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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.

SUBMITTER: Margulies EH 

PROVIDER: S-EPMC555705 | biostudies-literature | 2005 Mar

REPOSITORIES: biostudies-literature

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An initial strategy for the systematic identification of functional elements in the human genome by low-redundancy comparative sequencing.

Margulies Elliott H EH   Vinson Jade P JP   Miller Webb W   Jaffe David B DB   Lindblad-Toh Kerstin K   Chang Jean L JL   Green Eric D ED   Lander Eric S ES   Mullikin James C JC   Clamp Michele M  

Proceedings of the National Academy of Sciences of the United States of America 20050318 13

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  ...[more]