Complex exon-intron marking by histone modifications is not determined solely by nucleosome distribution [PDF]
, 2010 It has recently been shown that nucleosome distribution, histone modifications and RNA polymerase II (Pol II) occupancy show preferential association with exons (“exon-intron marking”), linking chromatin structure and function to co-transcriptional ...
A Barski +66 more
core +8 more sources
Exon Skipping Is Correlated with Exon Circularization
Journal of Molecular Biology, 2015 Circular RNAs are found in a wide range of organisms and it has been proposed that they perform disparate functions. However, how RNA circularization is connected to alternative splicing remains largely unexplored. Here, we stimulated primary human endothelial cells with tumor necrosis factor α or tumor growth factor β, purified RNA, generated >2.4 ...
Peter R. Cook +4 more
openaire +5 more sources
Periodicity of DNA in exons [PDF]
BMC Molecular Biology, 2004 Abstract Background The periodic pattern of DNA in exons is a known phenomenon. It was suggested that one of the initial causes of periodicity could be the universal (RNY) n pattern (R = A or G, Y = C or U, N = any base) of ancient RNA.
Anatoly Ruvinsky +3 more
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Reciprocal intronic and exonic histone modification regions in humans. [PDF]
, 2010 While much attention has been focused on chromatin at promoters and exons, human genes are mostly composed of intronic sequences. Analyzing published surveys of nucleosomes and 41 chromatin marks in humans, we identified histone modifications ...
Guthrie, Christine +3 more
core +2 more sources
ExPrimer: to design primers from exon--exon junctions [PDF]
Bioinformatics, 2005 ExPrimer is a web-based computer program to design primers mainly from a specified exon-exon junction (E-E-jn) of a gene of interest. The tool suggests the optimum primer-pair(s) of which the right (reverse) primer represents a particular E-E-jn of the mRNA. The 'product length' decides the location of the left primer.
Kshitish K. Acharya +1 more
openaire +3 more sources
The Cancer Spliceome: Reprograming of Alternative Splicing in Cancer
Frontiers in Molecular Biosciences, 2018 Alternative splicing allows for the expression of multiple RNA and protein isoforms from one gene, making it a major contributor to transcriptome and proteome diversification in eukaryotes.
Ettaib El Marabti, Ihab Younis
doaj +1 more source
Identify alternative splicing events based on position-specific evolutionary conservation. [PDF]
PLoS ONE, 2008 The evolution of eukaryotes is accompanied by the increased complexity of alternative splicing which greatly expands genome information. One of the greatest challenges in the post-genome era is a complete revelation of human transcriptome with ...
Liang Chen, Sika Zheng
doaj +1 more source
Human Tra2 proteins jointly control a CHEK1 splicing switch among alternative and constitutive target exons [PDF]
, 2014 Alternative splicing—the production of multiple messenger RNA isoforms from a single gene—is regulated in part by RNA binding proteins. While the RBPs transformer2 alpha (Tra2α) and Tra2β have both been implicated in the regulation of alternative ...
Austin, Caroline A. +19 more
core +2 more sources
The emergence of alternative 3' and 5' splice site exons from constitutive exons. [PDF]
PLoS Computational Biology, 2007 Alternative 3' and 5' splice site (ss) events constitute a significant part of all alternative splicing events. These events were also found to be related to several aberrant splicing diseases.
Eli Koren, Galit Lev-Maor, Gil Ast
doaj +1 more source
Characterization and prognostic value of mutations in exons 5 and 6 of the p53 gene in patients with colorectal cancers in central Iran [PDF]
, 2013 Background/Aims: We aimed to investigate the relation-ships among various mutations of the p53 gene and their protein products, histological characteristics, and disease prognosis of primary colorectal cancer in Isfahan, central Iran.
Anwar +46 more
core +1 more source