Investigations

What is an Investigation?

3 Investigations visible to you, out of a total of 6

MESI-STRAT data for submission into public repositories

FAIRDOM, MESI-STRAT

Here we collect curated data to be integrated into public repositories

Submitter: Olga Krebs

Studies: Metabolomics data a for Metabolight DB, Proteomics data for PRIDE, UniProt and others, Sequence data for European Nucleotide Archive (ENA )

Assays: Instructions for ENA submission

Snapshots: No snapshots

Created: 27th Sep 2023 at 13:11, Last updated: 19th Dec 2023 at 10:42

Chemical Identification and Indexing in PubMed articles

BioCreative VII

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Current chemical concept recognition tools have demonstrated significantly lower performance for in full-text articles than in abstracts. Improving automated full-text chemical concept recognition can substantially accelerate manual indexing and curation and advance downstream NLP tasks such as relevant article retrieval. Participating in BioCreative Track NLM-Chem we focus identifying chemicals in full-text articles (i.e. named entity recognition and normalization).

Submitter: Olga Krebs

Studies: Chemical named entity recognition and annotation

Assays: Usage of fine-tuned BioBERT for identification of chemical entities, Using semantic search in MesH and PubChem databases for entity linking

Snapshots: No snapshots

Created: 12th Oct 2021 at 16:54, Last updated: 27th Sep 2023 at 14:21

Data Management and Data Standardization

SBEpo - Systems Biology of Erythropoietin