Correlation of expression profiles between microRNAs and mRNA targets using NCI-60 data

doi:10.1186/1471-2164-10-218

BMC Genomics

Volume 10

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Research article

Correlation of expression profiles between microRNAs and mRNA targets using NCI-60 data

Yu-Ping Wang² and Kuo-Bin Li¹^,2

¹Institute of Biomedical Informatics, National Yang-Ming University, Taipei, 11221, Taiwan

²Center for Systems and Synthetic Biology, National Yang-Ming University, Taipei, 11221, Taiwan

author email corresponding author email

BMC Genomics 2009, 10:218doi:10.1186/1471-2164-10-218


Published:	12 May 2009

Additional files

Additional file 1:

Significantly correlated microarray probe pairs. Significantly correlated microarray probe pairs, predicted by TargetScan 4.1. Pearson correlation coefficients, p-values and Benjamini and Hochberg adjusted p-values are listed.

Format: XLS Size: 431KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 2:

Significantly correlated microarray probe pairs. Significantly correlated microarray probe pairs, predicted by miRBase. Pearson correlation coefficients, p-values and Benjamini and Hochberg adjusted p-values are listed.

Format: XLS Size: 626KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 3:

Probe-probe correlations for GenMiR++ predicted miRNA-target pairs. Significantly correlated microarray probe pairs, data taken from GenMiR++. Pearson correlation coefficients, p-values and Benjamini and Hochberg adjusted p-values are listed.

Format: XLS Size: 2.6MB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 4:

Probe-probe correlations for experimentally supported miRNA-target pairs in TarBase. Significantly correlated microarray probe pairs, data taken from Tarbase version 4. Pearson correlation coefficients, p-values and Benjamini and Hochberg adjusted p-values are listed.

Format: XLS Size: 289KB Download file

This file can be viewed with: Microsoft Excel Viewer

Additional file 5:

Significant correlations between known intronic miRNAs and host genes. Significantly correlated microarray probe pairs for intronic miRNAs and their host genes. Pearson correlation coefficients, p-values and Benjamini and Hochberg adjusted p-values are listed.

Format: XLS Size: 20KB Download file

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Additional file 6:

Study on spatial biases of the miRNA array design. To study the spatial biases problem found on microarray design, we performed the autocorrelation analysis on the OSUCCC miRNA microarray. The procedure has been described in [40]. The analysis was applied to the 60 cancer cell lines in MCI-60 miRNA expression profiles. Among which we show four results to illustrate that periodic autocorrelations were not obvious.

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