Vector NTI, a balanced all-in-one sequence analysis suite

被引:335
作者
Li, GQ [1 ]
Moriyama, EN
机构
[1] Univ Nebraska, Sch Biol Sci, Lincoln, NE 68588 USA
[2] Univ Nebraska, Ctr Biotechnol, Lincoln, NE 68588 USA
[3] Univ Nebraska, Sch Biol Sci & Plant Sci Initiat, Lincoln, NE 68588 USA
关键词
sequence analysis; software package; database; virtual cloning; sequence assembly;
D O I
10.1093/bib/5.4.378
中图分类号
Q5 [生物化学];
学科分类号
071010 [生物化学与分子生物学]; 081704 [应用化学];
摘要
Vector NTI is a well-balanced desktop application integrated for molecular sequence analysis and biological data management. It has a centralised database and five application modules: Vector NTI, AlignX, BioAnnotator, ContigExpress and GenomBench. in this review, the features and functions available in this software are examined. These include database management, primer design, virtual cloning, alignments, sequence assembly, 3D molecular viewer and internet tools. Some problems encountered when using this software are also discussed. It is hoped that this review will introduce this software to more molecular biologists so they can make better-informed decisions when choosing computational tools to facilitate their everyday laboratory work. This tool can save time and enhance analysis but it requires some learning on the user's part and there are some issues that need to be addressed by the developer.
引用
收藏
页码:378 / 388
页数:11
相关论文
共 10 条
[1]
Chuba PJ, 2000, J CLIN LIGAND ASSAY, V23, P3
[2]
A computer program for aligning a cDNA sequence with a genomic DNA sequence [J].
Florea, L ;
Hartzell, G ;
Zhang, Z ;
Rubin, GM ;
Miller, W .
GENOME RESEARCH, 1998, 8 (09) :967-974
[3]
Gilbert D, 2000, Methods Mol Biol, V132, P149
[4]
Rozen S, 2000, Methods Mol Biol, V132, P365
[5]
SAISANIT S, 2003, INTRO BIOINFORMATICS, P315
[6]
Staden R, 2000, Methods Mol Biol, V132, P115
[7]
The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools [J].
Thompson, JD ;
Gibson, TJ ;
Plewniak, F ;
Jeanmougin, F ;
Higgins, DG .
NUCLEIC ACIDS RESEARCH, 1997, 25 (24) :4876-4882
[8]
CLUSTAL-W - IMPROVING THE SENSITIVITY OF PROGRESSIVE MULTIPLE SEQUENCE ALIGNMENT THROUGH SEQUENCE WEIGHTING, POSITION-SPECIFIC GAP PENALTIES AND WEIGHT MATRIX CHOICE [J].
THOMPSON, JD ;
HIGGINS, DG ;
GIBSON, TJ .
NUCLEIC ACIDS RESEARCH, 1994, 22 (22) :4673-4680
[9]
Analysis for free: Comparing programs for sequence analysis [J].
Tippmann, HF .
BRIEFINGS IN BIOINFORMATICS, 2004, 5 (01) :82-87
[10]
Planning plasmids [J].
Wessner, DR .
SCIENCE, 1999, 286 (5444) :1495-1496