Leveraging RCSB PDB APIs for Bioinformatics Analyses and Machine Learning
Registration: go.rutgers.edu/41ds618a
This virtual course consists of 2 parts:
Part 1: Introducing RCSB APIs
October 12th 16:00 - 18:30 UTC
(October 12th 12:00 - 2:00 PM EDT / 9:00 - 11:00 AM PDT)
The lectures in this session will introduce you to the two main RCSB PDB APIs: Data API and Search API.
After completion of this session, you will
* Understand the data structure and its relation to the PDBx/mmCIF dictionary and external data
* Become familiarized with the two available interfaces in the Data API: GraphQL and REST
* Write search queries with one or multiple search conditions to find PDB identifiers
* Be familiar with search services beyond text: sequence, seqmotif, structure, chemical, strucmotif
* Become acquainted with the Python client for Search API
Part 2: Hands-on exercise
October 19th 16:00 - 18:30 UTC
(October 19th 12:00 - 2:30 PM EDT / 9:00 - 11:30 AM PDT)
Or
October 27th 00:00 - 02:30 UTC
(October 26th 8:00 - 10:30 PM EDT / 5:00-7:30 PM PDT)
In this guided session, you will work with an example of a typical workflow that integrate Data and Search APIs and then apply the knowledge to your own specific problem.
Who Should Attend
* Bioinformatics or structural biology researchers
* Researchers that need to cross-reference PDB and data from other resources
* Anyone interested in large scale analyses of structural data (experimental or computational)
Co-Organizers
