BMC Genomics, 2020 Background Proximity ligation based techniques, like Hi-C, involve restriction digestion followed by ligation of formaldehyde cross-linked chromatin. Distinct chromatin states can impact the restriction digestion, and hence the visibility in the contact ...
Keerthivasan Raanin Chandradoss +7 more
doaj +1 more source
SHIELD: a platform for high-throughput screening of barrier-type DNA elements in human cells
Nature Communications, 2023 Chromatin boundary elements contribute to the partitioning of mammalian genomes into topological domains to regulate gene expression. Certain boundary elements are adopted as DNA insulators for safe and stable transgene expression in mammalian cells ...
Meng Zhang +5 more
doaj +1 more source
A genome-wide study on differential methylation in different cancers using TCGA database
Informatics in Medicine Unlocked, 2021 Background: DNA methylation is the main epigenetic mechanism driving changes in phenotype without altering genotype. Since the end of the seventies the role of methylation in cancer has become increasingly clear.
Daniele Santoni +2 more
doaj +1 more source
Lamin B1 mapping reveals the existence of dynamic and functional euchromatin lamin B1 domains
Nature Communications, 2018 Lamina-associated domains (LADs) contact lamins in the nuclear lamina, and lamin B1 was thought to bind heterochromatic regions at the nuclear envelope.
Laura Pascual-Reguant +13 more
doaj +1 more source
Lamina-associated polypeptide 2 (LAP2) expression patterns in transformed and cancer cells [PDF]
, 2009 The Lamina-associated polypeptide two (LAP2) proteins comprising three human isoforms, LAP2 +- LAP2β and LAP2 have been shown to provide a structural framework in the nucleus and to facilitate nuclear assembly and disassembly during the cell ...
Ward, Michelle Claire
core +1 more source
The large fraction of heterochromatin in Drosophila neurons is bound by both B-type lamin and HP1a
Epigenetics & Chromatin, 2018 Background In most mammalian cell lines, chromatin located at the nuclear periphery is represented by condensed heterochromatin, as evidenced by microscopy observations and DamID mapping of lamina-associated domains (LADs) enriched in dimethylated Lys9 ...
Alexey V. Pindyurin +8 more
doaj +1 more source
A Lamina-Associated Domain Border Governs Nuclear Lamina Interactions, Transcription, and Recombination of the Tcrb Locus [PDF]
Cell Reports, 2018 Tcrb locus V(D)J recombination is regulated by positioning at the nuclear periphery. Here, we used DamID to profile Tcrb locus interactions with the nuclear lamina at high resolution. We identified a lamina-associated domain (LAD) border composed of several CTCF-binding elements that segregates active non-LAD from inactive LAD regions of the locus ...
Shiwei Chen +7 more
openaire +3 more sources
Involvement of the lamin rod domain in heterotypic lamin interactions important for nuclear organization [PDF]
, 2001 The nuclear lamina is a meshwork of intermediate-type filament proteins (lamins) that lines the inner nuclear membrane. The lamina is proposed to be an important determinant of nuclear structure, but there has been little direct testing of this idea.
Tinglu Guan +5 more
core +1 more source
Genomic Repeats Categorize Genes with Distinct Functions for Orchestrated Regulation
Cell Reports, 2020 Summary: Repetitive elements are abundantly distributed in mammalian genomes. Here, we reveal a striking association between repeat subtypes and gene function. SINE, L1, and low-complexity repeats demarcate distinct functional categories of genes and may
J. Yuyang Lu +15 more
doaj +1 more source
Promoter-intrinsic and local chromatin features determine gene repression in lamina-associated domains [PDF]
, 2018 Abstract It is largely unclear whether genes that are naturally embedded in lamina associated domains (LADs) are inactive due to their chromatin environment, or whether LADs are merely secondary to the lack of transcription. We show that hundreds of human promoters become active when moved from their native LAD position to a neutral ...
Leemans, Christ +7 more
openaire +2 more sources