ArticleBMC bioinformatics2005
Comparative analysis of chromatin landscape in regulatory regions of human housekeeping and tissue specific genes.
Article in BMC bioinformatics, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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Who cites it
29 citing papers in PubMed, 65 citations in OpenAlex.
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- Genomic Resources of Three Pulsatilla Species Reveal Evolutionary Hotspots, Species-Specific Sites and Variable Plastid Structure in the Family Ranunculaceae.International journal of molecular sciences · 2015Article
- Integrative genomic analysis reveals widespread enhancer regulation by p53 in response to DNA damage.Nucleic acids research · 2015Article
- Regulation of eukaryotic gene expression by the untranslated gene regions and other non-coding elements.Cellular and molecular life sciences : CMLS · 2012Review
- Nucleosomal occupancy and CGG repeat expansion: a comparative analysis of triplet repeat region from mouse and human fragile X mental retardation gene 1.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2011Article
- Transcription initiation patterns indicate divergent strategies for gene regulation at the chromatin level.PLoS genetics · 2011Article
- Genomic signatures of germline gene expression.Genome research · 2010Article
- Genome architecture marked by retrotransposons modulates predisposition to DNA methylation in cancer.Genome research · 2010Article
- Alu and b1 repeats have been selectively retained in the upstream and intronic regions of genes of specific functional classes.PLoS computational biology · 2009Article
- Histone modifications, but not nucleosomal positioning, correlate with major histocompatibility complex class I promoter activity in different tissues in vivo.Molecular and cellular biology · 2008Article
- Prediction and analysis of nucleosome exclusion regions in the human genome.BMC genomics · 2008Article
- How many human genes can be defined as housekeeping with current expression data?BMC genomics · 2008Article
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundGlobal regulatory mechanisms involving chromatin assembly and remodelling in the promoter regions of genes is implicated in eukaryotic transcription control especially for genes subjected to spatial and temporal regulation. The potential to utilise global regulatory mechanisms for controlling gene expression might depend upon the architecture of the chromatin in and around the gene. In-silico analysis can yield important insights into this aspect, facilitating comparison of two or more classes of genes comprising of a large number of genes within each group.
resultsIn the present study, we carried out a comparative analysis of chromatin characteristics in terms of the scaffold/matrix attachment regions, nucleosome formation potential and the occurrence of repetitive sequences, in the upstream regulatory regions of housekeeping and tissue specific genes. Our data show that putative scaffold/matrix attachment regions are more abundant and nucleosome formation potential is higher in the 5' regions of tissue specific genes as compared to the housekeeping genes.
conclusionThe differences in the chromatin features between the two groups of genes indicate the involvement of chromatin organisation in the control of gene expression. The presence of global regulatory mechanisms mediated through chromatin organisation can decrease the burden of invoking gene specific regulators for maintenance of the active/silenced state of gene expression. This could partially explain the lower number of genes estimated in the human genome.
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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.