Open Access Highly Accessed Research article

Deciphering the transcriptional circuitry of microRNA genes expressed during human monocytic differentiation

Sebastian Schmeier13, Cameron R MacPherson1, Magbubah Essack1, Mandeep Kaur13, Ulf Schaefer13, Harukazu Suzuki2, Yoshihide Hayashizaki2 and Vladimir B Bajic13*

Author Affiliations

1 South African National Bioinformatics Institute, University of the Western Cape, Modderdam Road, Bellville, South Africa

2 RIKEN Omics Science Center, RIKEN Yokohama Institute, 1-7-22 Suehiro-cho, Tsurumi-ku Yokohama, Kanagawa, 230-0045 Japan

3 Computational Bioscience Research Center (CBRC), King Abdullah University of Science and Technology (KAUST), Thuwal 23955-6900, Kingdom of Saudi Arabia

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BMC Genomics 2009, 10:595  doi:10.1186/1471-2164-10-595

Published: 10 December 2009

Additional files

Additional file 1:

Promoter regions miRNAs. The first column contains the pre-miRNA identifier. The second column contains the chromosomal positions of the associated promoter regions separated by comma. Note that several pre-miRNAs can have the same promoter region associated, because they are transcribed together in form of a cluster.

Format: XLS Size: 23KB Download file

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Additional file 2:

Interpolated expression data for 34 mature miRNA. The file consists of 195 columns. The first column contains the mature miRNA identifier. The second column contains the associated pre-miRNA identifier(s). Column 3-194 contain the interpolated expression values ranging in half an hour steps from 0 to 96 hours.

Format: XLS Size: 263KB Download file

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Additional file 3:

Predicted TF→miRNA associations and their inferred PCC values. The file consists of three columns. The first column contains the TF. An identifier consists of the Gene Symbol separated by an underscore with the Entrez Gene id. The second column contains the pre-miRNA identifier of the miRNA that forms an association with the TF of the first column. The third column contains the inferred PCC for the association, which is based on the expression data of the TF and the mature miRNA associated to the pre-miRNA(s). In total the file contains 1,989 TF→miRNA associations.

Format: XLS Size: 319KB Download file

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Additional file 4:

Interpolated expression data for 258 TFs. The file consists of interpolated expression data for 258 TFs that are present in the predicted TF→miRNA associations. Furthermore, the file consists of 194 columns. The first column is the TF identifier (Entrez Gene Id). Column 2-194 contain the interpolated expression values ranging in half an hour steps from 0 to 96 hours.

Format: XLS Size: 1.7MB Download file

This file can be viewed with: Microsoft Excel Viewer

Open Data