Literature DB >> 11237021

Integration of cytogenetic landmarks into the draft sequence of the human genome.

V G Cheung1, N Nowak, W Jang, I R Kirsch, S Zhao, X N Chen, T S Furey, U J Kim, W L Kuo, M Olivier, J Conroy, A Kasprzyk, H Massa, R Yonescu, S Sait, C Thoreen, A Snijders, E Lemyre, J A Bailey, A Bruzel, W D Burrill, S M Clegg, S Collins, P Dhami, C Friedman, C S Han, S Herrick, J Lee, A H Ligon, S Lowry, M Morley, S Narasimhan, K Osoegawa, Z Peng, I Plajzer-Frick, B J Quade, D Scott, K Sirotkin, A A Thorpe, J W Gray, J Hudson, D Pinkel, T Ried, L Rowen, G L Shen-Ong, R L Strausberg, E Birney, D F Callen, J F Cheng, D R Cox, N A Doggett, N P Carter, E E Eichler, D Haussler, J R Korenberg, C C Morton, D Albertson, G Schuler, P J de Jong, B J Trask.   

Abstract

We have placed 7,600 cytogenetically defined landmarks on the draft sequence of the human genome to help with the characterization of genes altered by gross chromosomal aberrations that cause human disease. The landmarks are large-insert clones mapped to chromosome bands by fluorescence in situ hybridization. Each clone contains a sequence tag that is positioned on the genomic sequence. This genome-wide set of sequence-anchored clones allows structural and functional analyses of the genome. This resource represents the first comprehensive integration of cytogenetic, radiation hybrid, linkage and sequence maps of the human genome; provides an independent validation of the sequence map and framework for contig order and orientation; surveys the genome for large-scale duplications, which are likely to require special attention during sequence assembly; and allows a stringent assessment of sequence differences between the dark and light bands of chromosomes. It also provides insight into large-scale chromatin structure and the evolution of chromosomes and gene families and will accelerate our understanding of the molecular bases of human disease and cancer.

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Year:  2001        PMID: 11237021      PMCID: PMC7845515          DOI: 10.1038/35057192

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   49.962


  27 in total

1.  A molecular cytogenetic clone resource for chromosome 22.

Authors:  M A Leversha; I Dunham; N P Carter
Journal:  Chromosome Res       Date:  1999       Impact factor: 5.239

2.  GenMapDB: a database of mapped human BAC clones.

Authors:  M Morley; M Arcaro; J Burdick; R Yonescu; T Reid; I R Kirsch; V G Cheung
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

3.  Characterization of two novel protocadherins (PCDH8 and PCDH9) localized on human chromosome 13 and mouse chromosome 14.

Authors:  S Strehl; K Glatt; Q M Liu; H Glatt; M Lalande
Journal:  Genomics       Date:  1998-10-01       Impact factor: 5.736

4.  A bacterial artificial chromosome library for sequencing the complete human genome.

Authors:  K Osoegawa; A G Mammoser; C Wu; E Frengen; C Zeng; J J Catanese; P J de Jong
Journal:  Genome Res       Date:  2001-03       Impact factor: 9.043

5.  Chromosome heteromorphism quantified by high-resolution bivariate flow karyotyping.

Authors:  B Trask; G van den Engh; B Mayall; J W Gray
Journal:  Am J Hum Genet       Date:  1989-11       Impact factor: 11.025

6.  A comprehensive genetic map of the human genome based on 5,264 microsatellites.

Authors:  C Dib; S Fauré; C Fizames; D Samson; N Drouot; A Vignal; P Millasseau; S Marc; J Hazan; E Seboun; M Lathrop; G Gyapay; J Morissette; J Weissenbach
Journal:  Nature       Date:  1996-03-14       Impact factor: 49.962

7.  Human genome anatomy: BACs integrating the genetic and cytogenetic maps for bridging genome and biomedicine.

Authors:  J R Korenberg; X N Chen; Z Sun; Z Y Shi; S Ma; E Vataru; D Yimlamai; J S Weissenbach; H Shizuya; M I Simon; S S Gerety; H Nguyen; I S Zemsteva; L Hui; J Silva; X Wu; B W Birren; T J Hudson
Journal:  Genome Res       Date:  1999-10       Impact factor: 9.043

8.  Comparative genomic hybridization for molecular cytogenetic analysis of solid tumors.

Authors:  A Kallioniemi; O P Kallioniemi; D Sudar; D Rutovitz; J W Gray; F Waldman; D Pinkel
Journal:  Science       Date:  1992-10-30       Impact factor: 47.728

9.  Human cDNA mapping using a high-resolution R-banding technique and fluorescence in situ hybridization.

Authors:  J R Korenberg; X N Chen
Journal:  Cytogenet Cell Genet       Date:  1995

10.  Cytogenetic characterization of putative human myeloblastic leukemia cell lines (ML-1, -2, and -3): origin of the cells.

Authors:  K Ohyashiki; J H Ohyashiki; A A Sandberg
Journal:  Cancer Res       Date:  1986-07       Impact factor: 12.701

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  89 in total

1.  In silico chromosome staining: reconstruction of Giemsa bands from the whole human genome sequence.

Authors:  Yoshihito Niimura; Takashi Gojobori
Journal:  Proc Natl Acad Sci U S A       Date:  2002-01-15       Impact factor: 11.205

2.  The evolutionary origin of human subtelomeric homologies--or where the ends begin.

Authors:  Christa Lese Martin; Andrew Wong; Alyssa Gross; June Chung; Judy A Fantes; David H Ledbetter
Journal:  Am J Hum Genet       Date:  2002-03-01       Impact factor: 11.025

3.  Assembly of the working draft of the human genome with GigAssembler.

Authors:  W J Kent; D Haussler
Journal:  Genome Res       Date:  2001-09       Impact factor: 9.043

4.  Segmental duplications: organization and impact within the current human genome project assembly.

Authors:  J A Bailey; A M Yavor; H F Massa; B J Trask; E E Eichler
Journal:  Genome Res       Date:  2001-06       Impact factor: 9.043

5.  The human genome browser at UCSC.

Authors:  W James Kent; Charles W Sugnet; Terrence S Furey; Krishna M Roskin; Tom H Pringle; Alan M Zahler; David Haussler
Journal:  Genome Res       Date:  2002-06       Impact factor: 9.043

6.  Generalized gap model for bacterial artificial chromosome clone fingerprint mapping and shotgun sequencing.

Authors:  Michael C Wendl; Robert H Waterston
Journal:  Genome Res       Date:  2002-12       Impact factor: 9.043

7.  Complex evolution of 7E olfactory receptor genes in segmental duplications.

Authors:  Tera Newman; Barbara J Trask
Journal:  Genome Res       Date:  2003-05       Impact factor: 9.043

8.  1-Mb resolution array-based comparative genomic hybridization using a BAC clone set optimized for cancer gene analysis.

Authors:  Joel Greshock; Tara L Naylor; Adam Margolin; Sharon Diskin; Stephen H Cleaver; P Andrew Futreal; Pieter J deJong; Shaying Zhao; Michael Liebman; Barbara L Weber
Journal:  Genome Res       Date:  2003-12-12       Impact factor: 9.043

9.  The UCSC Genome Browser Database.

Authors:  D Karolchik; R Baertsch; M Diekhans; T S Furey; A Hinrichs; Y T Lu; K M Roskin; M Schwartz; C W Sugnet; D J Thomas; R J Weber; D Haussler; W J Kent
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

10.  Genome architecture catalyzes nonrecurrent chromosomal rearrangements.

Authors:  Paweł Stankiewicz; Christine J Shaw; Jason D Dapper; Keiko Wakui; Lisa G Shaffer; Marjorie Withers; Leah Elizondo; Sung-Sup Park; James R Lupski
Journal:  Am J Hum Genet       Date:  2003-03-20       Impact factor: 11.025

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