Physical and transcript map of the hereditary prostate cancer region at Xq27

Dietrich A. Stephan; Gareth R. Howell; Tanya M. Teslovich; Alison J. Coffey; Lorie Smith; Joan E. Bailey-Wilson; Lindsay Malechek; Derek Gildea; Jeffrey R. Smith; Elizabeth M. Gillanders; Johanna Schleutker; Ping Hu; Helen E. Steingruber; Pawandeep Dhami; Christiane M. Robbins; Izabela Makalowska; John D. Carpten; Raman Sood; Steve Mumm; Rolland Reinbold; Tom I. Bonner; Agnes Baffoe-Bonnie; Lukas Bubendorf; Mervi Heiskanen; Olli P. Kallioneimi; Andreas D. Baxevanis; Shirin S. Joseph; Ileana Zucchi; Robert D. Burk; William Isaacs; Mark T. Ross; Jeffrey M. Trent

doi:10.1006/geno.2001.6681

Physical and transcript map of the hereditary prostate cancer region at Xq27

Dietrich A. Stephan, Gareth R. Howell, Tanya M. Teslovich, Alison J. Coffey, Lorie Smith, Joan E. Bailey-Wilson, Lindsay Malechek, Derek Gildea, Jeffrey R. Smith, Elizabeth M. Gillanders, Johanna Schleutker, Ping Hu, Helen E. Steingruber, Pawandeep Dhami, Christiane M. Robbins, Izabela Makalowska, John D. Carpten, Raman Sood, Steve Mumm, Rolland ReinboldTom I. Bonner, Agnes Baffoe-Bonnie, Lukas Bubendorf, Mervi Heiskanen, Olli P. Kallioneimi, Andreas D. Baxevanis, Shirin S. Joseph, Ileana Zucchi, Robert D. Burk, William Isaacs, Mark T. Ross, Jeffrey M. Trent

Research output: Contribution to journal › Article › peer-review

19 Scopus citations

Abstract

We have recently mapped a locus for hereditary prostate cancer (termed HPCX) to the long arm of the X chromosome (Xq25-q27) through a genome-wide linkage study. Here we report the construction of an ∼9-Mb sequence-ready bacterial clone contig map of Xq26.3-q27.3. The contig was constructed by screening BAC/PAC libraries with markers spaced at ∼85-kb intervals. We identified overlapping clones by end-sequencing framework clones to generate 407 new sequence-tagged sites, followed by PCR verification of overlaps. Contig assembly was based on clone restriction fingerprinting and the landmark information. We identified a minimal overlap contig for genomic sequencing, which has yielded 7.7 Mb of finished sequence and 1.5 Mb of draft sequence. The transcriptional mapping effort localized 57 known and predicted genes by database searching, STS content mapping, and sequencing, followed by sequence annotation. These transcriptional units represent candidate genes for HPCX and multiple other hereditary diseases at Xq26.3-q27.3.

Original language	English (US)
Pages (from-to)	41-50
Number of pages	10
Journal	Genomics
Volume	79
Issue number	1
DOIs	https://doi.org/10.1006/geno.2001.6681
State	Published - Jan 2002
Externally published	Yes

Keywords

Bacterial artificial chromosomes
Contig mapping
Genome mapping
Genome sequencing
P1 artificial chromosomes
Physical mapping
Prostate cancer
Repetitive elements
Sequence annotation
Xq26.3-q27.3

ASJC Scopus subject areas

Genetics

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10.1006/geno.2001.6681

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Stephan, D. A., Howell, G. R., Teslovich, T. M., Coffey, A. J., Smith, L., Bailey-Wilson, J. E., Malechek, L., Gildea, D., Smith, J. R., Gillanders, E. M., Schleutker, J., Hu, P., Steingruber, H. E., Dhami, P., Robbins, C. M., Makalowska, I., Carpten, J. D., Sood, R., Mumm, S., ... Trent, J. M. (2002). Physical and transcript map of the hereditary prostate cancer region at Xq27. Genomics, 79(1), 41-50. https://doi.org/10.1006/geno.2001.6681

Stephan, DA, Howell, GR, Teslovich, TM, Coffey, AJ, Smith, L, Bailey-Wilson, JE, Malechek, L, Gildea, D, Smith, JR, Gillanders, EM, Schleutker, J, Hu, P, Steingruber, HE, Dhami, P, Robbins, CM, Makalowska, I, Carpten, JD, Sood, R, Mumm, S, Reinbold, R, Bonner, TI, Baffoe-Bonnie, A, Bubendorf, L, Heiskanen, M, Kallioneimi, OP, Baxevanis, AD, Joseph, SS, Zucchi, I, Burk, RD, Isaacs, W, Ross, MT & Trent, JM 2002, 'Physical and transcript map of the hereditary prostate cancer region at Xq27', Genomics, vol. 79, no. 1, pp. 41-50. https://doi.org/10.1006/geno.2001.6681

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title = "Physical and transcript map of the hereditary prostate cancer region at Xq27",

abstract = "We have recently mapped a locus for hereditary prostate cancer (termed HPCX) to the long arm of the X chromosome (Xq25-q27) through a genome-wide linkage study. Here we report the construction of an ∼9-Mb sequence-ready bacterial clone contig map of Xq26.3-q27.3. The contig was constructed by screening BAC/PAC libraries with markers spaced at ∼85-kb intervals. We identified overlapping clones by end-sequencing framework clones to generate 407 new sequence-tagged sites, followed by PCR verification of overlaps. Contig assembly was based on clone restriction fingerprinting and the landmark information. We identified a minimal overlap contig for genomic sequencing, which has yielded 7.7 Mb of finished sequence and 1.5 Mb of draft sequence. The transcriptional mapping effort localized 57 known and predicted genes by database searching, STS content mapping, and sequencing, followed by sequence annotation. These transcriptional units represent candidate genes for HPCX and multiple other hereditary diseases at Xq26.3-q27.3.",

keywords = "Bacterial artificial chromosomes, Contig mapping, Genome mapping, Genome sequencing, P1 artificial chromosomes, Physical mapping, Prostate cancer, Repetitive elements, Sequence annotation, Xq26.3-q27.3",

author = "Stephan, {Dietrich A.} and Howell, {Gareth R.} and Teslovich, {Tanya M.} and Coffey, {Alison J.} and Lorie Smith and Bailey-Wilson, {Joan E.} and Lindsay Malechek and Derek Gildea and Smith, {Jeffrey R.} and Gillanders, {Elizabeth M.} and Johanna Schleutker and Ping Hu and Steingruber, {Helen E.} and Pawandeep Dhami and Robbins, {Christiane M.} and Izabela Makalowska and Carpten, {John D.} and Raman Sood and Steve Mumm and Rolland Reinbold and Bonner, {Tom I.} and Agnes Baffoe-Bonnie and Lukas Bubendorf and Mervi Heiskanen and Kallioneimi, {Olli P.} and Baxevanis, {Andreas D.} and Joseph, {Shirin S.} and Ileana Zucchi and Burk, {Robert D.} and William Isaacs and Ross, {Mark T.} and Trent, {Jeffrey M.}",

year = "2002",

month = jan,

doi = "10.1006/geno.2001.6681",

language = "English (US)",

volume = "79",

pages = "41--50",

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T1 - Physical and transcript map of the hereditary prostate cancer region at Xq27

AU - Stephan, Dietrich A.

AU - Howell, Gareth R.

AU - Teslovich, Tanya M.

AU - Coffey, Alison J.

AU - Smith, Lorie

AU - Bailey-Wilson, Joan E.

AU - Malechek, Lindsay

AU - Gildea, Derek

AU - Smith, Jeffrey R.

AU - Gillanders, Elizabeth M.

AU - Schleutker, Johanna

AU - Hu, Ping

AU - Steingruber, Helen E.

AU - Dhami, Pawandeep

AU - Robbins, Christiane M.

AU - Makalowska, Izabela

AU - Carpten, John D.

AU - Sood, Raman

AU - Mumm, Steve

AU - Reinbold, Rolland

AU - Bonner, Tom I.

AU - Baffoe-Bonnie, Agnes

AU - Bubendorf, Lukas

AU - Heiskanen, Mervi

AU - Kallioneimi, Olli P.

AU - Baxevanis, Andreas D.

AU - Joseph, Shirin S.

AU - Zucchi, Ileana

AU - Burk, Robert D.

AU - Isaacs, William

AU - Ross, Mark T.

AU - Trent, Jeffrey M.

PY - 2002/1

Y1 - 2002/1

N2 - We have recently mapped a locus for hereditary prostate cancer (termed HPCX) to the long arm of the X chromosome (Xq25-q27) through a genome-wide linkage study. Here we report the construction of an ∼9-Mb sequence-ready bacterial clone contig map of Xq26.3-q27.3. The contig was constructed by screening BAC/PAC libraries with markers spaced at ∼85-kb intervals. We identified overlapping clones by end-sequencing framework clones to generate 407 new sequence-tagged sites, followed by PCR verification of overlaps. Contig assembly was based on clone restriction fingerprinting and the landmark information. We identified a minimal overlap contig for genomic sequencing, which has yielded 7.7 Mb of finished sequence and 1.5 Mb of draft sequence. The transcriptional mapping effort localized 57 known and predicted genes by database searching, STS content mapping, and sequencing, followed by sequence annotation. These transcriptional units represent candidate genes for HPCX and multiple other hereditary diseases at Xq26.3-q27.3.

AB - We have recently mapped a locus for hereditary prostate cancer (termed HPCX) to the long arm of the X chromosome (Xq25-q27) through a genome-wide linkage study. Here we report the construction of an ∼9-Mb sequence-ready bacterial clone contig map of Xq26.3-q27.3. The contig was constructed by screening BAC/PAC libraries with markers spaced at ∼85-kb intervals. We identified overlapping clones by end-sequencing framework clones to generate 407 new sequence-tagged sites, followed by PCR verification of overlaps. Contig assembly was based on clone restriction fingerprinting and the landmark information. We identified a minimal overlap contig for genomic sequencing, which has yielded 7.7 Mb of finished sequence and 1.5 Mb of draft sequence. The transcriptional mapping effort localized 57 known and predicted genes by database searching, STS content mapping, and sequencing, followed by sequence annotation. These transcriptional units represent candidate genes for HPCX and multiple other hereditary diseases at Xq26.3-q27.3.

KW - Bacterial artificial chromosomes

KW - Contig mapping

KW - Genome mapping

KW - Genome sequencing

KW - P1 artificial chromosomes

KW - Physical mapping

KW - Prostate cancer

KW - Repetitive elements

KW - Sequence annotation

KW - Xq26.3-q27.3

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U2 - 10.1006/geno.2001.6681

DO - 10.1006/geno.2001.6681

M3 - Article

C2 - 11827456

AN - SCOPUS:0035701501

SN - 0888-7543

VL - 79

SP - 41

EP - 50

JO - Genomics

JF - Genomics

IS - 1

ER -

Physical and transcript map of the hereditary prostate cancer region at Xq27

Abstract

Keywords

ASJC Scopus subject areas

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