standards > model/format > DOI:10.25504/FAIRsharing.ak8p5g


ready MicroArray Gene Expression Tabular Format

Abbreviation: MAGE-TAB


General Information
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 FGED Society. However, the complexity of the MAGE-ML format has made its use impractical for laboratories lacking dedicated bioinformatics support. 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. 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

Homepage http://fged.org/projects/mage-tab/

Countries that developed this resource European Union , United Kingdom

Created in 2006

Taxonomic range




How to cite this record FAIRsharing.org: MAGE-TAB; MicroArray Gene Expression Tabular Format; DOI: https://doi.org/10.25504/FAIRsharing.ak8p5g; Last edited: Jan. 8, 2019, 1:40 p.m.; Last accessed: Apr 21 2021 5:47 p.m.


Record updated: July 7, 2016, 10:40 p.m. by The FAIRsharing Team.



In Collections
FAIRDOM Community Standards
bioCADDIE
ISO/CD 20691 Collection - DRAFT




Schemas

No XSD schemas defined


Access / Retrieve Data

Conditions of Use





Publications

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


BMC Bioinformatics 2006

View Paper (PubMed)

Related Standards

Terminology Artifacts

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined


Related Databases (6)
BuG@Sbase
BuG@Sbase is a microbial gene expression and comparative genomic database containing microarray datasets.
Expression Atlas
The Expression Atlas is a free resource providing information on gene expression patterns under different biological conditions in a variety of species. Gene expression data is re-analysed in-house to detect genes showing interesting baseline and differential expression patterns, allowing a user to ask questions such as "what are the genes expressed in normal human liver" and "what genes are differentially expressed between water-stressed rice plants and controls with normal watering?" The resource features proteomics data sets provided by collaborators for corroboration between gene- and protein-level expression results. The latest component, Single Cell Expression Atlas, systematically reanalyses and visualises single cell RNA-sequencing datasets and helps answer questions such as what cell population a gene can act as a marker gene.
ArrayExpress
ArrayExpress is a database of functional genomics experiments that can be queried and the data downloaded. It includes gene expression data from microarray and high throughput sequencing studies. Data is collected to MIAME and MINSEQE standards. Experiments are submitted directly to ArrayExpress or are imported from the NCBI GEO database.
Stanford Microarray Database
The Stanford Microarray Database is a repository a microarray based gene expression and comparative genomics data. This resource is no longer being maintained please us public repositories NCBI Gene Expression Omnibus or EBI Array Express
Catalogue of Somatic Mutations in Cancer
The Catalogue of Somatic Mutations in Cancer (COSMIC) is a database of manually-curated somatic mutation information relating to human cancers. The COSMIC database combines manually-curated data and genome-wide screen data.
Genomic Expression Archive
Genomic Expression Archive (GEA) is a public database of functional genomics data such as gene expression, epigenetics and genotyping SNP array. Both microarray- and sequence-based data are accepted in the MAGE-TAB format in compliance with MIAME and MINSEQE guidelines, respectively. GEA issues accession numbers, E-GEAD-n to experiment and A-GEAD-n to array design.

Scroll for more...


Implementing Policies

This record is not implemented by any policy.


Credit

Record Maintainer

  • This record is in need of a maintainer. If you login, you'll be able to claim this record.

Funds

Maintains