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J Immunol Res. 2015;2015:140819. doi: 10.1155/2015/140819. Epub 2015 Dec 3.

MIrExpress: A Database for Gene Coexpression Correlation in Immune Cells Based on Mutual Information and Pearson Correlation.

Author information

1
School of Information, Beijing Forestry University, Beijing 100083, China; Department of Natural Science in Medicine, Peking University Health Science Center, Beijing 100191, China.
2
School of Information, Beijing Forestry University, Beijing 100083, China.
3
School of Information, Beijing Forestry University, Beijing 100083, China; Center for Computational Biology, Beijing Forestry University, Beijing 100083, China.

Abstract

Most current gene coexpression databases support the analysis for linear correlation of gene pairs, but not nonlinear correlation of them, which hinders precisely evaluating the gene-gene coexpression strengths. Here, we report a new database, MIrExpress, which takes advantage of the information theory, as well as the Pearson linear correlation method, to measure the linear correlation, nonlinear correlation, and their hybrid of cell-specific gene coexpressions in immune cells. For a given gene pair or probe set pair input by web users, both mutual information (MI) and Pearson correlation coefficient (r) are calculated, and several corresponding values are reported to reflect their coexpression correlation nature, including MI and r values, their respective rank orderings, their rank comparison, and their hybrid correlation value. Furthermore, for a given gene, the top 10 most relevant genes to it are displayed with the MI, r, or their hybrid perspective, respectively. Currently, the database totally includes 16 human cell groups, involving 20,283 human genes. The expression data and the calculated correlation results from the database are interactively accessible on the web page and can be implemented for other related applications and researches.

PMID:
26881263
PMCID:
PMC4735977
DOI:
10.1155/2015/140819
[Indexed for MEDLINE]
Free PMC Article

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