User: EverInEarnest

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Posts by EverInEarnest

<prev • 13 results • page 1 of 2 • next >
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Comment: C: Formatting problem when converting from UniProt to Entrez Gene ID format
... Many thanks for your detailed response, Kevin; I have also been exploring another route, and will consider your suggestions along with my current efforts; I'll plan to post what works. ...
written 6 days ago by EverInEarnest20
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Comment: C: How to obtain DrugBank Drug Name and SMILES Data from DrugBank ID?
... Thank you, cannin!! I will try your strategy. ...
written 10 days ago by EverInEarnest20
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Formatting problem when converting from UniProt to Entrez Gene ID format
... My code below reads in a file of a subset of the DrugBank data, and then calls UniProt.ws() to map the UniProt IDs of the drug targets to Entrez Gene ID format. This code runs and generates the output file, but the output is incorrect, and I am confused by the following issues: My input file contai ...
R uniprot conversion entrez written 10 days ago by EverInEarnest20 • updated 8 days ago by Kevin Blighe1.2k
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Comment: C: How to obtain DrugBank Drug Name and SMILES Data from DrugBank ID?
... Could you clarify where the SMILES file and other similar DrugBank files are available? I have reviewed the DrugBank site's contents, and see the full database available for download, as well as this page: https://www.drugbank.ca/releases/latest#protein-identifiers that allows download of the target ...
written 11 days ago by EverInEarnest20
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Comment: C: How to obtain DrugBank Drug Name and SMILES Data from DrugBank ID?
... Thanks for your suggestion, Bjorn; I will pursue your suggested method. ...
written 12 days ago by EverInEarnest20
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How to obtain DrugBank Drug Name and SMILES Data from DrugBank ID?
... I have downloaded the complete set of target data from the DrugBank site (available here: https://www.drugbank.ca/releases/latest#protein-identifiers). Each row contains data for one target; the final column of each row lists N DrugBank IDs for the N drugs associated with that target. For each Drug ...
R drugbank written 13 days ago by EverInEarnest20 • updated 10 days ago by cannin230
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Comment: C: Automated method to translate DrugBank Biological Entity (BE) drug target IDs to
... Update: I had also previously inquired with the DrugBank staff to resolve my questions, and I was provided with this informative response: "Each target in the XML file contains 1 or more Polypeptide entries. Each of these entries contains an ID which is the UniProt ID. A target can contain more tha ...
written 15 days ago by EverInEarnest20
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Comment: C: Automated method to translate DrugBank Biological Entity (BE) drug target IDs to
... Thank you, Sparrow_kop! That is extremely useful. I am going to revise my code based on your clarifications and provide updates when available. ...
written 16 days ago by EverInEarnest20
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Comment: C: Automated method to translate DrugBank Biological Entity (BE) drug target IDs to
... Thanks for your response, Sparrow_kop. I will note that I am interested in the *drug target* data from the DrugBank database, and as far as I've seen, the only ID provided for each *target* is in the XML path --> --> , which only provides the BE-form identifier, and no UniProt ID... So, I re ...
written 16 days ago by EverInEarnest20
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Automated method to translate DrugBank Biological Entity (BE) drug target IDs to Entrez ID format?
... I have a set of drug target "Biological Entity" (BE) IDs from DrugBank in the following format: BE0000048 BE0000767 BE0001529 ... I am having difficulty identifying an *automated* way to translate these IDs to Entrez ID format. Each BE identifier is associated with a drug target on the DrugBank si ...
conversion written 17 days ago by EverInEarnest20 • updated 17 days ago by Sparrow_kop90

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