ArticleGenome research2004
Control of yeast filamentous-form growth by modules in an integrated molecular network.
Article in Genome research, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 48 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
48 citing papers in PubMed, 86 citations in OpenAlex.
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- How frequently do clusters occur in hierarchical clustering analysis? A graph theoretical approach to studying ties in proximity.Journal of cheminformatics · 2016Article
- Global alterations of the transcriptional landscape during yeast growth and development in the absence of Ume6-dependent chromatin modification.Molecular genetics and genomics : MGG · 2015Article
- The conserved histone deacetylase Rpd3 and its DNA binding subunit Ume6 control dynamic transcript architecture during mitotic growth and meiotic development.Nucleic acids research · 2015Article
- Bicluster Sampled Coherence Metric (BSCM) provides an accurate environmental context for phenotype predictions.BMC systems biology · 2015Article
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- The yeast Sks1p kinase signaling network regulates pseudohyphal growth and glucose response.PLoS genetics · 2014Article
- PhosphoChain: a novel algorithm to predict kinase and phosphatase networks from high-throughput expression data.Bioinformatics (Oxford, England) · 2013Article
- The KUPNetViz: a biological network viewer for multiple -omics datasets in kidney diseases.BMC bioinformatics · 2013Article
- Nutritional control of growth and development in yeast.Genetics · 2012Review
- atBioNet--an integrated network analysis tool for genomics and biomarker discovery.BMC genomics · 2012Article
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- Asymmetric positive feedback loops reliably control biological responses.Molecular systems biology · 2012Article
- Direct iterative protein profiling (DIPP) - an innovative method for large-scale protein detection applied to budding yeast mitosis.Molecular & cellular proteomics : MCP · 2012Article
- RNA methylation by the MIS complex regulates a cell fate decision in yeast.PLoS genetics · 2012Article
- The regulation of filamentous growth in yeast.Genetics · 2012Review
- Predicting the effects of copy-number variation in double and triple mutant combinations.Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing · 2012Article
- The promoter of filamentation (POF1) protein from Saccharomyces cerevisiae is an ATPase involved in the protein quality control process.BMC microbiology · 2011Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 2 institutions in 1 country.
Funding
Abstract
On solid growth media with limiting nitrogen source, diploid budding-yeast cells differentiate from the yeast form to a filamentous, adhesive, and invasive form. Genomic profiles of mRNA levels in Saccharomyces cerevisiae yeast-form and filamentous-form cells were compared. Disparate data types, including genes implicated by expression change, filamentation genes known previously through a phenotype, protein-protein interaction data, and protein-metabolite interaction data were integrated as the nodes and edges of a filamentation-network graph. Application of a network-clustering method revealed 47 clusters in the data. The correspondence of the clusters to modules is supported by significant coordinated expression change among cluster co-member genes, and the quantitative identification of collective functions controlling cell properties. The modular abstraction of the filamentation network enables the association of filamentous-form cell properties with the activation or repression of specific biological processes, and suggests hypotheses. A module-derived hypothesis was tested. It was found that the 26S proteasome regulates filamentous-form growth.
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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.