Community standards for open cell migration data

被引：11

作者：

Gonzalez-Beltran, Alejandra N. ^{[1
,2
]}

Masuzzo, Paola ^{[3
,4
,5
]}

Ampe, Christophe ^{[4
]}

Bakker, Gert-Jan ^{[6
]}

Besson, Sebastien ^{[7
,8
]}

Eibl, Robert H. ^{[9
]}

Friedl, Peter ^{[6
,10
,11
]}

Gunzer, Matthias ^{[12
,13
]}

Kittisopikul, Mark ^{[14
,15
]}

Le Devedec, Sylvia E. ^{[16
]}

Leo, Simone ^{[7
,8
,17
]}

Moore, Josh ^{[7
,8
]}

Paran, Yael ^{[18
]}

Prilusky, Jaime ^{[19
]}

Rocca-Serra, Philippe ^{[1
]}

Roudot, Philippe ^{[20
]}

Schuster, Marc ^{[12
]}

Sergeant, Gwendolien ^{[4
]}

Stromblad, Staffan ^{[21
]}

Swedlow, Jason R. ^{[7
,8
]}

van Erp, Merijn ^{[6
]}

Van Troys, Marleen ^{[4
]}

Zaritsky, Assaf ^{[22
]}

Sansone, Susanna-Assunta ^{[1
]}

Martens, Lennart ^{[3
,4
]}

机构：

[1] Univ Oxford, Oxford E Res Ctr, Dept Engn Sci, 7 Keble Rd, Oxford OX1 3QG, England

[2] Sci & Technol Facil Council, Rutherford Appleton Lab, Sci Comp Dept, Harwell Campus, Didcot OX11 0QX, Oxon, England

[3] VIB, VIB UGent Ctr Med Biotechnol, A Baertsoenkaai 3, B-9000 Ghent, Belgium

[4] Univ Ghent, Dept Biomol Med, A Baertsoenkaai 3, B-9000 Ghent, Belgium

[5] Inst Globally Distributed Open Res & Educ IGDORE, Kabupaten Gianyar 80571, Bali, Indonesia

[6] Radboud Inst Mol Life Sci, Dept Cell Biol, Geert Grootepl 28, NL-6525 GA Nijmegen, Netherlands

[7] Univ Dundee, Ctr Gene Regulat & Express, Sch Life Sci, Dow St, Dundee DD1 5EH, Scotland

[8] Univ Dundee, Div Computat Biol, Sch Life Sci, Dow St, Dundee DD1 5EH, Scotland

[9] DKFZ Alumni Assoc, German Canc Res Ctr, Neuenheimer Feld 280, D-69120 Heidelberg, Germany

[10] UT MD Anderson Canc Ctr, David H Koch Ctr Appl Genitourinary Med, 6767 Bertner Ave,Mitchell Basic Sci Res Bldg, Houston, TX 77030 USA

[11] Canc Genom Ctr, Univ Weg 100, NL-3584 CG Utrecht, Netherlands

[12] Univ Duisburg Essen, Univ Hosp, Inst Expt Immunol & Imaging, Univ Str 2, D-45141 Essen, Germany

[13] ISAS, Leibniz Inst Analyt Sci, Bunsen Kirchhoff Str 11, D-44139 Dortmund, Germany

[14] UT Southwestern Med Ctr, Dept Biophys, 5323 Harry Hines Blvd, Dallas, TX 75390 USA

[15] Northwestern Univ, Feinberg Sch Med, Dept Cell & Dev Biol, 303 E Chicago Ave, Chicago, IL 60611 USA

[16] Leiden Univ, Leiden Acad Ctr Drug Res, Div Drug Discovery & Safety, POB 9502, NL-2300 RA Leiden, Netherlands

[17] Ctr Adv Studies Res & Dev Sardinia CRS4, Edificio 1, I-09050 Pula, CA, Italy

[18] IDEA Biomed Ltd, 2 Prof Bergman St, IL-76705 Rehovot, Israel

[19] Weizmann Inst Sci, Life Sci Core Facil, POB 26, IL-76100 Rehovot, Israel

[20] UT Southwestern Med Ctr, Lyda Hill Dept Bioinformat, 5323 Harry Hines Blvd, Dallas, TX 75390 USA

[21] Karolinska Inst, Dept Biosci & Nutr, SE-14183 Huddinge, Sweden

[22] Ben Gurion Univ Negev, Dept Software & Informat Syst Engn, POB 653, IL-8410501 Beer Sheva, Israel

来源：

GIGASCIENCE | 2020年 / 9卷 / 05期

基金：

英国生物技术与生命科学研究理事会; 欧盟地平线“2020”;

关键词：

cell migration; data standards; metadata; CMSO; MIACME; biotracks; frictionless data package; FAIR data; MINIMUM INFORMATION; IMAGE DATA; FUTURE;

D O I：

10.1093/gigascience/giaa041

中图分类号：

Q [生物科学];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Cell migration research has become a high-content field. However, the quantitative information encapsulated in these complex and high-dimensional datasets is not fully exploited owing to the diversity of experimental protocols and non-standardized output formats. In addition, typically the datasets are not open for reuse. Making the data open and Findable, Accessible, Interoperable, and Reusable (FAIR) will enable meta-analysis, data integration, and data mining. Standardized data formats and controlled vocabularies are essential for building a suitable infrastructure for that purpose but are not available in the cell migration domain. We here present standardization efforts by the Cell Migration Standardisation Organisation (CMSO), an open community-driven organization to facilitate the development of standards for cell migration data. This work will foster the development of improved algorithms and tools and enable secondary analysis of public datasets, ultimately unlocking new knowledge of the complex biological process of cell migration.

引用

页数：11

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