The DOI matches its Crossref record; 7 of the 7 references it cites were found in a registry or an index.
Identification and Characterization of Multi-Species Conserved Sequences
Open accessAbstract
Comparative sequence analysis has become an essential component of studies aiming to elucidate genome function. The increasing availability of genomic sequences from multiple vertebrates is creating the need for computational methods that can detect highly conserved regions in a robust fashion. Towards that end, we are developing approaches for identifying sequences that are conserved across multiple species; we call these "Multi-species Conserved Sequences" (or MCSs). Here we report two strategies for MCS identification, demonstrating their ability to detect virtually all known actively conserved sequences (specifically, coding sequences) but very little neutrally evolving sequence (specifically, ancestral repeats). Importantly, we find that a substantial fraction of the bases within MCSs (approximately 70%) resides within non-coding regions; thus, the majority of sequences conserved across multiple vertebrate species has no known function. Initial characterization of these MCSs has revealed sequences that correspond to clusters of transcription factor-binding sites, non-coding RNA transcripts, and other candidate functional elements. Finally, the ability to detect MCSs represents a valuable metric for assessing the relative contribution of a species' sequence to identifying genomic regions of interest, and our results indicate that the currently available genome sequences are insufficient for the comprehensive identification of MCSs in the human genome.
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Cites
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Phylogenetic Shadowing of Primate Sequences to Find Functional Regions of the Human Genome
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A haplotype map of the human genome
The International HapMap Consortium (2005) · Nature · doi:10.1038/nature04226 · Cited by 5,858
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Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes
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Detection of nonneutral substitution rates on mammalian phylogenies
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Identifying a High Fraction of the Human Genome to be under Selective Constraint Using GERP++
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Metadata
- Authors
- Margulies, E. H.
- Venue
- Genome Research
- Publisher
- Cold Spring Harbor Laboratory
- Published
- 2003-12-01
- Volume
- 13
- Issue
- 12
- Pages
- 2507-2518
- ISSN
- 1088-9051 (ISSN-L)
- OpenAlex
- W2098001104
- Cited by
- 335
- References
- 7
- Type
- posted content
- Language
- en
- Open access
- bronze
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