Intergenic, gene terminal, and intragenic CpG islands in the human genome
Background Recently, it has been discovered that the human genome contains many
transcription start sites for non-coding RNA. Regulatory regions related to transcription of …
transcription start sites for non-coding RNA. Regulatory regions related to transcription of …
Evolutionary evidence suggests that CpG island-associated Alus are frequently unmethylated in human germline
J Brohede, KN Rand - Human genetics, 2006 - Springer
Most Alu elements are considered to belong to the methylated fraction of the genome that
has undergone CpG depletion, whereas CpG islands are characteristically unmethylated. By …
has undergone CpG depletion, whereas CpG islands are characteristically unmethylated. By …
An evaluation of new criteria for CpG islands in the human genome as gene markers
Motivation: Recently, more stringent criteria for CpG islands have been introduced to
exclude Alu repeats, thereby enabling a higher proportion of CpG islands associating with …
exclude Alu repeats, thereby enabling a higher proportion of CpG islands associating with …
Preservation of methylated CpG dinucleotides in human CpG islands
Background CpG dinucleotides are extensively underrepresented in mammalian genomes.
It is widely accepted that genome-wide CpG depletion is predominantly caused by an …
It is widely accepted that genome-wide CpG depletion is predominantly caused by an …
Comprehensive analysis of the base composition around the transcription start site in Metazoa
Background The transcription start site of a metazoan gene remains poorly understood,
mostly because there is no clear signal present in all genes. Now that several sequenced …
mostly because there is no clear signal present in all genes. Now that several sequenced …
Sparse conserved under-methylated CpGs are associated with high-order chromatin structure
Background Whole-genome bisulfite sequencing (WGBS) is the gold standard for studying
landscape DNA methylation. Current computational methods for WGBS are mainly designed …
landscape DNA methylation. Current computational methods for WGBS are mainly designed …
The clustering of CpG islands may constitute an important determinant of the 3D organization of interphase chromosomes
ES Gushchanskaya, AV Artemov, SV Ulyanov… - Epigenetics, 2014 - Taylor & Francis
We used the 4C-Seq technique to characterize the genome-wide patterns of spatial contacts
of several CpG islands located on chromosome 14 in cultured chicken lymphoid and …
of several CpG islands located on chromosome 14 in cultured chicken lymphoid and …
Genome-wide analysis reveals strong correlation between CpG islands with nearby transcription start sites of genes and their tissue specificity
R Yamashita, Y Suzuki, S Sugano, K Nakai - Gene, 2005 - Elsevier
It has been envisaged that CpG islands are often observed near the transcriptional start sites
(TSS) of housekeeping genes. However, neither the precise positions of CpG islands …
(TSS) of housekeeping genes. However, neither the precise positions of CpG islands …
A genome-wide analysis of CpG dinucleotides in the human genome distinguishes two distinct classes of promoters
S Saxonov, P Berg, DL Brutlag - Proceedings of the …, 2006 - National Acad Sciences
A striking feature of the human genome is the dearth of CpG dinucleotides (CpGs)
interrupted occasionally by CpG islands (CGIs), regions with relatively high content of the …
interrupted occasionally by CpG islands (CGIs), regions with relatively high content of the …
CpG islands influence chromatin structure via the CpG-binding protein Cfp1
JP Thomson, PJ Skene, J Selfridge, T Clouaire, J Guy… - Nature, 2010 - nature.com
CpG islands (CGIs) are prominent in the mammalian genome owing to their GC-rich base
composition and high density of CpG dinucleotides,. Most human gene promoters are …
composition and high density of CpG dinucleotides,. Most human gene promoters are …