access BioLip data / peptide information

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rochoa
Posts: 4
Joined: Wed Nov 24, 2021 11:04 am

access BioLip data / peptide information

Post 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
xiaogenz
Posts: 129
Joined: Sun Apr 25, 2021 12:02 am

Re: access BioLip data / peptide information

Post by xiaogenz »

You can download the library through a script named "download_all_sets.pl" on the webpage (https://zhanggroup.org/BioLiP/weekly.html).
rochoa
Posts: 4
Joined: Wed Nov 24, 2021 11:04 am

Re: access BioLip data / peptide information

Post 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
xiaogenz
Posts: 129
Joined: Sun Apr 25, 2021 12:02 am

Re: access BioLip data / peptide information

Post by xiaogenz »

We have had a problem updating the SQL library recently. We will provide the data after solving the problem.
rochoa
Posts: 4
Joined: Wed Nov 24, 2021 11:04 am

Re: access BioLip data / peptide information

Post by rochoa »

Thank you and I will really appreciate any help regarding that data

Rodrigo
xiaogenz
Posts: 129
Joined: Sun Apr 25, 2021 12:02 am

Re: access BioLip data / peptide information

Post 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.
rochoa
Posts: 4
Joined: Wed Nov 24, 2021 11:04 am

Re: access BioLip data / peptide information

Post by rochoa »

That is perfect. Thank you very much

Rodrigo
Ronald Whitt
Posts: 1
Joined: Thu Dec 02, 2021 10:05 am

Re: access BioLip data / peptide information

Post by Ronald Whitt »

Thank you and I will really footiee.com any help regarding that data..
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