Human and mouse gene structure: comparative analysis and application to exon prediction

Authors:
Serafim Batzoglou;Lior Pachter;Jill Mesirov;Bonnie Berger;Eric S. Lander
Affiliations:
Laboratory for Computer Science, MIT, Cambridge, MA and Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA;Department of Mathematics, UC Berkeley, Berkeley, CA;Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA;Department of Mathematics, MIT Cambridge, MA and ESL and Laboratory for Computer Science, MIT, Cambridge, MA;Department of Biology, MIT, Cambridge, MA and ESL and Whitehead Institute for Biomedical Research, Nine Cambridge Center, Cambridge, MA
Venue:
RECOMB '00 Proceedings of the fourth annual international conference on Computational molecular biology
Year:
2000

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Abstract

We describe a novel analytical approach to gene recognition based on cross-species comparison We first undertook a comparison of orthologous genomic look 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 called GLASS and ROSETTA, respectively ROSETTA performed well at exact identification of coding exons in 117 orthologous pairs tested.