Inside expert biocuration in UniProtKB/Swiss-Prot

What you will discover: UniProtKB/Swiss-Prot and the different steps of the expert biocuration process, including literature triage, with a demo showing our curation platform and its well-designed tools. The UniProt/Swiss-Prot knowledgebase supports biomedical research by providing a comprehensive, high quality and freely accessible resource of protein sequences and functional information reviewed by expert biocurators. These biocurators integrate, interpret and standardize data from a range of sources including the scientific literature, tools for protein sequence analysis, other knowledge resources and databases to provide a detailed overview of the available protein knowledge.

Access UniProtKB/Swiss-Prot: www.uniprot.org

Target audience: Biologists (wet-lab scientists, clinicians), bioinformaticians embedded in biology labs, data scientists, biocurators

Part 1 Introduction
00:30 What is UniProtKB?

01:22 What is UniProtKB/Swiss-Prot?
01:56 What type of information can be found in a Swiss-Prot record?
03:23 What is expert biocuration?
04:57 NUDT12 as an example (biological context)

Part 2 Demo
06:56 The curation editor
08:36 Import the records corresponding to the mammalian genes NUDT12
09:03 Discover the entry view (mouse NUDT12)
11:00 Protein sequence curation
12:04 Literature triage
14:00 Update of the UniProtKB/Swiss-Prot entry (mouse NUDT12)
22:42 Family-based curation propagation
25:50 Quality assurance


Reference papers
Poux S, Arighi, CN, Magrane M, Bateman A, Wei C-H, Lu Z, Boutet E, Bye-A-Jee H, Famiglietti ML, Roechert B., UniProt Consortium
On expert curation and scalability: UniProtKB/Swiss-Prot as a case study
Bioinformatics 33:3454-3460 (2017): https://academic.oup.com/bioinformati... ; https://doi.org/10.1093/bioinformatic...


Other resources mentioned in this talk:
• PubTator (literature triage) https://www.ncbi.nlm.nih.gov/research...
• Rhea, the biochemical reaction knowledgebase https://www.rhea-db.org/
• ChEBI, Chemical Entities of Biological Interest, a dictionary of ‘small’ chemical compounds https://www.ebi.ac.uk/chebi/
• PDBsum: https://www.ebi.ac.uk/pdbsum/

Any question about this talk? Contact help(at)uniprot.org

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