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PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development

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PROTEINCHALLENGE : Crowd sourcing in proteomics analysis and software development. / Martin, Sarah F; Falkenberg, Heiner; Dyrlund, Thomas Franck; Khoudoli, Guennadi A; Mageean, Craig J; Linding, Rune.

I: Journal of Proteomics, Bind 88, 02.08.2013, s. 41-46.

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avisTidsskriftartikelForskningpeer review

Harvard

Martin, SF, Falkenberg, H, Dyrlund, TF, Khoudoli, GA, Mageean, CJ & Linding, R 2013, 'PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development', Journal of Proteomics, bind 88, s. 41-46. https://doi.org/10.1016/j.jprot.2012.11.014

APA

Martin, S. F., Falkenberg, H., Dyrlund, T. F., Khoudoli, G. A., Mageean, C. J., & Linding, R. (2013). PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development. Journal of Proteomics, 88, 41-46. https://doi.org/10.1016/j.jprot.2012.11.014

CBE

Martin SF, Falkenberg H, Dyrlund TF, Khoudoli GA, Mageean CJ, Linding R. 2013. PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development. Journal of Proteomics. 88:41-46. https://doi.org/10.1016/j.jprot.2012.11.014

MLA

Vancouver

Martin SF, Falkenberg H, Dyrlund TF, Khoudoli GA, Mageean CJ, Linding R. PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development. Journal of Proteomics. 2013 aug 2;88:41-46. https://doi.org/10.1016/j.jprot.2012.11.014

Author

Martin, Sarah F ; Falkenberg, Heiner ; Dyrlund, Thomas Franck ; Khoudoli, Guennadi A ; Mageean, Craig J ; Linding, Rune. / PROTEINCHALLENGE : Crowd sourcing in proteomics analysis and software development. I: Journal of Proteomics. 2013 ; Bind 88. s. 41-46.

Bibtex

@article{e9228210c0764ff287229aa3196d2b0d,
title = "PROTEINCHALLENGE: Crowd sourcing in proteomics analysis and software development",
abstract = "In large-scale proteomics studies there is a temptation, after months of experimental work, to plug resulting data into a convenient-if poorly implemented-set of tools, which may neither do the data justice nor help answer the scientific question. In this paper we have captured key concerns, including arguments for community-wide open source software development and {"}big data{"} compatible solutions for the future. For the meantime, we have laid out ten top tips for data processing. With these at hand, a first large-scale proteomics analysis hopefully becomes less daunting to navigate. However there is clearly a real need for robust tools, standard operating procedures and general acceptance of best practises. Thus we submit to the proteomics community a call for a community-wide open set of proteomics analysis challenges-PROTEINCHALLENGE-that directly target and compare data analysis workflows, with the aim of setting a community-driven gold standard for data handling, reporting and sharing. This article is part of a Special Issue entitled: EUPA 2012: NEW HORIZONS.",
keywords = "Crowd sourcing, Community challenge, Data analysis, Software, Benchmarking;",
author = "Martin, {Sarah F} and Heiner Falkenberg and Dyrlund, {Thomas Franck} and Khoudoli, {Guennadi A} and Mageean, {Craig J} and Rune Linding",
note = "Copyright {\textcopyright} 2012. Published by Elsevier B.V.",
year = "2013",
month = aug,
day = "2",
doi = "10.1016/j.jprot.2012.11.014",
language = "English",
volume = "88",
pages = "41--46",
journal = "Journal of Proteomics",
issn = "1874-3919",
publisher = "Elsevier BV",

}

RIS

TY - JOUR

T1 - PROTEINCHALLENGE

T2 - Crowd sourcing in proteomics analysis and software development

AU - Martin, Sarah F

AU - Falkenberg, Heiner

AU - Dyrlund, Thomas Franck

AU - Khoudoli, Guennadi A

AU - Mageean, Craig J

AU - Linding, Rune

N1 - Copyright © 2012. Published by Elsevier B.V.

PY - 2013/8/2

Y1 - 2013/8/2

N2 - In large-scale proteomics studies there is a temptation, after months of experimental work, to plug resulting data into a convenient-if poorly implemented-set of tools, which may neither do the data justice nor help answer the scientific question. In this paper we have captured key concerns, including arguments for community-wide open source software development and "big data" compatible solutions for the future. For the meantime, we have laid out ten top tips for data processing. With these at hand, a first large-scale proteomics analysis hopefully becomes less daunting to navigate. However there is clearly a real need for robust tools, standard operating procedures and general acceptance of best practises. Thus we submit to the proteomics community a call for a community-wide open set of proteomics analysis challenges-PROTEINCHALLENGE-that directly target and compare data analysis workflows, with the aim of setting a community-driven gold standard for data handling, reporting and sharing. This article is part of a Special Issue entitled: EUPA 2012: NEW HORIZONS.

AB - In large-scale proteomics studies there is a temptation, after months of experimental work, to plug resulting data into a convenient-if poorly implemented-set of tools, which may neither do the data justice nor help answer the scientific question. In this paper we have captured key concerns, including arguments for community-wide open source software development and "big data" compatible solutions for the future. For the meantime, we have laid out ten top tips for data processing. With these at hand, a first large-scale proteomics analysis hopefully becomes less daunting to navigate. However there is clearly a real need for robust tools, standard operating procedures and general acceptance of best practises. Thus we submit to the proteomics community a call for a community-wide open set of proteomics analysis challenges-PROTEINCHALLENGE-that directly target and compare data analysis workflows, with the aim of setting a community-driven gold standard for data handling, reporting and sharing. This article is part of a Special Issue entitled: EUPA 2012: NEW HORIZONS.

KW - Crowd sourcing

KW - Community challenge

KW - Data analysis

KW - Software

KW - Benchmarking;

U2 - 10.1016/j.jprot.2012.11.014

DO - 10.1016/j.jprot.2012.11.014

M3 - Journal article

C2 - 23220569

VL - 88

SP - 41

EP - 46

JO - Journal of Proteomics

JF - Journal of Proteomics

SN - 1874-3919

ER -