Long non-coding RNAs: definitions, functions, challenges and recommendations
Genes specifying long non-coding RNAs (lncRNAs) occupy a large fraction of the genomes
of complex organisms. The term 'lncRNAs' encompasses RNA polymerase I (Pol I), Pol II …
of complex organisms. The term 'lncRNAs' encompasses RNA polymerase I (Pol I), Pol II …
CTCF shapes chromatin structure and gene expression in health and disease
B Dehingia, M Milewska, M Janowski, A Pękowska - EMBO reports, 2022 - embopress.org
CCCTC‐binding factor (CTCF) is an eleven zinc finger (ZF), multivalent transcriptional
regulator, that recognizes numerous motifs thanks to the deployment of distinct combinations …
regulator, that recognizes numerous motifs thanks to the deployment of distinct combinations …
G-quadruplexes associated with R-loops promote CTCF binding
P Wulfridge, Q Yan, N Rell, J Doherty, S Jacobson… - Molecular Cell, 2023 - cell.com
CTCF is a critical regulator of genome architecture and gene expression that binds
thousands of sites on chromatin. CTCF genomic localization is controlled by the recognition …
thousands of sites on chromatin. CTCF genomic localization is controlled by the recognition …
Denaturing purifications demonstrate that PRC2 and other widely reported chromatin proteins do not appear to bind directly to RNA in vivo
Summary Polycomb repressive complex 2 (PRC2) is reported to bind to many RNAs and
has become a central player in reports of how long non-coding RNAs (lncRNAs) regulate …
has become a central player in reports of how long non-coding RNAs (lncRNAs) regulate …
Computational prediction and experimental validation identify functionally conserved lncRNAs from zebrafish to human
Functional studies of long noncoding RNAs (lncRNAs) have been hindered by the lack of
methods to assess their evolution. Here we present lncRNA Homology Explorer (lncHOME) …
methods to assess their evolution. Here we present lncRNA Homology Explorer (lncHOME) …
Enhancer–promoter specificity in gene transcription: molecular mechanisms and disease associations
MJ Friedman, T Wagner, H Lee… - … & Molecular Medicine, 2024 - nature.com
Although often located at a distance from their target gene promoters, enhancers are the
primary genomic determinants of temporal and spatial transcriptional specificity in …
primary genomic determinants of temporal and spatial transcriptional specificity in …
EpiFactors 2022: expansion and enhancement of a curated database of human epigenetic factors and complexes
D Marakulina, IE Vorontsov, IV Kulakovskiy… - Nucleic Acids …, 2023 - academic.oup.com
We present an update of EpiFactors, a manually curated database providing information
about epigenetic regulators, their complexes, targets, and products which is openly …
about epigenetic regulators, their complexes, targets, and products which is openly …
Long non-coding RNA-targeting therapeutics: discovery and development update
O Khorkova, J Stahl, A Joji, CH Volmar… - Expert opinion on …, 2023 - Taylor & Francis
Introduction lncRNAs are major players in regulatory networks orchestrating multiple cellular
functions, such as 3D chromosomal interactions, epigenetic modifications, gene expression …
functions, such as 3D chromosomal interactions, epigenetic modifications, gene expression …
CTCF organizes inter-A compartment interactions through RYBP-dependent phase separation
C Wei, L Jia, X Huang, J Tan, M Wang, J Niu, Y Hou… - Cell Research, 2022 - nature.com
Chromatin is spatially organized into three-dimensional structures at different levels
including A/B compartments, topologically associating domains and loops. The canonical …
including A/B compartments, topologically associating domains and loops. The canonical …