Reconstructing the evolutionary history of complex human gene clusters

Yu Zhang; Giltae Song; Tomáš Vinař; Eric D. Green; Adam Siepel; Webb Miller

doi:10.1007/978-3-540-78839-3_4

Reconstructing the evolutionary history of complex human gene clusters

Yu Zhang, Giltae Song, Tomáš Vinař, Eric D. Green, Adam Siepel, Webb Miller

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

13 Scopus citations

Abstract

Clusters of genes that evolved from single progenitors via repeated segmental duplications present significant challenges to the generation of a truly complete human genome sequence. Such clusters can confound both accurate sequence assembly and downstream computational analysis, yet they represent a hotbed of functional innovation, making them of extreme interest. We have developed an algorithm for reconstructing the evolutionary history of gene clusters using only human genomic sequence data. This method allows the tempo of large-scale evolutionary events in human gene clusters to be estimated, which in turn will facilitate primate comparative sequencing studies that will aim to reconstruct their evolutionary history more fully.

Original language	English (US)
Title of host publication	Research in Computational Molecular Biology - 12th Annual International Conference, RECOMB 2008, Proceedings
Pages	29-49
Number of pages	21
DOIs	https://doi.org/10.1007/978-3-540-78839-3_4
State	Published - 2008
Event	"12th Annual InternationalConference on REsearch in COmputational Molecular Biology, RECOMB 2008" - Singapore, Singapore Duration: Mar 30 2008 → Apr 2 2008

Publication series

Name	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	4955 LNBI
ISSN (Print)	0302-9743
ISSN (Electronic)	1611-3349

Other

Other	"12th Annual InternationalConference on REsearch in COmputational Molecular Biology, RECOMB 2008"
Country/Territory	Singapore
City	Singapore
Period	3/30/08 → 4/2/08

All Science Journal Classification (ASJC) codes

Theoretical Computer Science
General Computer Science

Access to Document

10.1007/978-3-540-78839-3_4

Cite this

Zhang, Y., Song, G., Vinař, T., Green, E. D., Siepel, A., & Miller, W. (2008). Reconstructing the evolutionary history of complex human gene clusters. In Research in Computational Molecular Biology - 12th Annual International Conference, RECOMB 2008, Proceedings (pp. 29-49). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 4955 LNBI). https://doi.org/10.1007/978-3-540-78839-3_4

Zhang, Yu ; Song, Giltae ; Vinař, Tomáš et al. / Reconstructing the evolutionary history of complex human gene clusters. Research in Computational Molecular Biology - 12th Annual International Conference, RECOMB 2008, Proceedings. 2008. pp. 29-49 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)).

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abstract = "Clusters of genes that evolved from single progenitors via repeated segmental duplications present significant challenges to the generation of a truly complete human genome sequence. Such clusters can confound both accurate sequence assembly and downstream computational analysis, yet they represent a hotbed of functional innovation, making them of extreme interest. We have developed an algorithm for reconstructing the evolutionary history of gene clusters using only human genomic sequence data. This method allows the tempo of large-scale evolutionary events in human gene clusters to be estimated, which in turn will facilitate primate comparative sequencing studies that will aim to reconstruct their evolutionary history more fully.",

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Zhang, Y, Song, G, Vinař, T, Green, ED, Siepel, A & Miller, W 2008, Reconstructing the evolutionary history of complex human gene clusters. in Research in Computational Molecular Biology - 12th Annual International Conference, RECOMB 2008, Proceedings. Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 4955 LNBI, pp. 29-49, "12th Annual InternationalConference on REsearch in COmputational Molecular Biology, RECOMB 2008", Singapore, Singapore, 3/30/08. https://doi.org/10.1007/978-3-540-78839-3_4

Reconstructing the evolutionary history of complex human gene clusters. / Zhang, Yu; Song, Giltae; Vinař, Tomáš et al.
Research in Computational Molecular Biology - 12th Annual International Conference, RECOMB 2008, Proceedings. 2008. p. 29-49 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 4955 LNBI).

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

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Zhang Y, Song G, Vinař T, Green ED, Siepel A, Miller W. Reconstructing the evolutionary history of complex human gene clusters. In Research in Computational Molecular Biology - 12th Annual International Conference, RECOMB 2008, Proceedings. 2008. p. 29-49. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)). doi: 10.1007/978-3-540-78839-3_4

Reconstructing the evolutionary history of complex human gene clusters

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