ArticleNucleic acids research2009
Bionemo: molecular information on biodegradation metabolism.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers, 1 of them a synthesis that pooled it.
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
12 citing papers in PubMed, 1 synthesis or guideline pooled it, 57 citations in OpenAlex.
- Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities.Frontiers in bioengineering and biotechnology · 2021Pooled it
- Insights into Microbial Enzymatic Biodegradation of Plastics and Microplastics: Technological Updates.ACS environmental Au · 2025Review
- ChatGPT for shaping the future of dentistry: the potential of multi-modal large language model.International journal of oral science · 2023Review
- Sensbio: an online server for biosensor design.BMC bioinformatics · 2023Article
- Transcription factor-based biosensors for screening and dynamic regulation.Frontiers in bioengineering and biotechnology · 2023Review
- mibPOPdb: An online database for microbial biodegradation of persistent organic pollutants.iMeta · 2022Article
- A Förster Resonance Energy Transfer-Based Ratiometric Sensor with the Allosteric Transcription Factor TetR.Small (Weinheim an der Bergstrasse, Germany) · 2020Article
- A dataset of small molecules triggering transcriptional and translational cellular responses.Data in brief · 2018Article
- Tailor-made transcriptional biosensors for optimizing microbial cell factories.Journal of industrial microbiology & biotechnology · 2017Review
- SensiPath: computer-aided design of sensing-enabling metabolic pathways.Nucleic acids research · 2016Article
- Integration of bioinformatics to biodegradation.Biological procedures online · 2014Review
- AromaDeg, a novel database for phylogenomics of aerobic bacterial degradation of aromatics.Database : the journal of biological databases and curation · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Bionemo (http://bionemo.bioinfo.cnio.es) stores manually curated information about proteins and genes directly implicated in the Biodegradation metabolism. When possible, the database includes information on sequence, domains and structures for proteins; and sequence, regulatory elements and transcription units for genes. Thus, Bionemo is a unique resource that complements other biodegradation databases such as the University of Minessota Biocatalysis/Biodegradation Database, or Metarouter, which focus more on the biochemical aspects of biodegradation than in the nature of the biomolecules carrying out the reactions. Bionemo has been built by manually associating sequences database entries to biodegradation reactions, using the information extracted from published articles. Information on transcription units and their regulation was also extracted from the literature for biodegradation genes, and linked to the underlying biochemical network. In its current version, Bionemo contains sequence information for 324 reactions and transcription regulation information for more than 100 promoters and 100 transcription factors. The information in the Bionemo database is available via a web server and the full database is also downloadable as a PostgresSQL dump. To facilitate the programmatic use of the information contained in the database, an object-oriented Perl API is also provided.
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What OpenQuestion holds
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.