Human housekeeping genes are compact.

By E. Eisenberg, E. Levanon. Trends in Genetics, 2003

709 citations recorded by the source corpus.

Abstract We identify a set of 575 human genes that are expressed in all conditions tested in a publicly available database of microarray results. Based on this common occurrence, the set is expected to be rich in ‘housekeeping' genes, showing constitutive expression in all tissues. We compare selected aspects of their genomic structure with a set of background genes. We find that the introns, untranslated regions and coding sequences of the housekeeping genes are shorter, indicating a selection for compactness in these genes.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/b358f144a9f90cb6efb5c700acc0121f47ae7435

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In Molecular Biology

Citations in the corpus

A deep generative model for gene expression profiles from single-cell RNA sequencing (2017, methodology): “Negative control lists (n=202) were matched in average expression and were derived from a list of housekeeping genes expressed across a compendium of 47 human tissues [32].”
Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq. (2011, neutral): “2b) and may be explained by natural selection for compact genes among abundant and universally expressed genes (Eisenberg and Levanon 2003).”
Promoter features related to tissue specificity as measured by Shannon entropy (2005, methodology): “A list of 797 human housekeeping genes [35] was evaluated using these statistics based on the GNF-GEA dataset using RefSeq accession numbers to identify appropriate probe sets.”
Extensive Promoter-centered Chromatin Interactions Provide a Topological Basis for Transcription Regulation (2012, positive): “with several distant regulatory elements, tended to be longer and had a higher noncoding to coding ratio than housekeeping genes (Eisenberg and Levanon, 2003; Taylor, 2005).”
RNA-Seq Atlas of Glycine max: A guide to the soybean transcriptome (2010, background): “Several other organisms contain genes with similar functions have also been indicated as stably expressed adding support to the list of HKGs generated here [12,34].”
Using control genes to correct for unwanted variation in microarray data. (2012, methodology): “There are 799 probesets that correspond to one of the housekeeping genes in Eisenberg and Levanon (2003).”
Genome-wide midrange transcription profiles reveal expression level relationships in human tissue specification (2005, background): “In the previous research on the tissue specificity of genes, emphasis has mainly been on the extremes of one-tissue specific (Hsiao et al., 2001, http://www.humangenes.org; Su et al., 2002) and housekeeping genes (Eisenberg and Levanon, 2003; Lercher et al., 2002; Warrington et al., 2000).”
A scaling normalization method for differential expression analysis of RNA-seq data (2010, neutral): “Human housekeeping genes, as described in [16], were downloaded from [25] and matched to the Ensembl gene identifiers using the Bioconductor [26] biomaRt package [27].”
Persistent DNA damage signaling triggers senescence-associated inflammatory cytokine secretion (2009, neutral): “As no set of mRNA that was not targeted by miRNA was readily available, we made use of a set of housekeeping genes, which tend to have shortened 3′UT”
Perturbation of m6A writers reveals two distinct classes of mRNA methylation at internal and 5' sites. (2014, background): “Because housekeeping genes generally have shorter mRNAs with shorter CDSs and UTRs and fewer exons (Eisenberg and Levanon, 2003) and longer RNA half-lives (Schwanhäusser et al.”
A comprehensive evaluation of normalization methods for Illumina high-throughput RNA sequencing data analysis (2013, methodology): “The housekeeping genes were selected from a previously described list [34] and presented the least variation across the 84 human cell types of the GeneAtlas data [35] available on GEO 674 Dillies et al.”
Reference genes identified in the silkworm Bombyx mori during metamorphism based on oligonucleotide microarray and confirmed by qRT‐PCR (2008, background): “Translation initiation factors and elongation factors often have been identified as housekeeping genes and are widely used as reference genes for gene expression measurement (Eisenberg & Levanon, 2003; Nicot et al., 2005).”