BIF604 - Special Topics in Bioinformatics

@zareen said in BIF604 Assignment 1 Solution and Discussion: What you have learnt in basics of Bioinformatics. Also enlist and discuss the tools software and methods you have studied till now. Sample Assignment 1-Go to the NCBI database [image: 8iyTuWN.png] Open NCBI [image: vSScPmh.png] Select Protein database from here [image: cPlfT4h.png] Enter the name of your candidate gene (a gene, which you want to work upon) [image: SyhaQV5.png] Enter the name of your candidate gene (a gene, which you want to work upon) Enter it-> it will give you a list of all possible sequence datasets available related to the your gene (protein) [image: xWbG74G.png] Open it and then you can see the full sequence with all desired information in the first line. [image: VB67Hg5.png] Click on the BLAST icon present at the top of right menu ORyou can copy the sequence and open BLAST -> Protein to Protein (blastp) and past the sequence in input section. [image: 9Enn30a.png] [image: 96hqkg3.png] Then select Protein date bank database as reference [image: VJ1b4DA.png] Then Click on the BLAST Icon [image: MltWFgm.png] It might take some seconds [image: KJ4Vy0v.png] It will show a page like this [image: mi4DwBt.png] At the lower part of the pageyou will see a list of reference sequence of protein structure which our sequence has been mapped upon. Where at the right side different columns are giving the information about the identity, Query coverage and Accession ID etc [image: 6ITvTl5.png] At the lower part of the pageyou will see a list of reference sequence of protein structure which our sequence has been mapped upon. Where at the right side different columns are giving the information about the identity, Query coverage and Accession ID etc From here click the Accession IDs of top three references one by one and It will lead you to the following page for each time for each reference. [image: lA8tqRB.png] From here get the Complete information like accession number, Locus, Coding region etc. of the three references one by one and make a table. Then go back to the first page where you found your first sequence from. [image: RLdqOB1.png] From the above page see the right top encircled area it will give you the information about the orthologs of the Human Gene. Past the sequences of the same genes extracted from those three orthologs. At the end enlist all the databases tools software which you will have used.