Bioinformatics


 * Notes from the 7/19/07 Bioinformatics Lecture**

Go to [|www.ncbi.nlm.nih.gov] At the top of the main page, pull down the search menu to select what you are searching for. Type in the trait you are looking for ("color in Bos" or "holstein coat color") - you may have to tweak search terms. Click on the hit that contains information relating to the gene you are looking for. (You may have to research in PubMed to see what gene you are actually looking for.


 * Each sequence has its own accession number - may be referenced in a published paper


 * FASTA is just the sequence - no breaks, etc.

After you find a sequence, you could have primers made, you could use the sequence to create a case study/simulation.

Click on the BLAST link in the top center of the main NCBI page. Take any sequence of nucleotides/amino acids/proteins/etc, copy it, paste into the BLAST text box. Select other to compare to all sequences entered into the database. You will have a graphical representation of hits, based on how closely the sequence matches. Under the graphical representation, there is a list of the matches, and descriptions. Further down, it shows the actual nucleotide matches (or mismatches).
 * BLAST

Can build a genetic tree based on this information.