Whole-genome analysis of gene conversion events

Chih Hao Hsu; Yu Zhang; Ross Hardison; Webb Miller

doi:10.1007/978-3-642-04744-2_15

Whole-genome analysis of gene conversion events

Chih Hao Hsu, Yu Zhang, Ross Hardison, Webb Miller

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

2 Scopus citations

Abstract

Gene conversion events are often overlooked in analyses of genome evolution. In a conversion event, an interval of DNA sequence (not necessarily containing a gene) overwrites a highly similar sequence. The event creates relationships among genomic intervals that can confound attempts to identify orthologs and to transfer functional annotation between genomes. Here we examine 1,112,202 paralogous pairs of human genomic intervals, and detect conversion events in about 13.5% of them. Properties of the putative gene conversions are analyzed, such as the lengths of the paralogous pairs and the spacing between their sources and targets. Our approach is illustrated using conversion events in the beta-globin gene cluster.

Original language	English (US)
Title of host publication	Comparative Genomics - International Workshop, RECOMB-CG 2009, Proceedings
Pages	181-192
Number of pages	12
DOIs	https://doi.org/10.1007/978-3-642-04744-2_15
State	Published - 2009
Event	7th International Workshop on Comparative Genomics, RECOMB-CG 2009 - Budapest, Hungary Duration: Sep 27 2009 → Sep 29 2009

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	5817 LNBI
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Other

Other	7th International Workshop on Comparative Genomics, RECOMB-CG 2009
Country/Territory	Hungary
City	Budapest
Period	9/27/09 → 9/29/09

All Science Journal Classification (ASJC) codes

Theoretical Computer Science
General Computer Science

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10.1007/978-3-642-04744-2_15

Cite this

Hsu, C. H., Zhang, Y., Hardison, R., & Miller, W. (2009). Whole-genome analysis of gene conversion events. In Comparative Genomics - International Workshop, RECOMB-CG 2009, Proceedings (pp. 181-192). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5817 LNBI). https://doi.org/10.1007/978-3-642-04744-2_15

@inproceedings{377312b5f539480ea19803b0ffcfcf9e,

title = "Whole-genome analysis of gene conversion events",

abstract = "Gene conversion events are often overlooked in analyses of genome evolution. In a conversion event, an interval of DNA sequence (not necessarily containing a gene) overwrites a highly similar sequence. The event creates relationships among genomic intervals that can confound attempts to identify orthologs and to transfer functional annotation between genomes. Here we examine 1,112,202 paralogous pairs of human genomic intervals, and detect conversion events in about 13.5% of them. Properties of the putative gene conversions are analyzed, such as the lengths of the paralogous pairs and the spacing between their sources and targets. Our approach is illustrated using conversion events in the beta-globin gene cluster.",

author = "Hsu, {Chih Hao} and Yu Zhang and Ross Hardison and Webb Miller",

year = "2009",

doi = "10.1007/978-3-642-04744-2_15",

language = "English (US)",

isbn = "3642047432",

series = "Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)",

pages = "181--192",

booktitle = "Comparative Genomics - International Workshop, RECOMB-CG 2009, Proceedings",

note = "7th International Workshop on Comparative Genomics, RECOMB-CG 2009 ; Conference date: 27-09-2009 Through 29-09-2009",

}

Hsu, CH, Zhang, Y, Hardison, R & Miller, W 2009, Whole-genome analysis of gene conversion events. in Comparative Genomics - International Workshop, RECOMB-CG 2009, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 5817 LNBI, pp. 181-192, 7th International Workshop on Comparative Genomics, RECOMB-CG 2009, Budapest, Hungary, 9/27/09. https://doi.org/10.1007/978-3-642-04744-2_15

Whole-genome analysis of gene conversion events. / Hsu, Chih Hao; Zhang, Yu; Hardison, Ross et al.
Comparative Genomics - International Workshop, RECOMB-CG 2009, Proceedings. 2009. p. 181-192 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 5817 LNBI).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

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AB - Gene conversion events are often overlooked in analyses of genome evolution. In a conversion event, an interval of DNA sequence (not necessarily containing a gene) overwrites a highly similar sequence. The event creates relationships among genomic intervals that can confound attempts to identify orthologs and to transfer functional annotation between genomes. Here we examine 1,112,202 paralogous pairs of human genomic intervals, and detect conversion events in about 13.5% of them. Properties of the putative gene conversions are analyzed, such as the lengths of the paralogous pairs and the spacing between their sources and targets. Our approach is illustrated using conversion events in the beta-globin gene cluster.

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Whole-genome analysis of gene conversion events

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