Ten simple rules for managing laboratory information

Casey-Tyler Berezin; Luis U. Aguilera; Sonja Billerbeck; Philip E. Bourne; Douglas Densmore; Paul Freemont; Thomas E Gorochowski; Sarah I. Hernandez; Nathan J. Hillson; Connor R. King; Michael Köpke; Shuyi Ma; Katie M. Miller; Tae Seok Moon; Jason H. Moore; Brian Munsky; Chris J. Myers; Dequina A. Nicholas; Samuel J. Peccoud; Wen Zhou; Jean Peccoud

doi:10.1371/journal.pcbi.1011652

Ten simple rules for managing laboratory information

Casey-Tyler Berezin, Luis U. Aguilera, Sonja Billerbeck, Philip E. Bourne, Douglas Densmore, Paul Freemont, Thomas E Gorochowski, Sarah I. Hernandez, Nathan J. Hillson, Connor R. King, Michael Köpke, Shuyi Ma, Katie M. Miller, Tae Seok Moon, Jason H. Moore, Brian Munsky, Chris J. Myers, Dequina A. Nicholas, Samuel J. Peccoud, Wen ZhouJean Peccoud^*

^*Corresponding author for this work

School of Biological Sciences

Research output: Contribution to journal › Article (Academic Journal) › peer-review

3 Citations (Scopus)

Abstract

Information is the cornerstone of research, from experimental (meta)data and computational processes to complex inventories of reagents and equipment. These 10 simple rules discuss best practices for leveraging laboratory information management systems to transform this large information load into useful scientific findings.

Original language	English
Article number	e1011652
Journal	PLoS Computational Biology
Volume	19
Issue number	12
DOIs	https://doi.org/10.1371/journal.pcbi.1011652
Publication status	Published - 7 Dec 2023

Bibliographical note

Funding Information:
J.P., S.H., C.K., K.M., and C.-T.B. are supported by the National Science Foundation (award #2123367) and the National Institutes of Health (R01GM147816, T32GM132057). T.S.M. is supported by the Defense Advanced Research Projects Agency (N660012324032), the Office of Naval Research (N00014-21-1-2206), U.S. Environmental Protection Agency (84020501), the National Institutes of Health (R01 AT009741), and the National Science Foundation (MCB-2001743 and EF-2222403). C.J.M. is supported by the National Science Foundation (MCB-2231864) and the National Institutes Standards and Technology (70NANB21H103). D.A.N. is supported by the National Institutes of Health (R00HD098330 and DP2AI171121). B.M. and L.U.A. are supported by the National Institutes of Health (R35 GM124747). T.E.G. was supported by a Royal Society University Research Fellowship grant UF160357, a Turing Fellowship from The Alan Turing Institute under the EPSRC grant EP/N510129/1. W.Z. is supported by the National Institutes of Health (R01GM144961) and the National Science Foundation (IOS1922701). This work was part of the Agile BioFoundry (agilebiofoundry.org) supported by the U.S. Department of Energy, Energy Efficiency and Renewable Energy, Bioenergy Technologies Office, and was part of the DOE Joint BioEnergy Institute (jbei.org) supported by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research, through contract DEAC02-05CH11231 between Lawrence Berkeley National Laboratory and the U.S. Department of Energy. The views and opinions of the authors expressed herein do not necessarily state or reflect those of the United States Government or any agency thereof. Neither the United States Government nor any agency thereof, nor any of their employees, makes any warranty, expressed or implied, or assumes any legal liability or responsibility or the accuracy, completeness, or usefulness of any information, apparatus, product, or process disclosed or represents that its use would not infringe privately owned rights. The United States Government retains and the publisher, by accepting the article for publication, acknowledges that the United States Government retains a nonexclusive, paid-up, irrevocable, worldwide license to publish or reproduce the published form of this manuscript, or allow others to do so, for United States Government purposes. The Department of Energy will provide public access to these results of federally sponsored research in accordance with the DOE Public Access Plan (http://energy.gov/downloads/doe-public-access-plan). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

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Bristol BioDesign Institute
Jean Golding

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Berezin, C.-T., Aguilera, L. U., Billerbeck, S., Bourne, P. E., Densmore, D., Freemont, P., Gorochowski, T. E., Hernandez, S. I., Hillson, N. J., King, C. R., Köpke, M., Ma, S., Miller, K. M., Moon, T. S., Moore, J. H., Munsky, B., Myers, C. J., Nicholas, D. A., Peccoud, S. J., ... Peccoud, J. (2023). Ten simple rules for managing laboratory information. PLoS Computational Biology, 19(12), Article e1011652. https://doi.org/10.1371/journal.pcbi.1011652

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title = "Ten simple rules for managing laboratory information",

abstract = "Information is the cornerstone of research, from experimental (meta)data and computational processes to complex inventories of reagents and equipment. These 10 simple rules discuss best practices for leveraging laboratory information management systems to transform this large information load into useful scientific findings.",

author = "Casey-Tyler Berezin and Aguilera, {Luis U.} and Sonja Billerbeck and Bourne, {Philip E.} and Douglas Densmore and Paul Freemont and Gorochowski, {Thomas E} and Hernandez, {Sarah I.} and Hillson, {Nathan J.} and King, {Connor R.} and Michael K{\"o}pke and Shuyi Ma and Miller, {Katie M.} and Moon, {Tae Seok} and Moore, {Jason H.} and Brian Munsky and Myers, {Chris J.} and Nicholas, {Dequina A.} and Peccoud, {Samuel J.} and Wen Zhou and Jean Peccoud",

note = "Funding Information: J.P., S.H., C.K., K.M., and C.-T.B. are supported by the National Science Foundation (award #2123367) and the National Institutes of Health (R01GM147816, T32GM132057). T.S.M. is supported by the Defense Advanced Research Projects Agency (N660012324032), the Office of Naval Research (N00014-21-1-2206), U.S. Environmental Protection Agency (84020501), the National Institutes of Health (R01 AT009741), and the National Science Foundation (MCB-2001743 and EF-2222403). C.J.M. is supported by the National Science Foundation (MCB-2231864) and the National Institutes Standards and Technology (70NANB21H103). D.A.N. is supported by the National Institutes of Health (R00HD098330 and DP2AI171121). B.M. and L.U.A. are supported by the National Institutes of Health (R35 GM124747). T.E.G. was supported by a Royal Society University Research Fellowship grant UF160357, a Turing Fellowship from The Alan Turing Institute under the EPSRC grant EP/N510129/1. W.Z. is supported by the National Institutes of Health (R01GM144961) and the National Science Foundation (IOS1922701). This work was part of the Agile BioFoundry (agilebiofoundry.org) supported by the U.S. Department of Energy, Energy Efficiency and Renewable Energy, Bioenergy Technologies Office, and was part of the DOE Joint BioEnergy Institute (jbei.org) supported by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research, through contract DEAC02-05CH11231 between Lawrence Berkeley National Laboratory and the U.S. Department of Energy. The views and opinions of the authors expressed herein do not necessarily state or reflect those of the United States Government or any agency thereof. Neither the United States Government nor any agency thereof, nor any of their employees, makes any warranty, expressed or implied, or assumes any legal liability or responsibility or the accuracy, completeness, or usefulness of any information, apparatus, product, or process disclosed or represents that its use would not infringe privately owned rights. The United States Government retains and the publisher, by accepting the article for publication, acknowledges that the United States Government retains a nonexclusive, paid-up, irrevocable, worldwide license to publish or reproduce the published form of this manuscript, or allow others to do so, for United States Government purposes. The Department of Energy will provide public access to these results of federally sponsored research in accordance with the DOE Public Access Plan (http://energy.gov/downloads/doe-public-access-plan). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.",

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month = dec,

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doi = "10.1371/journal.pcbi.1011652",

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Berezin, C-T, Aguilera, LU, Billerbeck, S, Bourne, PE, Densmore, D, Freemont, P, Gorochowski, TE, Hernandez, SI, Hillson, NJ, King, CR, Köpke, M, Ma, S, Miller, KM, Moon, TS, Moore, JH, Munsky, B, Myers, CJ, Nicholas, DA, Peccoud, SJ, Zhou, W & Peccoud, J 2023, 'Ten simple rules for managing laboratory information', PLoS Computational Biology, vol. 19, no. 12, e1011652. https://doi.org/10.1371/journal.pcbi.1011652

TY - JOUR

T1 - Ten simple rules for managing laboratory information

AU - Berezin, Casey-Tyler

AU - Aguilera, Luis U.

AU - Billerbeck, Sonja

AU - Bourne, Philip E.

AU - Densmore, Douglas

AU - Freemont, Paul

AU - Gorochowski, Thomas E

AU - Hernandez, Sarah I.

AU - Hillson, Nathan J.

AU - King, Connor R.

AU - Köpke, Michael

AU - Ma, Shuyi

AU - Miller, Katie M.

AU - Moon, Tae Seok

AU - Moore, Jason H.

AU - Munsky, Brian

AU - Myers, Chris J.

AU - Nicholas, Dequina A.

AU - Peccoud, Samuel J.

AU - Zhou, Wen

AU - Peccoud, Jean

N1 - Funding Information: J.P., S.H., C.K., K.M., and C.-T.B. are supported by the National Science Foundation (award #2123367) and the National Institutes of Health (R01GM147816, T32GM132057). T.S.M. is supported by the Defense Advanced Research Projects Agency (N660012324032), the Office of Naval Research (N00014-21-1-2206), U.S. Environmental Protection Agency (84020501), the National Institutes of Health (R01 AT009741), and the National Science Foundation (MCB-2001743 and EF-2222403). C.J.M. is supported by the National Science Foundation (MCB-2231864) and the National Institutes Standards and Technology (70NANB21H103). D.A.N. is supported by the National Institutes of Health (R00HD098330 and DP2AI171121). B.M. and L.U.A. are supported by the National Institutes of Health (R35 GM124747). T.E.G. was supported by a Royal Society University Research Fellowship grant UF160357, a Turing Fellowship from The Alan Turing Institute under the EPSRC grant EP/N510129/1. W.Z. is supported by the National Institutes of Health (R01GM144961) and the National Science Foundation (IOS1922701). This work was part of the Agile BioFoundry (agilebiofoundry.org) supported by the U.S. Department of Energy, Energy Efficiency and Renewable Energy, Bioenergy Technologies Office, and was part of the DOE Joint BioEnergy Institute (jbei.org) supported by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research, through contract DEAC02-05CH11231 between Lawrence Berkeley National Laboratory and the U.S. Department of Energy. The views and opinions of the authors expressed herein do not necessarily state or reflect those of the United States Government or any agency thereof. Neither the United States Government nor any agency thereof, nor any of their employees, makes any warranty, expressed or implied, or assumes any legal liability or responsibility or the accuracy, completeness, or usefulness of any information, apparatus, product, or process disclosed or represents that its use would not infringe privately owned rights. The United States Government retains and the publisher, by accepting the article for publication, acknowledges that the United States Government retains a nonexclusive, paid-up, irrevocable, worldwide license to publish or reproduce the published form of this manuscript, or allow others to do so, for United States Government purposes. The Department of Energy will provide public access to these results of federally sponsored research in accordance with the DOE Public Access Plan (http://energy.gov/downloads/doe-public-access-plan). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

PY - 2023/12/7

Y1 - 2023/12/7

N2 - Information is the cornerstone of research, from experimental (meta)data and computational processes to complex inventories of reagents and equipment. These 10 simple rules discuss best practices for leveraging laboratory information management systems to transform this large information load into useful scientific findings.

AB - Information is the cornerstone of research, from experimental (meta)data and computational processes to complex inventories of reagents and equipment. These 10 simple rules discuss best practices for leveraging laboratory information management systems to transform this large information load into useful scientific findings.

U2 - 10.1371/journal.pcbi.1011652

DO - 10.1371/journal.pcbi.1011652

M3 - Article (Academic Journal)

C2 - 38060459

SN - 1553-734X

VL - 19

JO - PLoS Computational Biology

JF - PLoS Computational Biology

IS - 12

M1 - e1011652

ER -

Ten simple rules for managing laboratory information

Abstract

Bibliographical note

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