The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory

Chris Morris; Anne Pajon; Susanne L. Griffiths; Ed Daniel; Marc Savitsky; Bill Lin; Jonathan M. Diprose; Alan Wilter da Silva; Katya Pilicheva; Peter Troshin; Johannes van Niekerk; Neil Isaacs; James Naismith; Colin Nave; Richard Blake; Keith S. Wilson; David I. Stuart; Kim Henrick; Robert M. Esnouf

doi:10.1107/S0907444911007943

The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory

Chris Morris, Anne Pajon, Susanne L. Griffiths, Ed Daniel, Marc Savitsky, Bill Lin, Jonathan M. Diprose, Alan Wilter da Silva, Katya Pilicheva, Peter Troshin, Johannes van Niekerk, Neil Isaacs, James Naismith, Colin Nave, Richard Blake, Keith S. Wilson, David I. Stuart, Kim Henrick, Robert M. Esnouf^*

^*Corresponding author for this work

Research output: Contribution to journal › Article › peer-review

Abstract

The techniques used in protein production and structural biology have been developing rapidly, but techniques for recording the laboratory information produced have not kept pace. One approach is the development of laboratory information-management systems (LIMS), which typically use a relational database schema to model and store results from a laboratory workflow. The underlying philosophy and implementation of the Protein Information Management System (PiMS), a LIMS development specifically targeted at the flexible and unpredictable workflows of protein-production research laboratories of all scales, is described. PiMS is a web-based Java application that uses either Postgres or Oracle as the underlying relational database-management system. PiMS is available under a free licence to all academic laboratories either for local installation or for use as a managed service.

Original language	English
Pages (from-to)	249-260
Number of pages	12
Journal	Acta Crystallographica. Section D, Biological crystallography
Volume	67
DOIs	https://doi.org/10.1107/S0907444911007943
Publication status	Published - Apr 2011

Keywords

DATA MODEL
DATABASE
LIMS
PROTEOMICS
PROJECT

Access to Document

10.1107/S0907444911007943

BBSRC BBS/B/14426: SPORT
Naismith, J. (PI)
BBSRC
18/10/04 → 30/04/12
Project: Standard

Cite this

Morris, C., Pajon, A., Griffiths, S. L., Daniel, E., Savitsky, M., Lin, B., Diprose, J. M., da Silva, A. W., Pilicheva, K., Troshin, P., van Niekerk, J., Isaacs, N., Naismith, J., Nave, C., Blake, R., Wilson, K. S., Stuart, D. I., Henrick, K., & Esnouf, R. M. (2011). The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory. Acta Crystallographica. Section D, Biological crystallography, 67, 249-260. https://doi.org/10.1107/S0907444911007943

@article{67ecc58db4da4d8a886d9fbf7fc7fe59,

title = "The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory",

abstract = "The techniques used in protein production and structural biology have been developing rapidly, but techniques for recording the laboratory information produced have not kept pace. One approach is the development of laboratory information-management systems (LIMS), which typically use a relational database schema to model and store results from a laboratory workflow. The underlying philosophy and implementation of the Protein Information Management System (PiMS), a LIMS development specifically targeted at the flexible and unpredictable workflows of protein-production research laboratories of all scales, is described. PiMS is a web-based Java application that uses either Postgres or Oracle as the underlying relational database-management system. PiMS is available under a free licence to all academic laboratories either for local installation or for use as a managed service.",

keywords = "DATA MODEL, DATABASE, LIMS, PROTEOMICS, PROJECT",

author = "Chris Morris and Anne Pajon and Griffiths, {Susanne L.} and Ed Daniel and Marc Savitsky and Bill Lin and Diprose, {Jonathan M.} and {da Silva}, {Alan Wilter} and Katya Pilicheva and Peter Troshin and {van Niekerk}, Johannes and Neil Isaacs and James Naismith and Colin Nave and Richard Blake and Wilson, {Keith S.} and Stuart, {David I.} and Kim Henrick and Esnouf, {Robert M.}",

year = "2011",

month = apr,

doi = "10.1107/S0907444911007943",

language = "English",

volume = "67",

pages = "249--260",

journal = "Acta Crystallographica. Section D, Biological crystallography",

issn = "1399-0047",

publisher = "Blackwell",

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Morris, C, Pajon, A, Griffiths, SL, Daniel, E, Savitsky, M, Lin, B, Diprose, JM, da Silva, AW, Pilicheva, K, Troshin, P, van Niekerk, J, Isaacs, N, Naismith, J, Nave, C, Blake, R, Wilson, KS, Stuart, DI, Henrick, K & Esnouf, RM 2011, 'The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory', Acta Crystallographica. Section D, Biological crystallography, vol. 67, pp. 249-260. https://doi.org/10.1107/S0907444911007943

TY - JOUR

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AU - Morris, Chris

AU - Pajon, Anne

AU - Griffiths, Susanne L.

AU - Daniel, Ed

AU - Savitsky, Marc

AU - Lin, Bill

AU - Diprose, Jonathan M.

AU - da Silva, Alan Wilter

AU - Pilicheva, Katya

AU - Troshin, Peter

AU - van Niekerk, Johannes

AU - Isaacs, Neil

AU - Naismith, James

AU - Nave, Colin

AU - Blake, Richard

AU - Wilson, Keith S.

AU - Stuart, David I.

AU - Henrick, Kim

AU - Esnouf, Robert M.

PY - 2011/4

Y1 - 2011/4

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AB - The techniques used in protein production and structural biology have been developing rapidly, but techniques for recording the laboratory information produced have not kept pace. One approach is the development of laboratory information-management systems (LIMS), which typically use a relational database schema to model and store results from a laboratory workflow. The underlying philosophy and implementation of the Protein Information Management System (PiMS), a LIMS development specifically targeted at the flexible and unpredictable workflows of protein-production research laboratories of all scales, is described. PiMS is a web-based Java application that uses either Postgres or Oracle as the underlying relational database-management system. PiMS is available under a free licence to all academic laboratories either for local installation or for use as a managed service.

KW - DATA MODEL

KW - DATABASE

KW - LIMS

KW - PROTEOMICS

KW - PROJECT

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DO - 10.1107/S0907444911007943

M3 - Article

SN - 1399-0047

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JO - Acta Crystallographica. Section D, Biological crystallography

JF - Acta Crystallographica. Section D, Biological crystallography

ER -

The Protein Information Management System (PiMS): a generic tool for any structural biology research laboratory

Abstract

Keywords

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Projects

BBSRC BBS/B/14426: SPORT

Cite this