ArticleEnvironmental health perspectives2004
The TAO-Gen algorithm for identifying gene interaction networks with application to SOS repair in E. coli.
Article in Environmental health perspectives, 2004. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 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.
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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
11 citing papers in PubMed, 23 citations in OpenAlex.
- Quinolone Antibiotics: Resistance and Therapy.Infection and drug resistance · 2023Review
- Transcriptome Analysis Uncovers a Growth-Promoting Activity of Orosomucoid-1 on Hepatocytes.EBioMedicine · 2017Article
- Prediction of developmental chemical toxicity based on gene networks of human embryonic stem cells.Nucleic acids research · 2016Article
- Multi-parametric profiling network based on gene expression and phenotype data: a novel approach to developmental neurotoxicity testing.International journal of molecular sciences · 2012Article
- Identification of Stage-Specific Gene Expression Signatures in Response to Retinoic Acid during the Neural Differentiation of Mouse Embryonic Stem Cells.Frontiers in genetics · 2012Article
- Validation and characterization of DNA microarray gene expression data distribution and associated moments.BMC bioinformatics · 2010Article
- Gradient descent optimization in gene regulatory pathways.PloS one · 2010Article
- Oxygenomics in environmental stress.Redox report : communications in free radical research · 2010Review
- A fast and efficient gene-network reconstruction method from multiple over-expression experiments.BMC bioinformatics · 2009Article
- Characterization of the proneural gene regulatory network during mouse telencephalon development.BMC biology · 2008Article
- A model-based optimization framework for the inference of regulatory interactions using time-course DNA microarray expression data.BMC bioinformatics · 2007Article
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
One major unresolved issue in the analysis of gene expression data is the identification and quantification of gene regulatory networks. Several methods have been proposed for identifying gene regulatory networks, but these methods predominantly focus on the use of multiple pairwise comparisons to identify the network structure. In this article, we describe a method for analyzing gene expression data to determine a regulatory structure consistent with an observed set of expression profiles. Unlike other methods this method goes beyond pairwise evaluations by using likelihood-based statistical methods to obtain the network that is most consistent with the complete data set. The proposed algorithm performs accurately for moderate-sized networks with most errors being minor additions of linkages. However, the analysis also indicates that sample sizes may need to be increased to uniquely identify even moderate-sized networks. The method is used to evaluate interactions between genes in the SOS signaling pathway in Escherichia coli using gene expression data where each gene in the network is over-expressed using plasmids inserts.
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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.