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Published online before print February 8, 2001, 10.1101/gr.GR-1516R
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Vol. 11, Issue 3, 497-502, March 2001

RESOURCES
Generation of a High-Density Rat EST Map

Todd E. Scheetz,1,2,3 Michael R. Raymond,1,2 Darryl Y. Nishimura,1,2 Ann McClain,1,2 Chad Roberts,4 Clay Birkett,4 Jack Gardiner,5 Jie Zhang,1,2 Nichole Butters,1,2 Christine Sun,1,2 Anne Kwitek-Black,6 Howard Jacob,6 Thomas L. Casavant,4 M. Bento Soares,2,3 and Val C. Sheffield1,2,7

1 Howard Hughes Medical Institute, 2 Departments of Pediatrics, 3 Physiology and Biophysics, and 4 Electrical and Computer Engineering, University of Iowa, Iowa City, Iowa 52242, USA; 5 Department of Agronomy, University of Missouri, Columbia, Missouri 65203, USA; 6 Medical College of Wisconsin, Department of Physiology, Laboratory for Genetic Research, Milwaukee, Wisconsin 53226, USA

We have developed a high-density EST map of the rat, consisting of >11,000 ESTs. These ESTs were placed on a radiation hybrid framework map of genetic markers spanning all 20 rat autosomes, plus the X chromosome. The framework maps have a total size of ~12,400 cR, giving an average correspondence of 240 kb/cR. The frameworks are all LOD 3 chromosomal maps consisting of 775 radiation-hybrid-mapped genetic markers and ESTs. To date, we have generated radiation-hybrid-mapping data for >14,000 novel ESTs identified by our Rat Gene Discovery and Mapping Project (http://ratEST.uiowa.edu), from which we have placed >11,000 on our framework maps. To minimize mapping errors, ESTs were mapped in duplicate and consensus RH vectors produced for use in the placement procedure. This EST map was then used to construct high-density comparative maps between rat and human and rat and mouse. These maps will be a useful resource for positional cloning of genes for rat models of human diseases and in the creation and verification of a tiling set of map order for the upcoming rat-genome sequencing.

7 Corresponding author.

11:497-502 ©2001 by Cold Spring Harbor Laboratory Press  ISSN 1088-9051/01 $5.00
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