Genomics Portals: integrative web-platform for mining genomics data

BMC Genomics

Software

Jaroslaw Meller¹  Jing Chen²  Joshi K Vineet²  Mukta Phatak²  Mario Medvedovic²  Kaustubh Shinde²  Freudenberg M Johannes²  Qian Li²  Zhen Hu²  Krishnendu Ghosh² 

[1] Department of Environmental Health, University of Cincinnati College of Medicine, 3223 Eden Av. ML 56, 45267-0056, Cincinnati, OH, USA;Laboratory for Statistical Genomics and Systems Biology, Department of Environmental Health, University of Cincinnati College of Medicine, 3223 Eden Av. ML 56, 45267-0056, Cincinnati, OH, USA;

关键词: Genomic Data;    Gene List;    Gene Expression Dataset;    Functional Knowledge;    Molecular Interaction Network;   

DOI  :  10.1186/1471-2164-11-27

 received in 2009-09-10, accepted in 2010-01-13,  发布年份 2010

来源: Springer

【 摘 要 】

BackgroundA large amount of experimental data generated by modern high-throughput technologies is available through various public repositories. Our knowledge about molecular interaction networks, functional biological pathways and transcriptional regulatory modules is rapidly expanding, and is being organized in lists of functionally related genes. Jointly, these two sources of information hold a tremendous potential for gaining new insights into functioning of living systems.ResultsGenomics Portals platform integrates access to an extensive knowledge base and a large database of human, mouse, and rat genomics data with basic analytical visualization tools. It provides the context for analyzing and interpreting new experimental data and the tool for effective mining of a large number of publicly available genomics datasets stored in the back-end databases. The uniqueness of this platform lies in the volume and the diversity of genomics data that can be accessed and analyzed (gene expression, ChIP-chip, ChIP-seq, epigenomics, computationally predicted binding sites, etc), and the integration with an extensive knowledge base that can be used in such analysis.ConclusionThe integrated access to primary genomics data, functional knowledge and analytical tools makes Genomics Portals platform a unique tool for interpreting results of new genomics experiments and for mining the vast amount of data stored in the Genomics Portals backend databases. Genomics Portals can be accessed and used freely at http://GenomicsPortals.org.

【 授权许可】

Unknown   
© Shinde et al; licensee BioMed Central Ltd. 2010. This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.