title: An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing.
abstract: With the recent completion of a high-quality sequence of the human genome, the challenge is now to understand the functional elements that it encodes. Comparative genomic analysis offers a powerful approach for finding such elements by identifying sequences that have been highly conserved during evolution. Here, we propose an initial strategy for detecting such regions by generating low-redundancy sequence from a collection of 16 eutherian mammals, beyond the 7 for which genome sequence data are already available. We show that such sequence can be accurately aligned to the human genome and used to identify most of the highly conserved regions. Although not a long-term substitute for generating high-quality genomic sequences from many mammalian species, this strategy represents a practical initial approach for rapidly annotating the most evolutionarily conserved sequences in the human genome, providing a key resource for the systematic study of human genome function.
authors.affiliation: Genome Technology Branch, National Human Genome Research Institute, National Institutes of Health, Bethesda, MD 20892, USA.
authors.forename: Elliott H
authors.initials: EH
authors.lastname: Margulies
authors.forename: Jade P
authors.initials: JP
authors.lastname: Vinson
authors.forename: Webb
authors.initials: W
authors.lastname: Miller
authors.forename: David B
authors.initials: DB
authors.lastname: Jaffe
authors.forename: Kerstin
authors.initials: K
authors.lastname: Lindblad-Toh
authors.forename: Jean L
authors.initials: JL
authors.lastname: Chang
authors.forename: Eric D
authors.initials: ED
authors.lastname: Green
authors.forename: Eric S
authors.initials: ES
authors.lastname: Lander
authors.forename: James C
authors.initials: JC
authors.lastname: Mullikin
authors.forename: Michele
authors.initials: M
authors.lastname: Clamp
mesh_terms: D000818:Animals; D001483:Base Sequence; D019295:Computational Biology; D017124:Conserved Sequence / Q000235:genetics*; D015894:Genome, Human; D023281:Genomics / Q000379:methods*; D006801:Humans; D008322:Mammals / Q000235:genetics*; D010802:Phylogeny; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA / Q000379:methods*