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MiMiR--an integrated platform for microarray data sharing, mining and analysis.

Chris Tomlinson¹, Manjula Thimma, Stelios Alexandrakis

¹Microarray Centre, MRC Clinical Sciences Centre and Imperial College, Hammersmith Hospital, London, UK. chris.tomlinson@imperial.ac.uk

BMC Bioinformatics

|September 20, 2008

Summary

This summary is machine-generated.

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The MiMiR resource enhances microarray data management and sharing. New tools improve annotation accuracy and accessibility, enabling secure data mining and analysis for researchers before publication.

Area of Science:

Bioinformatics
Genomics
Data Science

Background:

Microarray technologies generate vast datasets posing challenges in data management, sharing, and re-use.
Inconsistent experimental annotation in public repositories hinders meta-analysis of microarray data.
The Microarray data Mining Resource (MiMiR) was developed to address these limitations.

Purpose of the Study:

To present new software components and enhancements to the MiMiR infrastructure.
To increase accessibility, utility, and opportunities for large-scale mining of experimental and clinical data.
To improve the capture and secure sharing of microarray data and associated clinical information.

Main Methods:

Development of an Online Annotation Tool for user-submitted experimental information.

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Implementation of a Curation and Annotation Tool for systematic data curation by trained annotators.

Integration of a clinical Data Mapping Tool for annotating and coding clinical information within an ethical framework.

Establishment of a secure middleware security layer for controlled data access and sharing.

Main Results:

The Online Annotation Tool ensures easy access and high accuracy of meta-data.
MiMiR facilitates visualization, quality assessment, and data sharing via MiMiR Online.
Secure data access and sharing are enabled for registered users prior to publication.
Data mining and analysis are supported through the EMAAS web portal or data export.

Conclusions:

The MiMiR software suite enables systematic capture of extensive experimental and clinical information with high MIAME scores.
MiMiR currently houses over 150 experiments and supports a large user community and international consortia.
The flexible architecture supports secure warehousing of thousands of datasets, including clinical studies, from various -omics technologies.