BIOINFORMATICS AND GENETIC ANALYSIS TOOLS

References : Lesk, A. M. (2002), “Introduction to Bioinformatics”, Oxford University Press.

Website resources : Protein and Nucleic Acid Structures

Home page of protein databank:

http://www.rscb.org

Homepage of EBI macromolecular structure database:

http://msd.ebi.ac.uk

Homepage of BioMagResBank:

http://www.bmrb.wisc.edu

Searching the protein databank: Homepage of SCOP (Structural classification of proteins):

http://scop.mrc-lmb.cam.ac.uk/scop/

List of browsers:

http://pdb-browsers.ebi.ac.uk/browse_it.shtml

OCA:

http://oca.ebi.ac.uk/oca-bin/ocamain

Database of protein quaternary structure:

http://pqs.ebi.ac.uk

Reports of structure quality:

http://www.cmbi.kun.nl/gv/pdbreport

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References : Misener, S., and Krawetz, S. A. (Ed.) (2000), “Methods in Molecular Biology, Bioinformatics – Methods and Protocols”, Humana Press, Totowa, New Jersey, USA.

Sequence search facilities

Basic function : Sequence prediction for DNA, RNA and amino acid

FASTA : www.ebi.ac.uk/fasta3

BIC_SW : www.ebi.ac.uk/bic_sw (no longer available, 11 Nov 05)

SCANPS : www.ebi.ac.uk/scanps

BLAST : www.ebi.ac.uk/blast2

PPSEARCH : www.ebi.ac.uk/ppsearch

Sequence analysis tools

Basic function : Analysis of genetic sequence applying biological statistics methods

CLUSTAL W : www.ebi.ac.uk/clustalw

PRATT : www.ebi.ac.uk/pratt

GENEMARK : www.ebi.ac.uk/genemark

DALI server : www.ebi.ac.uk/dali

OTHER USEFUL BIOINFORMATICS WEBLINK

Name of software : Webin

Hyperlink : www.ebi.ac.uk/embl/submission/webin.html

Basic function : Publication of new sequence from laboratory experiments

Name of software : Sequin program download

Hyperlink : www.ncbi.nlm.nih.gov/BankIt/index.html

Basic function : Genebank data submission