A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcripts maps

John Douglas Mcpherson, Barbara Apostol, Caryn B. Wagner-McPherson, Simin Hakim, Richard G. Del Mastro, Naeema Aziz, Elizabeth Baer, Genalyn Gonzales, Mary Carol Krane, Rachelle Markovich, Peter Masny, Miguel Ortega, John Vu, Marco Vujicic, Deanna M. Church, Allan Segal, Deborah L. Grady, Robert K. Moyzis, M. Anne Spence, Michael LovettJohn J. Wasmuth

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

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.

Original languageEnglish (US)
Pages (from-to)897-909
Number of pages13
JournalGenome Research
Volume7
Issue number9
StatePublished - Sep 1997

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Radiation Hybrid Mapping
Chromosomes, Human, Pair 5
Human Chromosomes
Cytogenetics
Sequence Tagged Sites
Human Genome Project
Fluorescence In Situ Hybridization
Organism Cloning
Clone Cells
Genome

ASJC Scopus subject areas

  • Genetics

Cite this

Mcpherson, J. D., Apostol, B., Wagner-McPherson, C. B., Hakim, S., Del Mastro, R. G., Aziz, N., ... Wasmuth, J. J. (1997). A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcripts maps. Genome Research, 7(9), 897-909.

A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcripts maps. / Mcpherson, John Douglas; Apostol, Barbara; Wagner-McPherson, Caryn B.; Hakim, Simin; Del Mastro, Richard G.; Aziz, Naeema; Baer, Elizabeth; Gonzales, Genalyn; Krane, Mary Carol; Markovich, Rachelle; Masny, Peter; Ortega, Miguel; Vu, John; Vujicic, Marco; Church, Deanna M.; Segal, Allan; Grady, Deborah L.; Moyzis, Robert K.; Spence, M. Anne; Lovett, Michael; Wasmuth, John J.

In: Genome Research, Vol. 7, No. 9, 09.1997, p. 897-909.

Research output: Contribution to journalArticle

Mcpherson, JD, Apostol, B, Wagner-McPherson, CB, Hakim, S, Del Mastro, RG, Aziz, N, Baer, E, Gonzales, G, Krane, MC, Markovich, R, Masny, P, Ortega, M, Vu, J, Vujicic, M, Church, DM, Segal, A, Grady, DL, Moyzis, RK, Spence, MA, Lovett, M & Wasmuth, JJ 1997, 'A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcripts maps', Genome Research, vol. 7, no. 9, pp. 897-909.
Mcpherson JD, Apostol B, Wagner-McPherson CB, Hakim S, Del Mastro RG, Aziz N et al. A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcripts maps. Genome Research. 1997 Sep;7(9):897-909.
Mcpherson, John Douglas ; Apostol, Barbara ; Wagner-McPherson, Caryn B. ; Hakim, Simin ; Del Mastro, Richard G. ; Aziz, Naeema ; Baer, Elizabeth ; Gonzales, Genalyn ; Krane, Mary Carol ; Markovich, Rachelle ; Masny, Peter ; Ortega, Miguel ; Vu, John ; Vujicic, Marco ; Church, Deanna M. ; Segal, Allan ; Grady, Deborah L. ; Moyzis, Robert K. ; Spence, M. Anne ; Lovett, Michael ; Wasmuth, John J. / A radiation hybrid map of human chromosome 5 with integration of cytogenetic, genetic, and transcripts maps. In: Genome Research. 1997 ; Vol. 7, No. 9. pp. 897-909.
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AU - Del Mastro, Richard G.

AU - Aziz, Naeema

AU - Baer, Elizabeth

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AU - Krane, Mary Carol

AU - Markovich, Rachelle

AU - Masny, Peter

AU - Ortega, Miguel

AU - Vu, John

AU - Vujicic, Marco

AU - Church, Deanna M.

AU - Segal, Allan

AU - Grady, Deborah L.

AU - Moyzis, Robert K.

AU - Spence, M. Anne

AU - Lovett, Michael

AU - Wasmuth, John J.

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N2 - 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.

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