User: thind.amarinder

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Italy
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Posts by thind.amarinder

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Comment: C: How to compare coexpression networks from two conditions with different sample s
... Thank you, it seems the way "psych" calculated p.adjust is similar. ...
written 7 days ago by thind.amarinder10
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Comment: C: How to compare coexpression networks from two conditions with different sample s
... How do you calculate significance ( p-adjusted values) for correlation? ...
written 7 days ago by thind.amarinder10
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Comment: C: How to compare coexpression networks from two conditions with different sample s
... Yes, how can I go about this? ...
written 8 days ago by thind.amarinder10
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Comment: C: How to compare coexpression networks from two conditions with different sample s
... Ciao I am not exactly comparing networks. but want to compare interactions of particular set of genes (of my interest) with others (if any), above certain threshold of correlation . whether interacting genes are mostly the same or different in both condition. since sample size is different between c ...
written 8 days ago by thind.amarinder10
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How to compare coexpression networks from two conditions with different sample sizes
... I have gene expression data from two conditions having different sample sizes i.e 8 and 32. I want to build a correlation among all genes (for both conditions) for comparison. So, I used "psych" package from "R" which use t-test based statistics for p-adjusted values calculations. Is this approach ...
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Comment: C: Is there a way to adjust correlation based on sample size
... @Michael Dondrup what if I have two correlational networks (from two experimental conditions) one of size 8 samples and one is of size 32 samples. How I can make these two compare with each other or how to readjust correlation or calculate p-adjust with respect to the different number of samples. I ...
written 14 days ago by thind.amarinder10
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Answer: A: the criteria that need to be used as template sequence for homology modeling
... For homology modeling Identity, coverage and E-value all are significant. First choose the template with highest coverage and then look for identity if identity is more than 40 % , Then proceed further (But  remember, structure ll be predicted  only for coverage sequence).    Why to choose highest ...
written 3.3 years ago by thind.amarinder10
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Not able to retrieve PDB id from standalone blast against PDB
... I setup blast against nr database/pdb (downloaded  from ncbi) and I want to extract PDB id from my blast results. I used various tags from blast output format but in some entries I am not Getting PDB id. sample of results: gi|349951|pdb|3YPI|A gi|349951|pdb|3YPI|A;gi|349952|pdb|3YPI|B ...
blast written 4.1 years ago by thind.amarinder10 • updated 4.0 years ago by Biostar ♦♦ 20

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Popular Question 3.1 years ago, created a question with more than 1,000 views. For Not able to retrieve PDB id from standalone blast against PDB

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