ArticleDatabase : the journal of biological databases and curation2013
Groups: knowledge spreadsheets for symbolic biocomputing.
Article in Database : the journal of biological databases and curation, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 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.
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Who cites it
19 citing papers in PubMed, 26 citations in OpenAlex.
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- Metabolic networks of the Nicotiana genus in the spotlight: content, progress and outlook.Briefings in bioinformatics · 2021Article
- Pathway Tools Visualization of Organism-Scale Metabolic Networks.Metabolites · 2021Article
- The ETFL formulation allows multi-omics integration in thermodynamics-compliant metabolism and expression models.Nature communications · 2020Article
- The BioCyc collection of microbial genomes and metabolic pathways.Briefings in bioinformatics · 2019Article
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- Determination of the small RNA GcvB regulon in the Gram-negative bacterial pathogenRNA (New York, N.Y.) · 2018Article
- How the strengths of Lisp-family languages facilitate building complex and flexible bioinformatics applications.Briefings in bioinformatics · 2018Article
- The Omics Dashboard for interactive exploration of gene-expression data.Nucleic acids research · 2017Article
- Update notifications for the BioCyc collection of databases.Database : the journal of biological databases and curation · 2017Article
- Pathway collages: personalized multi-pathway diagrams.BMC bioinformatics · 2016Article
- Pathway Tools version 19.0 update: software for pathway/genome informatics and systems biology.Briefings in bioinformatics · 2016Article
- Computational Metabolomics Operations at BioCyc.org.Metabolites · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Knowledge spreadsheets (KSs) are a visual tool for interactive data analysis and exploration. They differ from traditional spreadsheets in that rather than being oriented toward numeric data, they work with symbolic knowledge representation structures and provide operations that take into account the semantics of the application domain. 'Groups' is an implementation of KSs within the Pathway Tools system. Groups allows Pathway Tools users to define a group of objects (e.g. groups of genes or metabolites) from a Pathway/Genome Database. Groups can be transformed (e.g. by transforming a metabolite group to the group of pathways in which those metabolites are substrates); combined through set operations; analysed (e.g. through enrichment analysis); and visualized (e.g. by painting onto a metabolic map diagram). Users of the Pathway Tools-based BioCyc.org website have made extensive use of Groups, and an informal survey of Groups users suggests that Groups has achieved the goal of allowing biologists themselves to perform some data manipulations that previously would have required the assistance of a programmer. Database URL: BioCyc.org.
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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.