Crosas M; Institute for Quantitative Social Science, Harvard University, Cambridge, Massachusetts, 02138, USA., Sliz P; Department of Biological Chemistry and Molecular Pharmacology, Boston, Massachusetts 02115, USA.
المصدر: Nature communications [Nat Commun] 2016 Mar 07; Vol. 7, pp. 10882. Date of Electronic Publication: 2016 Mar 07.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.
اللغة: English
بيانات الدورية: Publisher: Nature Pub. Group Country of Publication: England NLM ID: 101528555 Publication Model: Electronic Cited Medium: Internet ISSN: 2041-1723 (Electronic) Linking ISSN: 20411723 NLM ISO Abbreviation: Nat Commun Subsets: MEDLINE
أسماء مطبوعة: Original Publication: [London] : Nature Pub. Group
مواضيع طبية MeSH: Databases, Genetic* , Publications*, Macromolecular Substances/*chemistry, Crystallography, X-Ray ; Internet ; Software
مستخلص: Access to experimental X-ray diffraction image data is fundamental for validation and reproduction of macromolecular models and indispensable for development of structural biology processing methods. Here, we established a diffraction data publication and dissemination system, Structural Biology Data Grid (SBDG; data.sbgrid.org), to preserve primary experimental data sets that support scientific publications. Data sets are accessible to researchers through a community driven data grid, which facilitates global data access. Our analysis of a pilot collection of crystallographic data sets demonstrates that the information archived by SBDG is sufficient to reprocess data to statistics that meet or exceed the quality of the original published structures. SBDG has extended its services to the entire community and is used to develop support for other types of biomedical data sets. It is anticipated that access to the experimental data sets will enhance the paradigm shift in the community towards a much more dynamic body of continuously improving data analysis.
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معلومات مُعتمدة: T32 GM008320 United States GM NIGMS NIH HHS; U19 AI107792 United States AI NIAID NIH HHS; U54 EB020406 United States EB NIBIB NIH HHS; R01 GM065484 United States GM NIGMS NIH HHS; R01 GM086487 United States GM NIGMS NIH HHS; United States HHMI Howard Hughes Medical Institute; R01 HL119813 United States HL NHLBI NIH HHS; R01 GM117299 United States GM NIGMS NIH HHS; R01 GM104141 United States GM NIGMS NIH HHS; R01 GM117080 United States GM NIGMS NIH HHS; U54 HL112303 United States HL NHLBI NIH HHS; R01 CA140522 United States CA NCI NIH HHS; NIH 1U54EB020406-01 United States EB NIBIB NIH HHS; R01 NS085078 United States NS NINDS NIH HHS; R21 GM110580 United States GM NIGMS NIH HHS; 101908/Z/13/Z United Kingdom WT_ Wellcome Trust; S10 RR028832 United States RR NCRR NIH HHS; P41 GM103403 United States GM NIGMS NIH HHS; R01 GM088454 United States GM NIGMS NIH HHS; R21 AI065886 United States AI NIAID NIH HHS; R01 GM069857 United States GM NIGMS NIH HHS; R01 GM053163 United States GM NIGMS NIH HHS; P41 GM103485 United States GM NIGMS NIH HHS; R01 CA163647 United States CA NCI NIH HHS; R01 MH077303 United States MH NIMH NIH HHS; R01 GM112973 United States GM NIGMS NIH HHS; R01 GM114358 United States GM NIGMS NIH HHS; R01 GM110352 United States GM NIGMS NIH HHS; R01 GM087353 United States GM NIGMS NIH HHS; R01 AI045937 United States AI NIAID NIH HHS; DP2 OD001996 United States OD NIH HHS; NIH P41 GM103403 United States GM NIGMS NIH HHS; 1S10RR028832 United States RR NCRR NIH HHS
المشرفين على المادة: 0 (Macromolecular Substances)
تواريخ الأحداث: Date Created: 20160308 Date Completed: 20160920 Latest Revision: 20240325
رمز التحديث: 20240325
مُعرف محوري في PubMed: PMC4786681
DOI: 10.1038/ncomms10882
PMID: 26947396
قاعدة البيانات: MEDLINE
الوصف
تدمد:2041-1723
DOI:10.1038/ncomms10882