ArticleNucleic acids research2007
Identification of putative transcriptional regulatory networks in Entamoeba histolytica using Bayesian inference.
Article in Nucleic acids research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed, 36 citations in OpenAlex.
- Identification of two transcription factors that work coordinately to regulate early development inmBio · 2024Article
- In Silico Identification and Characterization of circRNAs as Potential Virulence-Related miRNA/siRNA Sponges fromNon-coding RNA · 2022Article
- Gene expression of axenically-isolated clinical Entamoeba histolytica strains and its impact on disease severity of amebiasis.PLoS pathogens · 2022Article
- RNA Sequencing Reveals Widespread Transcription of Natural Antisense RNAs inMicroorganisms · 2022Article
- Genomic determinants for initiation and length of natural antisense transcripts in Entamoeba histolytica.Scientific reports · 2020Article
- The NADFrontiers in cellular and infection microbiology · 2020Article
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- Transcriptomic analysis reveals novel downstream regulatory motifs and highly transcribed virulence factor genes of Entamoeba histolytica.BMC genomics · 2019Article
- Advances inFrontiers in microbiology · 2019Review
- An NADeLife · 2018Article
- Article
- Regulation of gene expression in the protozoan parasite Entamoeba invadens: identification of core promoter elements and promoters with stage-specific expression patterns.International journal for parasitology · 2014Article
- Regulation of H2O2 stress-responsive genes through a novel transcription factor in the protozoan pathogen Entamoeba histolytica.The Journal of biological chemistry · 2013Article
- Small RNA pyrosequencing in the protozoan parasite Entamoeba histolytica reveals strain-specific small RNAs that target virulence genes.BMC genomics · 2013Article
- Oxidative stress resistance genes contribute to the pathogenic potential of the anaerobic protozoan parasite, Entamoeba histolytica.International journal for parasitology · 2012Article
- Entamoeba histolytica: a snapshot of current research and methods for genetic analysis.Current opinion in microbiology · 2012Review
- In silico analysis of ubiquitin/ubiquitin-like modifiers and their conjugating enzymes in Entamoeba species.Parasitology research · 2012Article
- Transferrin regulates mRNA levels of a gene involved in iron utilization in Entamoeba histolytica.Molecular biology reports · 2012Article
- A developmentally regulated Myb domain protein regulates expression of a subset of stage-specific genes in Entamoeba histolytica.Cellular microbiology · 2009Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Few transcriptional regulatory networks have been described in non-model organisms. In Entamoeba histolytica seminal aspects of pathogenesis are transcriptionally controlled, however, little is known about transcriptional regulatory networks that effect gene expression in this parasite. We used expression data from two microarray experiments, cis-regulatory motif elucidation, and a naïve Bayesian classifier to identify genome-wide transcriptional regulatory patterns in E. histolytica. Our algorithm identified promoter motifs that accurately predicted the gene expression level of 68% of genes under trophozoite conditions. We identified a promoter motif ((A)/(T)AAACCCT) associated with high gene expression, which is highly enriched in promoters of ribosomal protein genes and tRNA synthetases. Additionally, we identified three promoter motifs (GAATGATG, AACTATTTAAACAT(C)/(T)C and TGAACTTATAAACATC) associated with low gene expression. The promoters of a large gene family were highly enriched for these motifs, and in these genes the presence of >/=2 motifs predicted low baseline gene expression and transcriptional activation by heat shock. We demonstrate that amebic nuclear protein(s) bind specifically to four of the motifs identified herein. Our analysis suggests that transcriptional regulatory networks can be identified using limited expression data. Thus, this approach is applicable to the multitude of systems for which microarray and genome sequence data are emerging.
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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.