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Evolution at the nucleotide level: the problem of multiple whole-genome alignment

Dewey, Colin N. and Pachter, Lior (2006) Evolution at the nucleotide level: the problem of multiple whole-genome alignment. Human Molecular Genetics, 15 (Suppl. 1). R51-R56. ISSN 0964-6906. https://resolver.caltech.edu/CaltechAUTHORS:20170307-162320251

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Abstract

With the genome sequences of numerous species at hand, we have the opportunity to discover how evolution has acted at each and every nucleotide in our genome. To this end, we must identify sets of nucleotides that have descended from a common ancestral nucleotide. The problem of identifying evolutionary-related nucleotides is that of sequence alignment. When the sequences under consideration are entire genomes, we have the problem of multiple whole-genome alignment. In this paper, we first state a series of definitions for homology and its subrelations between single nucleotides. Within this framework, we review the current methods available for the alignment of multiple large genomes. We then describe a subset of tools that make biological inferences from multiple whole-genome alignments.


Item Type:Article
Related URLs:
URLURL TypeDescription
https://doi.org/10.1093/hmg/ddl056DOIArticle
https://academic.oup.com/hmg/article/15/suppl_1/R51/632717/Evolution-at-the-nucleotide-level-the-problem-ofPublisherArticle
ORCID:
AuthorORCID
Pachter, Lior0000-0002-9164-6231
Additional Information:© The Author 2006. Published by Oxford University Press. Received February 1, 2006; Revised and Accepted March 9, 2006. C.N.D. was supported by the NIH (HG003150). L.P. was supported by the NIH (R01-HG2362-3 and HG003150) and an NSF CAREER award (CCF-0347992). Conflict of Interest statement. None declared.
Funders:
Funding AgencyGrant Number
NIHHG003150
NIHR01-HG2362-3
NSFCCF-0347992
Issue or Number:Suppl. 1
Record Number:CaltechAUTHORS:20170307-162320251
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20170307-162320251
Official Citation:Colin N. Dewey, Lior Pachter; Evolution at the nucleotide level: the problem of multiple whole-genome alignment. Hum Mol Genet 2006; 15 (suppl_1): R51-R56. doi: 10.1093/hmg/ddl056
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:74872
Collection:CaltechAUTHORS
Deposited By: George Porter
Deposited On:08 Mar 2017 15:33
Last Modified:24 Feb 2020 10:30

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