ArticleNucleic acids research2014
Saccharomyces genome database provides new regulation data.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 37 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
37 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes.GigaScience · 2017Pooled it
- Ecm19 coordinates mitochondrial fission and cellular redox homeostasis.Redox report : communications in free radical research · 2025Article
- MCPNet: a parallel maximum capacity-based genome-scale gene network construction framework.Bioinformatics (Oxford, England) · 2023Article
- Article
- A new protocol for single-cell RNA-seq reveals stochastic gene expression during lag phase in budding yeast.eLife · 2020Article
- Interaction map of Arabidopsis Mediator complex expounding its topology.Nucleic acids research · 2019Article
- Multi-study inference of regulatory networks for more accurate models of gene regulation.PLoS computational biology · 2019Article
- Condition-Specific Modeling of Biophysical Parameters Advances Inference of Regulatory Networks.Cell reports · 2018Article
- RegulatorDB: a resource for the analysis of yeast transcriptional regulation.Database : the journal of biological databases and curation · 2017Article
- Outreach and online training services at the Saccharomyces Genome Database.Database : the journal of biological databases and curation · 2017Article
- Cytoscape.js: a graph theory library for visualisation and analysis.Bioinformatics (Oxford, England) · 2016Article
- GeneWeaver: data driven alignment of cross-species genomics in biology and disease.Nucleic acids research · 2016Article
- MitoCarta2.0: an updated inventory of mammalian mitochondrial proteins.Nucleic acids research · 2016Article
- BiGG Models: A platform for integrating, standardizing and sharing genome-scale models.Nucleic acids research · 2016Article
- GEneSTATION 1.0: a synthetic resource of diverse evolutionary and functional genomic data for studying the evolution of pregnancy-associated tissues and phenotypes.Nucleic acids research · 2016Article
- WormBase 2016: expanding to enable helminth genomic research.Nucleic acids research · 2016Article
- Data-based Reconstruction of Gene Regulatory Networks of Fungal Pathogens.Frontiers in microbiology · 2016Article
- YCRD: Yeast Combinatorial Regulation Database.PloS one · 2016Article
- CoopTFD: a repository for predicted yeast cooperative transcription factor pairs.Database : the journal of biological databases and curation · 2016Article
- A Genome-Wide Screen with Nicotinamide to Identify Sirtuin-Dependent Pathways in Saccharomyces cerevisiae.G3 (Bethesda, Md.) · 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
12 authors.
Funding
Abstract
The Saccharomyces Genome Database (SGD; http://www.yeastgenome.org) is the community resource for genomic, gene and protein information about the budding yeast Saccharomyces cerevisiae, containing a variety of functional information about each yeast gene and gene product. We have recently added regulatory information to SGD and present it on a new tabbed section of the Locus Summary entitled 'Regulation'. We are compiling transcriptional regulator-target gene relationships, which are curated from the literature at SGD or imported, with permission, from the YEASTRACT database. For nearly every S. cerevisiae gene, the Regulation page displays a table of annotations showing the regulators of that gene, and a graphical visualization of its regulatory network. For genes whose products act as transcription factors, the Regulation page also shows a table of their target genes, accompanied by a Gene Ontology enrichment analysis of the biological processes in which those genes participate. We additionally synthesize information from the literature for each transcription factor in a free-text Regulation Summary, and provide other information relevant to its regulatory function, such as DNA binding site motifs and protein domains. All of the regulation data are available for querying, analysis and download via YeastMine, the InterMine-based data warehouse system in use at SGD.
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.