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

Tim F. Rayner; Philippe Rocca-Serra; Paul T. Spellman; Helen C. Causton; Anna Farne; Ele Holloway; Rafael A. Irizarry; Junmin Liu; Donald S. Maier; Michael Miller; Kjell Petersen; John Quackenbush; Gavin Sherlock; Christian J. Stoeckert; Joseph White; Patricia L. Whetzel; Farrell Wymore; Helen Parkinson; Ugis Sarkans; Catherine A. Ball; Alvis Brazma

doi:10.1186/1471-2105-7-489

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

Tim F. Rayner, Philippe Rocca-Serra, Paul T. Spellman, Helen C. Causton, Anna Farne, Ele Holloway, Rafael A. Irizarry, Junmin Liu, Donald S. Maier, Michael Miller, Kjell Petersen, John Quackenbush, Gavin Sherlock, Christian J. Stoeckert, Joseph White, Patricia L. Whetzel, Farrell Wymore, Helen Parkinson, Ugis Sarkans, Catherine A. BallAlvis Brazma

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

153 Scopus citations

Abstract

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.

Original language	English (US)
Article number	489
Journal	BMC Bioinformatics
Volume	7
DOIs	https://doi.org/10.1186/1471-2105-7-489
State	Published - Nov 6 2006
Externally published	Yes

ASJC Scopus subject areas

Structural Biology
Biochemistry
Molecular Biology
Computer Science Applications
Applied Mathematics

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10.1186/1471-2105-7-489

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Rayner, T. F., Rocca-Serra, P., Spellman, P. T., Causton, H. C., Farne, A., Holloway, E., Irizarry, R. A., Liu, J., Maier, D. S., Miller, M., Petersen, K., Quackenbush, J., Sherlock, G., Stoeckert, C. J., White, J., Whetzel, P. L., Wymore, F., Parkinson, H., Sarkans, U., ... Brazma, A. (2006). A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinformatics, 7, Article 489. https://doi.org/10.1186/1471-2105-7-489

Rayner, TF, Rocca-Serra, P, Spellman, PT, Causton, HC, Farne, A, Holloway, E, Irizarry, RA, Liu, J, Maier, DS, Miller, M, Petersen, K, Quackenbush, J, Sherlock, G, Stoeckert, CJ, White, J, Whetzel, PL, Wymore, F, Parkinson, H, Sarkans, U, Ball, CA & Brazma, A 2006, 'A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB', BMC Bioinformatics, vol. 7, 489. https://doi.org/10.1186/1471-2105-7-489

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

abstract = "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.",

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AU - Rocca-Serra, Philippe

AU - Spellman, Paul T.

AU - Causton, Helen C.

AU - Farne, Anna

AU - Holloway, Ele

AU - Irizarry, Rafael A.

AU - Liu, Junmin

AU - Maier, Donald S.

AU - Miller, Michael

AU - Petersen, Kjell

AU - Quackenbush, John

AU - Sherlock, Gavin

AU - Stoeckert, Christian J.

AU - White, Joseph

AU - Whetzel, Patricia L.

AU - Wymore, Farrell

AU - Parkinson, Helen

AU - Sarkans, Ugis

AU - Ball, Catherine A.

AU - Brazma, Alvis

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

Abstract

ASJC Scopus subject areas

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