ArticleNucleic acids research2006
The University of Minnesota Biocatalysis/Biodegradation Database: the first decade.
Article in Nucleic acids research, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
43 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities.Frontiers in bioengineering and biotechnology · 2021Pooled it
- Computational tools for nonnatural pathway design: Algorithms, applications, and challenges.Biodesign research · 2025Review
- Predictive modeling of biodegradation pathways using transformer architectures.Journal of cheminformatics · 2025Article
- enviRule: an end-to-end system for automatic extraction of reaction patterns from environmental contaminant biotransformation pathways.Bioinformatics (Oxford, England) · 2023Article
- Holistic evaluation of biodegradation pathway prediction: assessing multi-step reactions and intermediate products.Journal of cheminformatics · 2021Article
- Gene Editing and Systems Biology Tools for Pesticide Bioremediation: A Review.Frontiers in microbiology · 2019Review
- Elucidating the impact of microbial community biodiversity on pharmaceutical biotransformation during wastewater treatment.Microbial biotechnology · 2018Article
- Integrated Framework for Identifying Toxic Transformation Products in Complex Environmental Mixtures.Environmental science & technology letters · 2017Article
- Article
- Association of biodiversity with the rates of micropollutant biotransformations among full-scale wastewater treatment plant communities.Applied and environmental microbiology · 2015Article
- Antihypertensive drugs metabolism: an update to pharmacokinetic profiles and computational approaches.Current pharmaceutical design · 2015Review
- AromaDeg, a novel database for phylogenomics of aerobic bacterial degradation of aromatics.Database : the journal of biological databases and curation · 2014Article
- Integer programming-based method for designing synthetic metabolic networks by Minimum Reaction Insertion in a Boolean model.PloS one · 2014Article
- Integration of bioinformatics to biodegradation.Biological procedures online · 2014Review
- Transcription factor-based screens and synthetic selections for microbial small-molecule biosynthesis.ACS synthetic biology · 2013Article
- MetRxn: a knowledgebase of metabolites and reactions spanning metabolic models and databases.BMC bioinformatics · 2012Article
- MUCHA: multiple chemical alignment algorithm to identify building block substructures of orphan secondary metabolites.BMC bioinformatics · 2011Article
- Prediction of metabolic reactions based on atomic and molecular properties of small-molecule compounds.Bioinformatics (Oxford, England) · 2011Article
- IGERS: inferring Gibbs energy changes of biochemical reactions from reaction similarities.Biophysical journal · 2010Article
- In silico feasibility of novel biodegradation pathways for 1,2,4-trichlorobenzene.BMC systems biology · 2010Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
As the University of Minnesota Biocatalysis/Biodegradation Database (UM-BBD, http://umbbd.ahc.umn.edu/) starts its second decade, it includes information on over 900 compounds, over 600 enzymes, nearly 1000 reactions and about 350 microorganism entries. Its Biochemical Periodic Tables have grown to include biological information for almost all stable, non-noble-gas elements (http://umbbd.ahc.umn.edu/periodic/). Its Pathway Prediction System (PPS) (http://umbbd.ahc.umn.edu/predict/) is now an internationally recognized, open system for predicting microbial catabolism of organic compounds. Graphical display of PPS rules, a stand-alone version of the PPS and guidance for PPS users are being developed. The next decade should see the PPS, and the UM-BBD on which it is based, find increasing use by national and international government agencies, commercial organizations and educational institutions.
Indexed as
Identifiers
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.