Programmatic access to UniProt using Python

UniProt is a comprehensive, expert-led, publicly available database of protein sequence, function and variation information.
This webinar will give an overview of programmatic access to the UniProt database using Python and cover key aspects of protein entry searches, data filtering, batch downloads and give examples of further processing of downloaded target data.
Following a brief introduction to UniProt services, where to find relevant documentation and help features, the webinar will focus on worked examples. These will include how to programmatically search and retrieve protein entries and sequences, within the results we will then show how to align orthologous sequences and filter for features of interest.
The webinar will also cover programmatic examples of the UniProt ID mapping service, batch downloads, filtering, and processing data.
Who is this course for?
This webinar is aimed at life science computational and wet-lab scientists that would find programmatic access to the UniProt database useful. A moderate proficiency in Python is required, however the webinar will cover principles which can be applied to other programming languages. An undergraduate level knowledge of protein biology will be useful.
Outcomes
By the end of the webinar you will be able to:
- Identify the different routes to access UniProt data and know how to pick the most appropriate for your workflow
- List the UniProt services such as UniProtKB, Proteomes, UniParc and UniRef
- Find documentation and useful help to guide your programmatic access
- Retrieve full UniProtKB entries or specific fields using Python
- Filter entries by annotation types and other target characteristics
This webinar was recorded on 16 November 2023.
For future webinars and materials from this webinar please go to the EMBL-EBI Training website: www.ebi.ac.uk/...