ArticleGene2007
Repetitive sequence environment distinguishes housekeeping genes.
Article in Gene, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 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
27 citing papers in PubMed.
- Article
- Article
- Article
- Expression dynamics and relations with nearby genes of rat transposable elements across 11 organs, 4 developmental stages and both sexes.BMC genomics · 2017Article
- Combined sense-antisense Alu elements activate the EGFP reporter gene when stable transfection.Molecular genetics and genomics : MGG · 2017Article
- Exploratory bioinformatics investigation reveals importance of "junk" DNA in early embryo development.BMC genomics · 2017Article
- Article
- Disagreement between two common biomarkers of global DNA methylation.Clinical epigenetics · 2016Article
- The role of Alu elements in the cis-regulation of RNA processing.Cellular and molecular life sciences : CMLS · 2015Review
- Do housekeeping genes exist?PloS one · 2015Article
- Mammalian-wide interspersed repeat (MIR)-derived enhancers and the regulation of human gene expression.Mobile DNA · 2014Article
- Linear decay of retrotransposon antisense bias across genes is contingent upon tissue specificity.PloS one · 2013Article
- Partitioning the human transcriptome using HKera, a novel classifier of housekeeping and tissue-specific genes.PloS one · 2013Article
- Article
- Article
- Rescuing Alu: recovery of new inserts shows LINE-1 preserves Alu activity through A-tail expansion.PLoS genetics · 2012Article
- Long interspersed nuclear element-1 hypomethylation in cancer: biology and clinical applications.Clinical epigenetics · 2011Article
- Hypomethylation of intragenic LINE-1 represses transcription in cancer cells through AGO2.PloS one · 2011Article
- Effect of the transposable element environment of human genes on gene length and expression.Genome biology and evolution · 2011Article
- Predicting housekeeping genes based on Fourier analysis.PloS one · 2011Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Housekeeping genes are expressed across a wide variety of tissues. Since repetitive sequences have been reported to influence the expression of individual genes, we employed a novel approach to determine whether housekeeping genes can be distinguished from tissue-specific genes by their repetitive sequence context. We show that Alu elements are more highly concentrated around housekeeping genes while various longer (>400-bp) repetitive sequences ("repeats"), including Long Interspersed Nuclear Element-1 (LINE-1) elements, are excluded from these regions. We further show that isochore membership does not distinguish housekeeping genes from tissue-specific genes and that repetitive sequence environment distinguishes housekeeping genes from tissue-specific genes in every isochore. The distinct repetitive sequence environment, in combination with other previously published sequence properties of housekeeping genes, was used to develop a method of predicting housekeeping genes on the basis of DNA sequence alone. Using expression across tissue types as a measure of success, we demonstrate that repetitive sequence environment is by far the most important sequence feature identified to date for distinguishing housekeeping genes.
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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.