A 12-Mb complete coverage BAC contig map in human chromosome 16p13.1-p11.2

Yicheng Cao, Hyung Lyun Kang, Xuequn Xu, Mei Wang, So Hee Dho, Jun Ryul Huh, Byeong Jae Lee, Francis Kalush, Diana Bocskai, Yan Ding, Judith G. Tesmer, Jonghyeob Lee, Eunpyo Moon, Vesna Jurecic, Antonio Baldini, Heinz Ulrich Weier, Norman A. Doggett, Melvin I. Simon, Mark D. Adams, Ung Jin Kim

Research output: Contribution to journalArticle

17 Citations (Scopus)

Abstract

We have constructed a complete coverage BAC contig map that spans a 12-Mb genomic segment in the human chromosome 16p13.1-p11.2 region. The map consists of 68 previously mapped STSs and 289 BAC clones, 51 of which - corresponding to a total of 7.721 Mb of genomic DNA - have been sequenced, and provides a high resolution physical map of the region. Contigs were initially built based mainly on the analysis of STS contents and restriction fingerprint patterns of the clones. To close the gaps, probes derived from BAC clone ends were used to screen deeper BAC libraries. Clone end sequence data obtained from chromosome 16-specific BACs, as well as from public databases, were used for the identification of BACs that overlap with fully sequenced BACs by means of sequence match. This approach allowed precise alignment of clone overlaps in addition to restriction fingerprint comparison. A freehand contig drawing software tool was developed and used to manage the map data graphically and generate a real scale physical map. The map we present here is ~ 3.5 x deep and provides a minimal tiling path that covers the region in an array of contigous, overlapping BACs.

Original languageEnglish
Pages (from-to)763-774
Number of pages12
JournalGenome Research
Volume9
Issue number8
Publication statusPublished - 1999

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Human Chromosomes
Clone Cells
Dermatoglyphics
Chromosomes, Human, Pair 16
Libraries
Software
Databases
DNA

ASJC Scopus subject areas

  • Genetics

Cite this

Cao, Y., Kang, H. L., Xu, X., Wang, M., Dho, S. H., Huh, J. R., ... Kim, U. J. (1999). A 12-Mb complete coverage BAC contig map in human chromosome 16p13.1-p11.2. Genome Research, 9(8), 763-774.

A 12-Mb complete coverage BAC contig map in human chromosome 16p13.1-p11.2. / Cao, Yicheng; Kang, Hyung Lyun; Xu, Xuequn; Wang, Mei; Dho, So Hee; Huh, Jun Ryul; Lee, Byeong Jae; Kalush, Francis; Bocskai, Diana; Ding, Yan; Tesmer, Judith G.; Lee, Jonghyeob; Moon, Eunpyo; Jurecic, Vesna; Baldini, Antonio; Weier, Heinz Ulrich; Doggett, Norman A.; Simon, Melvin I.; Adams, Mark D.; Kim, Ung Jin.

In: Genome Research, Vol. 9, No. 8, 1999, p. 763-774.

Research output: Contribution to journalArticle

Cao, Y, Kang, HL, Xu, X, Wang, M, Dho, SH, Huh, JR, Lee, BJ, Kalush, F, Bocskai, D, Ding, Y, Tesmer, JG, Lee, J, Moon, E, Jurecic, V, Baldini, A, Weier, HU, Doggett, NA, Simon, MI, Adams, MD & Kim, UJ 1999, 'A 12-Mb complete coverage BAC contig map in human chromosome 16p13.1-p11.2', Genome Research, vol. 9, no. 8, pp. 763-774.
Cao Y, Kang HL, Xu X, Wang M, Dho SH, Huh JR et al. A 12-Mb complete coverage BAC contig map in human chromosome 16p13.1-p11.2. Genome Research. 1999;9(8):763-774.
Cao, Yicheng ; Kang, Hyung Lyun ; Xu, Xuequn ; Wang, Mei ; Dho, So Hee ; Huh, Jun Ryul ; Lee, Byeong Jae ; Kalush, Francis ; Bocskai, Diana ; Ding, Yan ; Tesmer, Judith G. ; Lee, Jonghyeob ; Moon, Eunpyo ; Jurecic, Vesna ; Baldini, Antonio ; Weier, Heinz Ulrich ; Doggett, Norman A. ; Simon, Melvin I. ; Adams, Mark D. ; Kim, Ung Jin. / A 12-Mb complete coverage BAC contig map in human chromosome 16p13.1-p11.2. In: Genome Research. 1999 ; Vol. 9, No. 8. pp. 763-774.
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AU - Wang, Mei

AU - Dho, So Hee

AU - Huh, Jun Ryul

AU - Lee, Byeong Jae

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AU - Lee, Jonghyeob

AU - Moon, Eunpyo

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AU - Baldini, Antonio

AU - Weier, Heinz Ulrich

AU - Doggett, Norman A.

AU - Simon, Melvin I.

AU - Adams, Mark D.

AU - Kim, Ung Jin

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N2 - We have constructed a complete coverage BAC contig map that spans a 12-Mb genomic segment in the human chromosome 16p13.1-p11.2 region. The map consists of 68 previously mapped STSs and 289 BAC clones, 51 of which - corresponding to a total of 7.721 Mb of genomic DNA - have been sequenced, and provides a high resolution physical map of the region. Contigs were initially built based mainly on the analysis of STS contents and restriction fingerprint patterns of the clones. To close the gaps, probes derived from BAC clone ends were used to screen deeper BAC libraries. Clone end sequence data obtained from chromosome 16-specific BACs, as well as from public databases, were used for the identification of BACs that overlap with fully sequenced BACs by means of sequence match. This approach allowed precise alignment of clone overlaps in addition to restriction fingerprint comparison. A freehand contig drawing software tool was developed and used to manage the map data graphically and generate a real scale physical map. The map we present here is ~ 3.5 x deep and provides a minimal tiling path that covers the region in an array of contigous, overlapping BACs.

AB - We have constructed a complete coverage BAC contig map that spans a 12-Mb genomic segment in the human chromosome 16p13.1-p11.2 region. The map consists of 68 previously mapped STSs and 289 BAC clones, 51 of which - corresponding to a total of 7.721 Mb of genomic DNA - have been sequenced, and provides a high resolution physical map of the region. Contigs were initially built based mainly on the analysis of STS contents and restriction fingerprint patterns of the clones. To close the gaps, probes derived from BAC clone ends were used to screen deeper BAC libraries. Clone end sequence data obtained from chromosome 16-specific BACs, as well as from public databases, were used for the identification of BACs that overlap with fully sequenced BACs by means of sequence match. This approach allowed precise alignment of clone overlaps in addition to restriction fingerprint comparison. A freehand contig drawing software tool was developed and used to manage the map data graphically and generate a real scale physical map. The map we present here is ~ 3.5 x deep and provides a minimal tiling path that covers the region in an array of contigous, overlapping BACs.

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