News:Cellosaurus release 51

Question

[Amos Bairoch]

Cellosaurus release 51 is available on https://www.cellosaurus.org/

1) Statistics

• 61202 cell lines (119920 human, 28720 mouse, 2999 rat)
• 882 species represented
• 121697 synonyms
• 465392 cross-references to 112 resources (cell line catalogs,
  databases, ontologies, etc.)
• 163097 references to 28637 distinct publications (papers, patents, theses, etc.)
• 14825 web links
• 9041 human, mouse and dog cell lines with STR profiles (from 911 distinct sources)
• 2518 NCIt and 1372 ORDO (Orphanet) disease terms cited
• 843 UBERON, 270 CL and 11 PO terms cited

Since release 50 of September 2024: 1746 entries were created and 62219 entries were updated

2) Small changes in the format of some cross-reference identifiers

These changes impact cross-references to BTO, ChEBI, HGNC and VGNC.

• For BTO and ChEBI the column ":" was replaced by an underscore "_".
• For HGNC and VGNC the gene "number" was replaced by respectively
  "HGNC:number" and "VGNC:number".

Examples:

DR   BTO; BTO:0002947
->
DR   BTO; BTO_0002947

CC   Monoclonal antibody target: ChEBI; CHEBI:17292; Lactotetraosylceramide.
->
CC   Monoclonal antibody target: ChEBI; CHEBI_17292; Lactotetraosylceramide.

CC   Genetic integration: Method=Transduction; Gene=HGNC; HGNC:11730; TERT.
->
CC   Genetic integration: Method=Transduction; Gene=HGNC; 11730; TERT.

CC   Sequence variation: Mutation; VGNC; 39270; CIC; Simple; p.Pro1551fs (c.4650_4653delCCCT); Zygosity=Heterozygous (PubMed=31175136).
->
CC   Sequence variation: Mutation; VGNC; VGNC:39270; CIC; Simple; p.Pro1551fs (c.4650_4653delCCCT); Zygosity=Heterozygous (PubMed=31175136).

3) Changes in the file cellosaurus_xrefs.txt

A new optional tag "Db_IRI" was added to allow the semantic representation of some cross-references and/or ontologies.

Example:
Abbrev: UBERON
Name  : Uber-anatomy ontology
Server: https://uberon.github.io/
Db_URL: https://www.ebi.ac.uk/ols4/ontologies/uberon/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252F%s
Db_IRI: http://purl.obolibrary.org/obo/%s
Term. : Yes
Cat   : Anatomy/cell type resources
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