Potential in vivo roles of nucleic acid triple-helices
The ability of double-stranded DNA to form a triple-helical structure by hydrogen bonding
with a third strand is well established, but the biological functions of these structures remain …
with a third strand is well established, but the biological functions of these structures remain …
[HTML][HTML] High density DNA methylation array with single CpG site resolution
M Bibikova, B Barnes, C Tsan, V Ho, B Klotzle, JM Le… - Genomics, 2011 - Elsevier
We have developed a new generation of genome-wide DNA methylation BeadChip which
allows high-throughput methylation profiling of the human genome. The new high density …
allows high-throughput methylation profiling of the human genome. The new high density …
Integrative annotation of chromatin elements from ENCODE data
The ENCODE Project has generated a wealth of experimental information mapping diverse
chromatin properties in several human cell lines. Although each such data track is …
chromatin properties in several human cell lines. Although each such data track is …
Longitudinal, genome-scale analysis of DNA methylation in twins from birth to 18 months of age reveals rapid epigenetic change in early life and pair-specific effects of …
Background The extent to which development-and age-associated epigenetic changes are
influenced by genetic, environmental and stochastic factors remains to be discovered. Twins …
influenced by genetic, environmental and stochastic factors remains to be discovered. Twins …
[HTML][HTML] Reversible, tunable epigenetic silencing of TCF1 generates flexibility in the T cell memory decision
K Abadie, EC Clark, RM Valanparambil, O Ukogu… - Immunity, 2024 - cell.com
The immune system encodes information about the severity of a pathogenic threat in the
quantity and type of memory cells it forms. This encoding emerges from lymphocyte …
quantity and type of memory cells it forms. This encoding emerges from lymphocyte …
Joint annotation of chromatin state and chromatin conformation reveals relationships among domain types and identifies domains of cell-type-specific expression
The genomic neighborhood of a gene influences its activity, a behavior that is attributable in
part to domain-scale regulation. Previous genomic studies have identified many types of …
part to domain-scale regulation. Previous genomic studies have identified many types of …
A unified encyclopedia of human functional DNA elements through fully automated annotation of 164 human cell types
Semi-automated genome annotation methods such as Segway take as input a set of
genome-wide measurements such as of histone modification or DNA accessibility and …
genome-wide measurements such as of histone modification or DNA accessibility and …
Segmentation and genome annotation algorithms for identifying chromatin state and other genomic patterns
MW Libbrecht, RCW Chan… - PLoS computational …, 2021 - journals.plos.org
Segmentation and genome annotation (SAGA) algorithms are widely used to understand
genome activity and gene regulation. These algorithms take as input epigenomic datasets …
genome activity and gene regulation. These algorithms take as input epigenomic datasets …
Spectacle: fast chromatin state annotation using spectral learning
J Song, KC Chen - Genome biology, 2015 - Springer
Epigenomic data from ENCODE can be used to associate specific combinations of
chromatin marks with regulatory elements in the human genome. Hidden Markov models …
chromatin marks with regulatory elements in the human genome. Hidden Markov models …