Automated construction of high-density comparative maps between rat, human, and mouse

Citation
Ae. Kwitek et al., Automated construction of high-density comparative maps between rat, human, and mouse, GENOME RES, 11(11), 2001, pp. 1935-1943
Citations number
40
Language
INGLESE
art.tipo
Article
Categorie Soggetti
Molecular Biology & Genetics
Journal title
GENOME RESEARCH
ISSN journal
1088-9051 → ACNP
Volume
11
Issue
11
Year of publication
2001
Pages
1935 - 1943
Database
ISI
SICI code
1088-9051(200111)11:11<1935:ACOHCM>2.0.ZU;2-4
Abstract
Animal models have been used primarily as surrogates for humans, having sim ilar disease-based phenotypes. Genomic organization also tends to be conser ved between species, leading to the generation of comparative genome maps. The emergence of radiation hybrid (RH) maps, coupled with the large numbers of available Expressed Sequence Tags (ESTs), has revolutionized the way co mparative maps can be built. We used publicly available rat, mouse, and hum an data to identify genes and ESTs with interspecies sequence identity (hom ology), identified their UniGene relationships, and incorporated their RH m ap positions to build integrated comparative maps with > 2100 homologous Un iGenes mapped in more than one species (similar to6% of all mammalian genes ). The generation of these maps is iterative and labor intensive; therefore , we developed a series of computer tools (not described here) based on our algorithm that identifies anchors between species and produces printable a nd on-line clickable comparative maps that link to a wide variety of useful tools and databases. The maps were constructed using sequence-based compar isons, thus creating "hooks" for further sequence-based annotation of human , mouse, and rat sequences. Currently, this map enables investigators to li nk the physiology of the rat with the genetics of the mouse and the clinica l significance of the human.