Literature DB >> 1783390

Genomic mapping by anchoring random clones: a mathematical analysis.

R Arratia1, E S Lander, S Tavaré, M S Waterman.   

Abstract

A complete physical map of the DNA of an organism, consisting of overlapping clones spanning the genome, is an extremely useful tool for genomic analysis. Various methods for the construction of such physical maps are available. One approach is to assemble the physical map by "fingerprinting" a large number of random clones and inferring overlap between clones with sufficiently similar fingerprints. E.S. Lander and M.S. Waterman (1988, Genomics 2:231-239) have recently provided a mathematical analysis of such physical mapping schemes, useful for planning such a project. Another approach is to assemble the physical map by "anchoring" a large number of random clones--that is, by taking random short regions called anchors and identifying the clones containing each anchor. Here, we provide a mathematical analysis of such a physical mapping scheme.

Mesh:

Year:  1991        PMID: 1783390     DOI: 10.1016/0888-7543(91)90004-x

Source DB:  PubMed          Journal:  Genomics        ISSN: 0888-7543            Impact factor:   5.736


  19 in total

1.  Theories and applications for sequencing randomly selected clones.

Authors:  M C Wendl; M A Marra; L W Hillier; A T Chinwalla; R K Wilson; R H Waterston
Journal:  Genome Res       Date:  2001-02       Impact factor: 9.043

2.  Parallel computation of a maximum-likelihood estimator of a physical map.

Authors:  S M Bhandarkar; S A Machaka; S S Shete; R N Kota
Journal:  Genetics       Date:  2001-03       Impact factor: 4.562

3.  Parking strategies for genome sequencing.

Authors:  J C Roach; V Thorsson; A F Siegel
Journal:  Genome Res       Date:  2000-07       Impact factor: 9.043

4.  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

5.  Anchoring of a large set of markers onto a BAC library for the development of a draft physical map of the grapevine genome.

Authors:  Didier Lamoureux; Anne Bernole; Isabelle Le Clainche; Sarah Tual; Vincent Thareau; Sophie Paillard; Fabrice Legeai; Carole Dossat; Patrick Wincker; Marilyn Oswald; Didier Merdinoglu; Céline Vignault; Serge Delrot; Michel Caboche; Boulos Chalhoub; Anne-Françoise Adam-Blondon
Journal:  Theor Appl Genet       Date:  2006-05-18       Impact factor: 5.699

6.  On the consistency of a physical mapping method to reconstruct a chromosome in vitro.

Authors:  M Xiong; H J Chen; R A Prade; Y Wang; J Griffith; W E Timberlake; J Arnold
Journal:  Genetics       Date:  1996-01       Impact factor: 4.562

Review 7.  The genome of Arabidopsis thaliana.

Authors:  H M Goodman; J R Ecker; C Dean
Journal:  Proc Natl Acad Sci U S A       Date:  1995-11-21       Impact factor: 11.205

Review 8.  Mapping the mouse genome: current status and future prospects.

Authors:  W F Dietrich; N G Copeland; D J Gilbert; J C Miller; N A Jenkins; E S Lander
Journal:  Proc Natl Acad Sci U S A       Date:  1995-11-21       Impact factor: 11.205

9.  Algorithms and software tools for ordering clone libraries: application to the mapping of the genome of Schizosaccharomyces pombe.

Authors:  R Mott; A Grigoriev; E Maier; J Hoheisel; H Lehrach
Journal:  Nucleic Acids Res       Date:  1993-04-25       Impact factor: 16.971

10.  Statistical aspects of discerning indel-type structural variation via DNA sequence alignment.

Authors:  Michael C Wendl; Richard K Wilson
Journal:  BMC Genomics       Date:  2009-08-05       Impact factor: 3.969

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