Building bridges between cellular and molecular structural biology
The integration of cellular and molecular structural data is key to understanding the function of macromolecular assemblies and complexes in their in vivo context. Here we report on the outcomes of a workshop that discussed how to integrate structural data from a range of public archives. The worksh...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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eLife Sciences Publications Ltd
2017-07-01
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| Series: | eLife |
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| Online Access: | https://elifesciences.org/articles/25835 |
| _version_ | 1818024089166544896 |
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| author | Ardan Patwardhan Robert Brandt Sarah J Butcher Lucy Collinson David Gault Kay Grünewald Corey Hecksel Juha T Huiskonen Andrii Iudin Martin L Jones Paul K Korir Abraham J Koster Ingvar Lagerstedt Catherine L Lawson David Mastronarde Matthew McCormick Helen Parkinson Peter B Rosenthal Stephan Saalfeld Helen R Saibil Sirarat Sarntivijai Irene Solanes Valero Sriram Subramaniam Jason R Swedlow Ilinca Tudose Martyn Winn Gerard J Kleywegt |
| author_facet | Ardan Patwardhan Robert Brandt Sarah J Butcher Lucy Collinson David Gault Kay Grünewald Corey Hecksel Juha T Huiskonen Andrii Iudin Martin L Jones Paul K Korir Abraham J Koster Ingvar Lagerstedt Catherine L Lawson David Mastronarde Matthew McCormick Helen Parkinson Peter B Rosenthal Stephan Saalfeld Helen R Saibil Sirarat Sarntivijai Irene Solanes Valero Sriram Subramaniam Jason R Swedlow Ilinca Tudose Martyn Winn Gerard J Kleywegt |
| author_sort | Ardan Patwardhan |
| collection | DOAJ |
| description | The integration of cellular and molecular structural data is key to understanding the function of macromolecular assemblies and complexes in their in vivo context. Here we report on the outcomes of a workshop that discussed how to integrate structural data from a range of public archives. The workshop identified two main priorities: the development of tools and file formats to support segmentation (that is, the decomposition of a three-dimensional volume into regions that can be associated with defined objects), and the development of tools to support the annotation of biological structures. |
| first_indexed | 2024-12-10T03:54:40Z |
| format | Article |
| id | doaj.art-894e26f1fe364e90b4d2256c2a6eedf1 |
| institution | Directory Open Access Journal |
| issn | 2050-084X |
| language | English |
| last_indexed | 2024-12-10T03:54:40Z |
| publishDate | 2017-07-01 |
| publisher | eLife Sciences Publications Ltd |
| record_format | Article |
| series | eLife |
| spelling | doaj.art-894e26f1fe364e90b4d2256c2a6eedf12022-12-22T02:03:10ZengeLife Sciences Publications LtdeLife2050-084X2017-07-01610.7554/eLife.25835Building bridges between cellular and molecular structural biologyArdan Patwardhan0https://orcid.org/0000-0001-7663-9028Robert Brandt1Sarah J Butcher2Lucy Collinson3David Gault4Kay Grünewald5Corey Hecksel6Juha T Huiskonen7Andrii Iudin8Martin L Jones9https://orcid.org/0000-0003-0994-5652Paul K Korir10Abraham J Koster11Ingvar Lagerstedt12Catherine L Lawson13David Mastronarde14Matthew McCormick15Helen Parkinson16Peter B Rosenthal17Stephan Saalfeld18https://orcid.org/0000-0002-4106-1761Helen R Saibil19Sirarat Sarntivijai20Irene Solanes Valero21Sriram Subramaniam22Jason R Swedlow23Ilinca Tudose24Martyn Winn25Gerard J Kleywegt26Cellular Structure and 3D Bioimaging, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomVisualization Sciences Group, FEI, Mérignac, FranceInstitute of Biotechnology and the Department of Biosciences, University of Helsinki, Helsinki, FinlandElectron Microscopy Science Technology Platform, Francis Crick Institute, London, United KingdomCentre for Gene Regulation and Expression, University of Dundee, Dundee, United KingdomDivision of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United KingdomNational Center for Macromolecular Imaging, Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, United StatesDivision of Structural Biology, Wellcome Trust Centre for Human Genetics, University of Oxford, Oxford, United KingdomCellular Structure and 3D Bioimaging, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomElectron Microscopy Science Technology Platform, Francis Crick Institute, London, United KingdomCellular Structure and 3D Bioimaging, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomDepartment of Molecular Cell Biology, Leiden University Medical Center, Leiden, The NetherlandsEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomCenter for Integrative Proteomics Research and the Research Collaboratory for Structural Bioinformatics, Rutgers, The State University of New Jersey, Piscataway, United StatesDepartment of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder, United StatesKitware, Inc., Carrboro, United StatesMolecular Archival Resources, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomStructural Biology of Cells and Viruses, Francis Crick Institute, London, United KingdomJanelia Research Campus, Howard Hughes Medical Institute, Ashburn, United StatesInstitute of Structural and Molecular Biology, Department of Crystallography, Birkbeck College, London, United KingdomMolecular Archival Resources, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomEuropean Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomLaboratory for Cell Biology, Center for Cancer Research, National Cancer Institute, Bethesda, United StatesCentre for Gene Regulation and Expression and the Division of Computational Biology, University of Dundee, Dundee, United KingdomMolecular Archival Resources, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomScientific Computing Department, Science and Technology Facilities Council, Research Complex at Harwell, Didcot, United KingdomMolecular and Cellular Structure Cluster, European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Genome Campus, Hinxton, United KingdomThe integration of cellular and molecular structural data is key to understanding the function of macromolecular assemblies and complexes in their in vivo context. Here we report on the outcomes of a workshop that discussed how to integrate structural data from a range of public archives. The workshop identified two main priorities: the development of tools and file formats to support segmentation (that is, the decomposition of a three-dimensional volume into regions that can be associated with defined objects), and the development of tools to support the annotation of biological structures.https://elifesciences.org/articles/25835electron microscopytomographysegmentationontologyemdbempiar |
| spellingShingle | Ardan Patwardhan Robert Brandt Sarah J Butcher Lucy Collinson David Gault Kay Grünewald Corey Hecksel Juha T Huiskonen Andrii Iudin Martin L Jones Paul K Korir Abraham J Koster Ingvar Lagerstedt Catherine L Lawson David Mastronarde Matthew McCormick Helen Parkinson Peter B Rosenthal Stephan Saalfeld Helen R Saibil Sirarat Sarntivijai Irene Solanes Valero Sriram Subramaniam Jason R Swedlow Ilinca Tudose Martyn Winn Gerard J Kleywegt Building bridges between cellular and molecular structural biology eLife electron microscopy tomography segmentation ontology emdb empiar |
| title | Building bridges between cellular and molecular structural biology |
| title_full | Building bridges between cellular and molecular structural biology |
| title_fullStr | Building bridges between cellular and molecular structural biology |
| title_full_unstemmed | Building bridges between cellular and molecular structural biology |
| title_short | Building bridges between cellular and molecular structural biology |
| title_sort | building bridges between cellular and molecular structural biology |
| topic | electron microscopy tomography segmentation ontology emdb empiar |
| url | https://elifesciences.org/articles/25835 |
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