User: Bioinformatician_in_trouble

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Posts by Bioinformatician_in_trouble

<prev • 16 results • page 1 of 2 • next >
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Comment: C: Python Code to standardize gene name in CSV file
... I did not know about symbol checker.Thank you for the info. ...
written 9 weeks ago by Bioinformatician_in_trouble10
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Comment: C: How to Reduce Number of PUBMED hits
... Thank You! This is nice :) will explore more. ...
written 3 months ago by Bioinformatician_in_trouble10
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How to Reduce Number of PUBMED hits
... Hi everyone, Mine is a very very basic question. How can we make the Pubmed search results be less in number but accurate at the same time? I have read about the usage of quotes and AND/OR but that doesn't really seem to help.( May be i am doing something wrong?) for example: "Kras" and "cancer ". T ...
pubmed bioinformatics written 3 months ago by Bioinformatician_in_trouble10
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Comment: C: Python Code to standardize gene name in CSV file
... I can use regex for symbols. But in general i would want to replace all gene names as is given in HGNC. PD-L1 was just an example. ...
written 4 months ago by Bioinformatician_in_trouble10
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Comment: C: Python Code to standardize gene name in CSV file
... Yes, HGNC symbols. For example: My CSV file may have "TS" as an input but HGNC symbol for that is TYMS. So, I want TYMS as output. But I do not want to replace each gene symbol manually. Species is Human and the genes names are coming from Pubmed abstracts( so different authors refer genes different ...
written 4 months ago by Bioinformatician_in_trouble10
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Python Code to standardize gene name in CSV file
... Hi all, I have a CSV file that includes gene names in different formats for example: PD-L1 might be written as PDL1 or PD-L1 or PDL-1 but i want to standardize all of these to HGNC symbols using python code. Can anyone tell me how should I go about it. I know how to do it for just one gene name ( i ...
python coding hgnc gene symbol written 4 months ago by Bioinformatician_in_trouble10 • updated 9 weeks ago by Biostar ♦♦ 20
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Comment: C: Coloring nodes according to attribute value in Cytoscape 3
... Sorry for late reply.Thank you so much. ...
written 4 months ago by Bioinformatician_in_trouble10
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Comment: C: Coloring nodes according to attribute value in Cytoscape 3
... hi i have the same issue. How did you solve the problem? ...
written 5 months ago by Bioinformatician_in_trouble10
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Comment: C: Cytoscape: how to show different interactions using different lines or different
... Hi asaf, Thank you for your reply.I am not sure how to add attributes( saw the attribute file format from cytoscape manual, but could not follow) This is how i have placed the columns in the excel sheet that I used to create network Gene 1 Gene 2 Interaction ATM TP53 Activates CHEK1 CDC25 Inhibits ...
written 5 months ago by Bioinformatician_in_trouble10
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Cytoscape: how to show different interactions using different lines or different colors
... Hi All, I am trying to create a network in cytoscape 3.4.0 where my source and target are genes and my interaction would be "activates" or "Inhibits". My question is, I want to show the interactions either by using different line color or different line type. How can I do this. ? Looking forward for ...

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