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access BioLip data / peptide information

Posted: Wed Nov 24, 2021 11:05 am
by rochoa
Hi all, I want to ask about some information contained in the BioLip database. Specifically, I am talking about the peptide ligands dataset. In the home page there is a link to inspect approximately 27K records of peptide ligands, including their amino acid content and binding affinity when available. Is it possible to download these records in CSV format or is this something the group can share with users? (I remember it was possible in the past)

The information is required for a benchmarking, so I will appreciate if its is possible to access this information up to date.

Thanks in advance
Rodrigo

Re: access BioLip data / peptide information

Posted: Thu Nov 25, 2021 1:57 am
by xiaogenz
You can download the library through a script named "download_all_sets.pl" on the webpage (https://zhanggroup.org/BioLiP/weekly.html).

Re: access BioLip data / peptide information

Posted: Thu Nov 25, 2021 7:40 am
by rochoa
Thanks, I saw that option but in these files the information is incomplete. I am talking about downloading a complete annotated table after doing this query: https://zhanggroup.org/BioLiP/qsearch_pdb.cgi?lig3=III

Re: access BioLip data / peptide information

Posted: Tue Nov 30, 2021 5:59 am
by xiaogenz
We have had a problem updating the SQL library recently. We will provide the data after solving the problem.

Re: access BioLip data / peptide information

Posted: Tue Nov 30, 2021 7:52 am
by rochoa
Thank you and I will really appreciate any help regarding that data

Rodrigo

Re: access BioLip data / peptide information

Posted: Wed Dec 01, 2021 5:21 am
by xiaogenz
You can download at https://zhanggroup.org/BioLiP/download/ ... 16_154.csv. Please download it as soon as possible as it will be automatically removed soon.

Re: access BioLip data / peptide information

Posted: Wed Dec 01, 2021 7:37 am
by rochoa
That is perfect. Thank you very much

Rodrigo

Re: access BioLip data / peptide information

Posted: Thu Dec 02, 2021 11:22 am
by Ronald Whitt
Thank you and I will really footiee.com any help regarding that data..