ArticleGenome research2007
Independent and complementary methods for large-scale structural analysis of mammalian chromatin.
Article in Genome research, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 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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Who cites it
26 citing papers in PubMed, 42 citations in OpenAlex.
- Chromatin dynamics: Nucleosome occupancy and sensitivity as determinants of gene expression and cell fate.Journal of cancer biology · 2021Article
- The chromatin remodeling protein Lsh alters nucleosome occupancy at putative enhancers and modulates binding of lineage specific transcription factors.Epigenetics · 2019Article
- Article
- BAF250a Protein Regulates Nucleosome Occupancy and Histone Modifications in Priming Embryonic Stem Cell Differentiation.The Journal of biological chemistry · 2015Article
- DNA-Encoded Chromatin Structural Intron Boundary Signals Identify Conserved Genes with Common Function.International journal of genomics · 2015Article
- The role of Cockayne Syndrome Protein B in transcription regulation.Genomics data · 2014Article
- Differential nuclease sensitivity profiling of chromatin reveals biochemical footprints coupled to gene expression and functional DNA elements in maize.The Plant cell · 2014Article
- Nucleosomal occupancy changes locally over key regulatory regions during cell differentiation and reprogramming.Nature communications · 2014Article
- The sequence-specific transcription factor c-Jun targets Cockayne syndrome protein B to regulate transcription and chromatin structure.PLoS genetics · 2014Article
- Genome-wide nucleosome map and cytosine methylation levels of an ancient human genome.Genome research · 2014Article
- Genome-wide prediction of nucleosome occupancy in maize reveals plant chromatin structural features at genes and other elements at multiple scales.Plant physiology · 2013Article
- Chromatin patterns associated with lung adenocarcinoma progression.Cell cycle (Georgetown, Tex.) · 2013Article
- Article
- Predicting nucleosome binding motif set and analyzing their distributions around functional sites of human genes.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2012Article
- Chromatin-interaction compartment switch at developmentally regulated chromosomal domains reveals an unusual principle of chromatin folding.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Epigenetic changes in fetal hypothalamic energy regulating pathways are associated with maternal undernutrition and twinning.FASEB journal : official publication of the Federation of American Societies for Experimental Biology · 2012Article
- Nucleosome positioning in Saccharomyces cerevisiae.Microbiology and molecular biology reviews : MMBR · 2011Review
- Multiple distinct stimuli increase measured nucleosome occupancy around human promoters.PloS one · 2011Article
- Article
- Characterization of DXZ4 conservation in primates implies important functional roles for CTCF binding, array expression and tandem repeat organization on the X chromosome.Genome biology · 2011Article
Corrections and comments
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Authors and funding
10 authors at 6 institutions in 1 country.
Funding
Abstract
The fundamental building block of chromatin, the nucleosome, occupies 150 bp of DNA in a spaced arrangement that is a primary determinant in regulation of the genome. The nucleosomal organization of some regions of the human genome has been described, but mapping of these regions has been limited to a few kilobases. We have explored two independent and complementary methods for the high-throughput analysis of mammalian chromatin structure. Through adaptations to a protocol used to map yeast chromatin structure, we determined sites of nucleosomal protection over large regions of the mammalian genome using a tiling microarray. By modifying classical primer extension methods, we localized specific internucleosomally cleaved mammalian genomic sequences using a capillary electrophoresis sequencer in a manner that allows high-throughput nucleotide-resolution characterization of nucleosome protection patterns. We developed algorithms for the automated and unbiased analysis of the resulting data, a necessary step toward large-scale analysis. We validated these assays using the known positions of nucleosomes on the mouse mammary tumor virus LTR, and additionally, we characterized the previously unreported chromatin structure of the LCMT2 gene. These results demonstrate the effectiveness of the combined methods for reliable analysis of mammalian chromatin structure in a high-throughput manner.
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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.