User: Girolamo

gravatar for Girolamo
Girolamo140
Reputation:
140
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Location:
Italia
Last seen:
2 years, 1 month ago
Joined:
7 years, 10 months ago
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Hello i'm studing bioinformatic I work on parallel computing applied to bioinformatics, in particular I work on graph matching

Posts by Girolamo

<prev • 23 results • page 1 of 3 • next >
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Answer: A: Huge matrix memory issue
... I assume you have a sparse matrix you could represent the matrix as a combination of three arrays http://btechsmartclass.com/DS/U1_T14.html another possibility is to use shelve https://docs.python.org/2/library/shelve.html ...
written 2.2 years ago by Girolamo140
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Answer: A: The most popular Alternative to David?
... you can also have a look to panther http://pantherdb.org/ ...
written 2.4 years ago by Girolamo140
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Answer: A: Motif discovery using MEME
... Is the difference in terms of e-values huge? As far as I remember, the background is calculated by shuffling the sequences in the input, hence you can have a slight difference Are the versions(online and offline) the same? ...
written 2.5 years ago by Girolamo140
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Comment: C: PIN or PPI Network Construction
... If I remember correctly, string (http://string-db.org/) already adopts this approach. ...
written 2.5 years ago by Girolamo140
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Answer: A: Protein protein interaction network using STRING
... 1 and 2) these two questions are correlated. This affects the reliability of your network. I would remove text mining and the other options, and leave only those interaction experimentally validated with a threshold > 0.700. 3) do you want to do it routinely for all the 110 proteins? this could ...
written 2.8 years ago by Girolamo140
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Comment: C: Retriving compounds name from KEGG IDs
... Sorry, but what you are asking for are 10 lines of code in python(maximum) and even less in R ...
written 3.0 years ago by Girolamo140
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Answer: A: Retriving compounds name from KEGG IDs
... like this? http://rest.kegg.jp/list/compound ...
written 3.0 years ago by Girolamo140
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Answer: A: Are there known nonribosomal RNA-protein complexes binding site on mRNA of arabi
... Could this DB useful? http://database.oxfordjournals.org/content/2016/baw035.abstract?sid=4f29cbc1-a695-407c-8b56-60e833889c1e and the web application: https://attract.cnic.es/index ...
written 3.0 years ago by Girolamo140
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Comment: C: Structure of a Protein-Protein Interaction Network
... I think that the first decimal column refers to the first protein, and so on. For example: the expression for 4EBP1 is 157.88, the expression of AKT1 is 78.54 What is strange to me is that the 14-3-3, the CTNB1 and PIK3R1 have the same expression. ...
written 3.0 years ago by Girolamo140
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Answer: A: Structure of a Protein-Protein Interaction Network
... In my opinion, the decimal numbers in the table represent the expression of the proteins, according to what is written in the caption of the supplementary material: *"Additional file 2: Expression and interaction data related to normal and cancer conditions of five tissues"* Even if the numbers are ...
written 3.0 years ago by Girolamo140

Latest awards to Girolamo

Scholar 3.0 years ago, created an answer that has been accepted. For A: Mint Dataset for Human PPI
Scholar 3.1 years ago, created an answer that has been accepted. For A: Mint Dataset for Human PPI
Scholar 3.8 years ago, created an answer that has been accepted. For A: Mint Dataset for Human PPI
Autobiographer 7.8 years ago, has more than 80 characters in the information field of the user's profile.

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