Optical mapping and its potential for large-scale sequencing projects

被引:68
作者
Aston, C [1 ]
Mishra, B
Schwartz, DC
机构
[1] Wyeth Ayerst Res, CNS Disorders, Princeton, NJ 08543 USA
[2] NYU, Courant Inst Math Sci, Dept Comp Sci, New York, NY 10003 USA
[3] NYU, WM Keck Lab Biomol Imaging, Dept Chem, New York, NY 10003 USA
关键词
D O I
10.1016/S0167-7799(99)01326-8
中图分类号
Q81 [生物工程学(生物技术)]; Q93 [微生物学];
学科分类号
071005 ; 0836 ; 090102 ; 100705 ;
摘要
Physical mapping has been rediscovered as an important component of large-scale sequencing projects. Restriction maps provide landmark sequences at defined intervals, and high-resolution restriction maps can be assembled from ensembles of single molecules by optical means. Such optical maps can be constructed from both large-insert clones and genomic DNA, and are used as a scaffold for accurately aligning sequence contigs generated by shotgun sequencing.
引用
收藏
页码:297 / 302
页数:6
相关论文
共 26 条
[1]   Genomics via optical mapping .2. Ordered restriction maps [J].
Anantharaman, TS ;
Mishra, B ;
Schwartz, DC .
JOURNAL OF COMPUTATIONAL BIOLOGY, 1997, 4 (02) :91-118
[2]  
ANANTHARAMAN TS, 1998, 760 NEW YORK U COUR
[3]  
[Anonymous], 1993, PULSED FIELD GEL ELE, DOI DOI 10.1016/B978-0-12-101290-8.50002-X
[4]  
ASTON C, 1999, METHOD ENZYMOL, V303, pC4
[5]  
BAUTSCH W, 1997, GENOME MAPPING PRACT, P281
[6]   The complete genome sequence of Escherichia coli K-12 [J].
Blattner, FR ;
Plunkett, G ;
Bloch, CA ;
Perna, NT ;
Burland, V ;
Riley, M ;
ColladoVides, J ;
Glasner, JD ;
Rode, CK ;
Mayhew, GF ;
Gregor, J ;
Davis, NW ;
Kirkpatrick, HA ;
Goeden, MA ;
Rose, DJ ;
Mau, B ;
Shao, Y .
SCIENCE, 1997, 277 (5331) :1453-+
[7]   ORDERED RESTRICTION-ENDONUCLEASE MAPS OF YEAST ARTIFICIAL CHROMOSOMES CREATED BY OPTICAL MAPPING ON SURFACES [J].
CAI, WW ;
ABURATANI, H ;
STANTON, VP ;
HOUSMAN, DE ;
WANG, YK ;
SCHWARTZ, DC .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1995, 92 (11) :5164-5168
[8]   High-resolution restriction maps of bacterial artificial chromosomes constructed by optical mapping [J].
Cai, WW ;
Jing, JP ;
Irvin, B ;
Ohler, L ;
Rose, E ;
Shizuya, H ;
Kim, UJ ;
Simon, M ;
Anantharaman, T ;
Mishra, B ;
Schwartz, DC .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (07) :3390-3395
[9]   Accessing genetic information with high-density DNA arrays [J].
Chee, M ;
Yang, R ;
Hubbell, E ;
Berno, A ;
Huang, XC ;
Stern, D ;
Winkler, J ;
Lockhart, DJ ;
Morris, MS ;
Fodor, SPA .
SCIENCE, 1996, 274 (5287) :610-614
[10]   Parallel analysis of genetic selections using whole genome oligonucleotide arrays [J].
Cho, RJ ;
Fromont-Racine, M ;
Wodicka, L ;
Feierbach, B ;
Stearns, T ;
Legrain, P ;
Lockhart, DJ ;
Davis, RW .
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 1998, 95 (07) :3752-3757