Human and Mouse Gene Structure: Comparative Analysis and Application to Exon Prediction
Abstract
We describe a novel analytical approach to gene recognition based on cross-species comparison. We first undertook a comparison of orthologous genomic loci from human and mouse, studying the extent of similarity in the number, size and sequence of exons and introns. We then developed an approach for recognizing genes within such orthologous regions by first aligning the regions using an iterative global alignment system and then identifying genes based on conservation of exonic features at aligned positions in both species. The alignment and gene recognition are performed by new programs calledGLASS and ROSETTA, respectively.ROSETTA performed well at exact identification of coding exons in 117 orthologous pairs tested.
Additional Information
© 2000 Cold Spring Harbor Laboratory Press. The Authors acknowledge that six months after the full-issue publication date, the Article will be distributed under a Creative Commons CC-BY-NC License (Attribution-NonCommercial 4.0 International License, http://creativecommons.org/licenses/by-nc/4.0/). Received February 15, 2000. Accepted May 2, 2000. S.B., B.B., and this work were supported in part by Merck. L.P. was supported in part by a graduate fellowship from the Program in Mathematics and Molecular Biology and by a National Institutes of Health training grant. E.S.L. and J.M. were supported in part by a grant from the National Human Genome Research Institute. We thank Bruce Birren, Ken Dewar, and Daniel Kleitman for helpful discussions. We thank Eric Banks for support with software development. S.B. and L.P. contributed equally to this work. The publication costs of this article were defrayed in part by payment of page charges. This article must therefore be hereby marked "advertisement" in accordance with 18 USC section 1734 solely to indicate this fact.Attached Files
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Additional details
- PMCID
- PMC310911
- Eprint ID
- 74978
- Resolver ID
- CaltechAUTHORS:20170309-110441139
- NIH Predoctoral Fellowship
- National Human Genome Research Institute
- Created
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2017-03-10Created from EPrint's datestamp field
- Updated
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2021-11-15Created from EPrint's last_modified field