Cutting Edge: Building bridges between cellular and molecular structural biology

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 E. 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

doi:10.7554/eLife.25835

Cutting Edge: Building bridges between cellular and molecular structural biology

Ardan Patwardhan (Lead / Corresponding author), 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 E. Parkinson, Peter B. Rosenthal, Stephan Saalfeld, Helen R. SaibilSirarat Sarntivijai, Irene Solanes Valero, Sriram Subramaniam, Jason R. Swedlow, Ilinca Tudose, Martyn Winn, Gerard J. Kleywegt (Lead / Corresponding author)

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Abstract

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.

Original language	English
Article number	e25835
Pages (from-to)	1-11
Number of pages	11
Journal	eLife
Volume	6
Early online date	6 Jul 2017
DOIs	https://doi.org/10.7554/eLife.25835
Publication status	Published - 24 Jul 2017

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Patwardhan, A., Brandt, R., Butcher, S. J., Collinson, L., Gault, D., Grünewald, K., Hecksel, C., Huiskonen, J. T., Iudin, A., Jones, M. L., Korir, P. K., Koster, A. J., Lagerstedt, I., Lawson, C. L., Mastronarde, D., McCormick, M., Parkinson, H. E., Rosenthal, P. B., Saalfeld, S., ... Kleywegt, G. J. (2017). Cutting Edge: Building bridges between cellular and molecular structural biology. eLife, 6, 1-11. Article e25835. https://doi.org/10.7554/eLife.25835

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title = "Cutting Edge: Building bridges between cellular and molecular structural biology",

abstract = "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.",

keywords = "Journal article",

author = "Ardan Patwardhan and Robert Brandt and Butcher, {Sarah J.} and Lucy Collinson and David Gault and Kay Gr{\"u}newald and Corey Hecksel and Huiskonen, {Juha T.} and Andrii Iudin and Jones, {Martin L.} and Korir, {Paul K.} and Koster, {Abraham J.} and Ingvar Lagerstedt and Lawson, {Catherine L.} and David Mastronarde and Matthew McCormick and Parkinson, {Helen E.} and Rosenthal, {Peter B.} and Stephan Saalfeld and Saibil, {Helen R.} and Sirarat Sarntivijai and {Solanes Valero}, Irene and Sriram Subramaniam and Swedlow, {Jason R.} and Ilinca Tudose and Martyn Winn and Kleywegt, {Gerard J.}",

note = "The workshop and the work on EMDB-SFF at PDBe were supported by the UK Medical Research Council (MRC) with co-funding from the UK Biotechnology and Biological Sciences Research Council (grant MR/L007835 to G.J.K.) and the European Commission Framework 7 Programme (284209). Work on EMDB and EMPIAR at PDBe is further supported by the Wellcome Trust (104948), the US National Institutes of Health National Institute of General Medical Sciences (R01GM079429), and EMBL-EBI. CCP-EM is supported by the MRC (MR/N009614/1).",

year = "2017",

month = jul,

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Patwardhan, A, Brandt, R, Butcher, SJ, Collinson, L, Gault, D, Grünewald, K, Hecksel, C, Huiskonen, JT, Iudin, A, Jones, ML, Korir, PK, Koster, AJ, Lagerstedt, I, Lawson, CL, Mastronarde, D, McCormick, M, Parkinson, HE, Rosenthal, PB, Saalfeld, S, Saibil, HR, Sarntivijai, S, Solanes Valero, I, Subramaniam, S, Swedlow, JR, Tudose, I, Winn, M & Kleywegt, GJ 2017, 'Cutting Edge: Building bridges between cellular and molecular structural biology', eLife, vol. 6, e25835, pp. 1-11. https://doi.org/10.7554/eLife.25835

TY - JOUR

T1 - Cutting Edge

T2 - Building bridges between cellular and molecular structural biology

AU - Patwardhan, Ardan

AU - Brandt, Robert

AU - Butcher, Sarah J.

AU - Collinson, Lucy

AU - Gault, David

AU - Grünewald, Kay

AU - Hecksel, Corey

AU - Huiskonen, Juha T.

AU - Iudin, Andrii

AU - Jones, Martin L.

AU - Korir, Paul K.

AU - Koster, Abraham J.

AU - Lagerstedt, Ingvar

AU - Lawson, Catherine L.

AU - Mastronarde, David

AU - McCormick, Matthew

AU - Parkinson, Helen E.

AU - Rosenthal, Peter B.

AU - Saalfeld, Stephan

AU - Saibil, Helen R.

AU - Sarntivijai, Sirarat

AU - Solanes Valero, Irene

AU - Subramaniam, Sriram

AU - Swedlow, Jason R.

AU - Tudose, Ilinca

AU - Winn, Martyn

AU - Kleywegt, Gerard J.

N1 - The workshop and the work on EMDB-SFF at PDBe were supported by the UK Medical Research Council (MRC) with co-funding from the UK Biotechnology and Biological Sciences Research Council (grant MR/L007835 to G.J.K.) and the European Commission Framework 7 Programme (284209). Work on EMDB and EMPIAR at PDBe is further supported by the Wellcome Trust (104948), the US National Institutes of Health National Institute of General Medical Sciences (R01GM079429), and EMBL-EBI. CCP-EM is supported by the MRC (MR/N009614/1).

PY - 2017/7/24

Y1 - 2017/7/24

N2 - 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.

AB - 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.

KW - Journal article

U2 - 10.7554/eLife.25835

DO - 10.7554/eLife.25835

M3 - Article

C2 - 28682240

SN - 2050-084X

VL - 6

SP - 1

EP - 11

JO - eLife

JF - eLife

M1 - e25835

ER -

Cutting Edge: Building bridges between cellular and molecular structural biology

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