A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB

被引:138
作者
Rayner, Tim F.
Rocca-Serra, Philippe
Spellman, Paul T.
Causton, Helen C.
Farne, Anna
Holloway, Ele
Irizarry, Rafael A.
Liu, Junmin
Maier, Donald S.
Miller, Michael
Petersen, Kjell
Quackenbush, John
Sherlock, Gavin
Stoeckert, Christian J., Jr.
White, Joseph
Whetzel, Patricia L.
Wymore, Farrell
Parkinson, Helen
Sarkans, Ugis
Ball, Catherine A.
Brazma, Alvis
机构
[1] European Bioinformat Inst, Cambridge, England
[2] Lawrence Berkeley Natl Lab, Berkeley, CA USA
[3] Ctr Clin Sci, Fac Med, MRC, London, England
[4] Johns Hopkins Univ, Sch Publ Hlth, Dept Biostat, Baltimore, MD USA
[5] Univ Penn, Sch Med, Ctr Bioinformat, Philadelphia, PA 19104 USA
[6] Univ Penn, Sch Med, Dept Med, Philadelphia, PA 19104 USA
[7] Stanford Univ, Sch Med, Dept Biochem, Stanford, CA 94305 USA
[8] Rosetta Inpharmat LLC, Rosetta Biosoftware, Seattle, WA USA
[9] Univ Bergen, Bergen Ctr Computat Sci, Computat Biol Unit, N-5020 Bergen, Norway
[10] Dana Farber Canc Inst, Boston, MA 02115 USA
[11] Stanford Univ, Sch Med, Dept Genet, Stanford, CA 94305 USA
关键词
D O I
10.1186/1471-2105-7-489
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Background: Sharing of microarray data within the research community has been greatly facilitated by the development of the disclosure and communication standards MIAME and MAGE-ML by the MGED Society. However, the complexity of the MAGE-ML format has made its use impractical for laboratories lacking dedicated bioinformatics support. Results: We propose a simple tab-delimited, spreadsheet-based format, MAGE-TAB, which will become a part of the MAGE microarray data standard and can be used for annotating and communicating microarray data in a MIAME compliant fashion. Conclusion: MAGE-TAB will enable laboratories without bioinformatics experience or support to manage, exchange and submit well-annotated microarray data in a standard format using a spreadsheet. The MAGE-TAB format is self-contained, and does not require an understanding of MAGE-ML or XML.
引用
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页数:18
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