Genome Research
Vol. 7, No. 9, pp. 897-909, September 1997

A Radiation Hybrid Map of Human Chromosome 5 with Integration of Cytogenetic, Genetic, and Transcript Maps

John D. McPherson,^1,2,6 Barbara Apostol,¹ Caryn B. Wagner-McPherson,² Simin Hakim,¹ Richard G. Del Mastro,³ Naeema Aziz,¹ Elizabeth Baer,¹ Genalyn Gonzales,¹ Mary Carol Krane,¹ Rachelle Markovich,¹ Peter Masny,¹ Miguel Ortega,¹ John Vu,¹ Marco Vujicic,¹ Deanna M. Church,¹ Allan Segal,¹ Deborah L. Grady,⁴ Robert K. Moyzis,⁴ M. Anne Spence,¹ Michael Lovett,⁵ and John J. Wasmuth¹

¹ Department of Biological Chemistry, University of California at Irvine, Irvine, California 92717; ² Department of Genetics/Genome Sequencing Center, Washington University School of Medicine, St. Louis, Missouri 63108; ³ Genome Therapeutics Corporation, Waltham, Massachusetts 02154; ⁴ Center for Human Genome Studies, Los Alamos National Laboratory, Los Alamos, New Mexico 87545; ⁵ Departments of Otorhinolaryngology, Molecular Biology, and Oncology, McDermott Center, University of Texas Southwestern Medical Center, Dallas, Texas 75235

One of the major goals of the human genome project is to establish a physical map of each human chromosome with a density of sequence-tagged site (STS) markers exceeding one every 100 kb. We report here the generation of a human chromosome 5-specific radiation hybrid (RH) map that includes 556 markers. Of these markers, 132 loci are ordered with a maximum likelihood ratio of >1000:1 compared with the next most likely order. An additional 113 loci were ordered relative to these backbone markers with a maximum likelihood ratio of >10:1 but <1000:1. Together, these 245 loci form an ordered framework map for the chromosome. Using this framework, >300 more markers were localized based on two-point analysis with the ordered set. On average, there are 50 markers in common with the RH map presented here and other chromosome 5 maps included in the current whole genome cytogenetic, genetic, and physical maps. The accuracy of all the maps is evident in that there are no more than two discrepancies between any one of them and these data. All of the maps encompassing chromosome 5 complement each other providing excellent STS coverage with >2200 loci combined. The chromosome 5-specific RH map contains 20% of these independent loci. In addition, our RH map contains STSs derived from clones suitable for fluorescent in situ hybridization, allowing alignment to the cytogenetic map. Together, these maps will assist in the assembly of sequence-ready contigs and will aid in the identification of disease loci on chromosome 5 by positional cloning and positional candidate approaches.

[The STS sequences described in this paper have been submitted to dbSTS under accession nos. G15666-G15715 and G16049-G16063. A complete map of human chromosome 5 is available as an on-line supplement at http://www.cshl.org/gr.]

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