User: Suk211
Suk211 • 1.0k
- Reputation:
- 1,040
- Status:
- New User
- Location:
- state college
- Website:
- http://twitter.com/suk211
- Last seen:
- 9 years, 8 months ago
- Joined:
- 11 years, 5 months ago
- Email:
- s**************@gmail.com
interested systems biology,protein folding ,genomics
Posts by Suk211
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11
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... How can we characterize a residue in a protein as a buried, exposed or intermediate based on it's accessible surface area(ASA) ?
I came across a paper in which they are taking the ratio between the residue's ASA at a particular position to the maximum ASA observed for that residue in the whole pro ...
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Comment:
C: State Of Computational Genomics
... Thanks for fixing the typo , was working on something else while posting this hence overlooked it. ...
written 11.0 years ago by
Suk211 • 1.0k
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... The other day on facebook, I posted this link and some of my friend started discussing about this article.
It's "Watson Meets Moore" as Ion Torrent founder Jonatha Rothberg introduces post-light semiconductor sequencing.
few comments from my friends
Krishna : "I dont understand this rat race fo ...
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Comment:
C: Pfam Based Functional Annotaion
... Hey Nicojo ,
Thanks for your reply. I am trying to find out what percentage of peptides in my library share a same biological process or have same molecular function .These peptides have length between 17-22 residues and Pfam was giving the annotation for a test run which I carried out a few weeks ...
written 11.0 years ago by
Suk211 • 1.0k
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... I think in one of the earlier thread, Istvan has already asked about the reliability of GO annotation. I was wondering, if any of you have any experience with the functional annotation based upon the Pfam database. I am looking forward to functionally annotate a large set of peptide library and the ...
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... I think the emphasis should be more on the way we optimize our program rather than language which we use. I personally use languages based on the kind of problem I am answering.
This was an interesting paper which I came across some time back although some of the information mentioned in here might ...
written 11.0 years ago by
Suk211 • 1.0k
• updated
8.5 years ago by
Istvan Albert ♦♦ 86k
13
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... A friend of mine is a very active blogger in bioinformatics. This is his blog site
Fisheye Perspective
He has also complied a list of bioinformatics and chemo informatics blogs which are very popular. some of you might be interested in it.
30+ Blogs about Bioinformatics and Chemoinformatics Progr ...
written 11.0 years ago by
Suk211 • 1.0k
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... This might be useful .
A Quick Guide to Organizing Computational Biology Projects
...
written 11.0 years ago by
Suk211 • 1.0k
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... If you have the PDB file then you can use the standard tool called DSSP , it is supposed to be the gold standard for obtaining secondary structure. In case you just have sequence then I personally prefer PSIPRED , it takes evolutionary information into account to predict the secondary structure . Ac ...
written 11.0 years ago by
Suk211 • 1.0k
2
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... ACGGGCCCGACGATGCGTCGTA
ACGTACGTCGAACCGTCGTCGT
ACGTGCGTCGAAACGTCAGTCG
ACGGGTTCGATCGTCGTCGTCG
may be in Python I will break down the first sequence of required motif length into a sliding window and will search for those list of motifs in the rest of sequences using regular expression ...
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