分子生物学常用软件在线使用

1 、在线服务：

 

Primer Design
Primer3 (Whitehead Inst, MIT)
CODEHOP (Degenerate primers)
ClustalW Multiple sequence alignment

 

2 、软件使用：

 

BIMAS - BioInformatics & Molecular Analysis Section, NIH
bioinformatics.org - The Open Lab
bio.perl.org - Perl bioinformatics library
Debian Packages in Biology
ExPASy Tools Proteomics tools
GeneMark - Gene Prediction program of Mark Borodovsky
Linux binaries for Biology
NCBI - National Center for Biotechnology Information
openscience.org - Open Source software for the sciences
SAL - Scientific Applications on Linux
TIGR Software - packages from The Institute for Genomic Research
Virtual Genome Center at the University of Minnesota Medical School
www.phrap.org - U. of Washington (phred, phrap, consed, swat, RepeatMasker)

 

3 、重要程序：

 

ACEDB
BCM Trace Viewer (Java)
bioTk
Blast - NCBI 's sequence similarity search tool (tutorial course )
ClustalW and ClustalX - Multiple Sequence alignment program
EMBOSS - European Molecular Biology Open Software Suite FASTA - Sequence comparison program (UVA)
Glimmer - TIGR 's gene-finding program
MAGPIE - Automated Genome Project Investigation Environment
MolScript - 3D Protein display package
NCBI Tools - vibrant, asn, etc
PHYLIP - programs for inferring phylogenies
PolyPhred - SNP analysis with U. Washington software

 

4 、数据格式：

 

mmCIF - mmCIF page at Rutgers