Bioinformatics Wide term that comprises computational techniques to deal with biological data.
http://www.ncbi.nlm.nih.gov/About/primer/bioinformatics.html
Some areas of research • • • • • •
Sequence analysis Microarray data analysis Systems biology Protein structure prediction Automatic text analysis ...
Some web pages • • • • • • • •
National Center for Biotechnology Information (NCBI) Animal genome organization: www.animalgenome.org European Molecular Biology Lab (EMBL) Sanger Center: www.sanger.ac.uk Kyoto Encyclopedia of Genes and Genomes (KEGG) Gene Ontology (GO): www.geneontology.org Hapmap project: www.hapmap.org 1000genomes: www.1000genomes.org
Some journals • • • •
Bioinformatics BMC bioinformatics PLOS computational biology ...
http://www.brc.dcs.gla.ac.uk/~actan/bioinformatics/journals.html
National Center for Biotechnology Information (NCBI) www.ncbi.nlm.nih.gov
• Literature search (medline, OMIM) • Sequence repository (genbank) • Polymorphism data base (dbSNP) • Expression data (GEO)
US livestock genome projects http://www.animalgenome.org/ • Horse • Sheep • Cattle • Pig • Dog • Aquaculture
Sequence analysis •
Bioedit: to edit and visualize sequences http://www.ctu.edu.vn/~dvxe/Bioinformatic/Software/BioEdit.htm
•
DnaSP: to analyze DNA polymorphism www.ub.es/dnasp
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Arlequin: to analyze population polymorphism cmpg.unibe.ch/software/arlequin3/
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MEGA4: to draw phylogenies www.megasoftware.net/mega.html
QTL software
• QTL express qtl.cap.ed.ac.uk
Microarray software • Cluster analysis: http://rana.lbl.gov/EisenSoftware.htm • Visualization http://jtreeview.sourceforge.net • Gene networks cytoscape: www.cytoscape.org