ArticleBriefings in bioinformatics2019
The BioCyc collection of microbial genomes and metabolic pathways.
Article in Briefings in bioinformatics, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 569 papers.
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
569 citing papers in PubMed.
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- Process bigraphs and the architecture of compositional systems biology.PLoS computational biology · 2026Article
- Rhizobia bacteroid transcription helps to coordinate the soybean nodule drought response.AoB PLANTS · 2026Article
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- Identification of a putative RocS homolog through phenotypic profiling of uncharacterized essential genes inbioRxiv : the preprint server for biology · 2026Article
- Co-Directional Chromosomal Clustering of Metabolic Pathway Genes as a Layout Prior for Synthetic Construct Design.Biotech (Basel (Switzerland)) · 2026Article
- Genomic Evolution of Francisella: Metabolic Innovation, Endosymbiotic Transitions to Ticks, and Biogeographic History.Genome biology and evolution · 2026Article
- From functional annotation to functional meaning in microbiome research.Environmental microbiome · 2026Review
- Identifying fundamental gaps in functional metagenomics: a step towards unlocking microbiome research potential.NAR genomics and bioinformatics · 2026Article
- Transcriptomic shift in ethanol and amino acid metabolic genes regulated by Med15 during alcoholic fermentation.Microbial genomics · 2026Article
- CenIR, an essential BlaIR-family regulatory system inJournal of bacteriology · 2026Article
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- A metabolic model of the leaf-associated bacteriummSystems · 2026Article
- Genome-wide network of antibiotic susceptibility in Pseudomonas aeruginosa.The Journal of antimicrobial chemotherapy · 2026Article
- Metabolomics profiling reveals changes in peptidoglycan and redox metabolism between ancient and modernMicrobiology spectrum · 2026Article
- Saturated fatty acids enhance daptomycin activity in a Fak-dependent manner in enterococci.Microbiology (Reading, England) · 2026Article
- Protein STM3547 From Salmonella typhimurium Is a Phosphofructose Kinase B-Type Enzyme With Ribose Kinase Activity.Molecular microbiology · 2026Article
- AlphaGEM enables precise genome-scale metabolic modelling by integrating protein structure alignment with deep-learning-based dark metabolism mining.Nature communications · 2026Article
- Ligify 2.0: a web server for predicted small molecule biosensors.Nucleic acids research · 2026Article
509 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
13 authors.
Funding
Abstract
BioCyc.org is a microbial genome Web portal that combines thousands of genomes with additional information inferred by computer programs, imported from other databases and curated from the biomedical literature by biologist curators. BioCyc also provides an extensive range of query tools, visualization services and analysis software. Recent advances in BioCyc include an expansion in the content of BioCyc in terms of both the number of genomes and the types of information available for each genome; an expansion in the amount of curated content within BioCyc; and new developments in the BioCyc software tools including redesigned gene/protein pages and metabolite pages; new search tools; a new sequence-alignment tool; a new tool for visualizing groups of related metabolic pathways; and a facility called SmartTables, which enables biologists to perform analyses that previously would have required a programmer's assistance.
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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.