User: Bioinformatician_in_trouble

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Posts by Bioinformatician_in_trouble

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Comment: C: Can I map gene symbols to PDB ids?
... Is there a good tutorial for this? ...
written 5 months ago by Bioinformatician_in_trouble10
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Different pubmed search using R
... Hi all, I was trying to multiple different search using R.I was trying the RISmed package where i used c to concantenate my search terms as shown below: search_topic<-c("KRAS AND MEK inhibitor","BRAF AND BRAF inhibitors") but when i try to run it,I get the following error: Error in file(con, "r") ...
R pubmed written 5 months ago by Bioinformatician_in_trouble10
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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 11 months 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 12 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 12 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 13 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 13 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 13 months ago by Bioinformatician_in_trouble10 • updated 11 months 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 13 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 14 months ago by Bioinformatician_in_trouble10

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