ArticleNucleic acids research2015
BRENDA in 2015: exciting developments in its 25th year of existence.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 88 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
88 citing papers in PubMed.
- Article
- Intestinal microbiome changes in response to amino acid and micronutrient supplementation: secondary analysis of the AMAZE trial.Gut microbiome (Cambridge, England) · 2025Article
- Metatranscriptomic analysis indicates prebiotic effect of isomalto/malto-polysaccharides on human colonic microbiota in-vitro.Scientific reports · 2024Article
- AI-Driven Enhancements in Drug Screening and Optimization.Methods in molecular biology (Clifton, N.J.) · 2024Article
- BioVDB: biological vector database for high-throughput gene expression meta-analysis.Frontiers in artificial intelligence · 2024Article
- Enzyme Databases in the Era of Omics and Artificial Intelligence.International journal of molecular sciences · 2023Review
- Prediction of metabolite-protein interactions based on integration of machine learning and constraint-based modeling.Bioinformatics advances · 2023Article
- Architect: A tool for aiding the reconstruction of high-quality metabolic models through improved enzyme annotation.PLoS computational biology · 2022Article
- Darling: A Web Application for Detecting Disease-Related Biomedical Entity Associations with Literature Mining.Biomolecules · 2022Article
- A protocol for dynamic model calibration.Briefings in bioinformatics · 2022Article
- ReMap 2022: a database of Human, Mouse, Drosophila and Arabidopsis regulatory regions from an integrative analysis of DNA-binding sequencing experiments.Nucleic acids research · 2022Article
- Accelerating antibiotic discovery through artificial intelligence.Communications biology · 2021Review
- Article
- MetamORF: a repository of unique short open reading frames identified by both experimental and computational approaches for gene and metagene analyses.Database : the journal of biological databases and curation · 2021Article
- From Data Mining ofMicroorganisms · 2021Article
- BRENDA, the ELIXIR core data resource in 2021: new developments and updates.Nucleic acids research · 2021Article
- WormPaths:bioRxiv : the preprint server for biology · 2020Article
- An analytical theory of balanced cellular growth.Nature communications · 2020Article
- ReMap 2020: a database of regulatory regions from an integrative analysis of Human and Arabidopsis DNA-binding sequencing experiments.Nucleic acids research · 2020Article
- Article
28 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The BRENDA enzyme information system (http://www.brenda-enzymes.org/) has developed into an elaborate system of enzyme and enzyme-ligand information obtained from different sources, combined with flexible query systems and evaluation tools. The information is obtained by manual extraction from primary literature, text and data mining, data integration, and prediction algorithms. Approximately 300 million data include enzyme function and molecular data from more than 30,000 organisms. The manually derived core contains 3 million data from 77,000 enzymes annotated from 135,000 literature references. Each entry is connected to the literature reference and the source organism. They are complemented by information on occurrence, enzyme/disease relationships from text mining, sequences and 3D structures from other databases, and predicted enzyme location and genome annotation. Functional and structural data of more than 190,000 enzyme ligands are stored in BRENDA. New features improving the functionality and analysis tools were implemented. The human anatomy atlas CAVEman is linked to the BRENDA Tissue Ontology terms providing a connection between anatomical and functional enzyme data. Word Maps for enzymes obtained from PubMed abstracts highlight application and scientific relevance of enzymes. The EnzymeDetector genome annotation tool and the reaction database BKM-react including reactions from BRENDA, KEGG and MetaCyc were improved. The website was redesigned providing new query options.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.