Open Access Research article

Conversion events in gene clusters

Giltae Song1*, Chih-Hao Hsu2, Cathy Riemer1, Yu Zhang1, Hie Lim Kim1, Federico Hoffmann3, Louxin Zhang4, Ross C Hardison1, NISC Comparative Sequencing Program5, Eric D Green5 and Webb Miller1

Author Affiliations

1 Center for Comparative Genomics and Bioinformatics, Pennsylvania State University, University Park, PA 16802 USA

2 Computational Biology Branch, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health (NIH), Bethesda, MD, 20892 USA

3 Department of Biochemistry and Molecular Biology, Mississippi State University, Mississippi State, MS 39760, USA

4 Department of Mathematics, National University of Singapore, 117543, Singapore

5 NIH Intramural Sequencing Center (NISC) and Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, 50 South Drive, Bethesda, MD 20892 USA

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BMC Evolutionary Biology 2011, 11:226  doi:10.1186/1471-2148-11-226

Published: 28 July 2011

Additional files

Additional file 1:

Supplement. This includes Table S1 - GenBank accession numbers of the new sequences; Table S2 - Summary of detected conversions in the five human gene clusters; Table S3 - Fraction of paralogous pairs by their number of conversion events, out of all paralogous sequence pairs; Table S4 - Fraction of bases by their number of conversion events (involved as either source or target), out of all bases involved in duplications; Table S5 - Hot-spot segments of conversion events; and Figure S1 - Performance of our CHAP pipeline based on a simulation study.

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