Results 61 to 70 of about 392,690 (299)
Allele-specific control of replication timing and genome organization during development [PDF]
, 2018 DNA replication occurs in a defined temporal order known as the replication-timing (RT) program. RT is regulated during development in discrete chromosomal units, coordinated with transcriptional activity and 3D genome organization.
Dimond, AM
core +1 more source
Frontiers in Genetics, 2023 Ankylosing Spondylitis (AS) is a chronic inflammatory arthritis of the spine exhibiting a strong genetic background. The mechanistic and functional understanding of the AS-associated genomic loci, identified with Genome Wide Association Studies (GWAS ...
Connor Davidson +7 more
doaj +1 more source
The role of miR‐335‐5p in the redifferentiation of BRAF p.V600E thyroid cancers
Molecular Oncology, EarlyView.The BRAF p.V600E mutation promotes thyroid cancer dedifferentiation and radioiodine resistance. Using a network approach, we identified miR‐335‐5p as a key regulator of BRAF‐mutated thyroid tumors. Restoring miR‐335‐5p increased thyroid‐specific gene expression and iodine uptake in cells and organoids.
Valeria Pecce +11 more
wiley +1 more source
Unraveling the 3D genome: genomics tools for multiscale exploration [PDF]
Trends in Genetics, 2015 A decade of rapid method development has begun to yield exciting insights into the 3D architecture of the metazoan genome and the roles it may play in regulating transcription. Here we review core methods and new tools in the modern genomicist's toolbox at three length scales, ranging from single base pairs to megabase-scale chromosomal domains, and ...
Viviana I, Risca, William J, Greenleaf
openaire +2 more sources
Developing a Toolset for 3D Genome Visualisation and Analysis
, 2022 In recent years 3D models of the genome emerges from Hi-C analysis and Imaging methods. To gain a better understanding of long distance relationships in DNA the analysis of the 3D structure of the genome is beginning.
Hofsøy, William
core
Subtype‐specific enhancer RNAs define transcriptional regulators and prognosis in breast cancers
Molecular Oncology, EarlyView.This study employed machine learning methodologies to perform the subtype‐specific classification of RNA‐seq data sets, which are mapped on enhancers from TCGA‐derived breast cancer patients. Their integration with gene expression (referred to as ProxCReAM eRNAs) and chromatin accessibility profiles has the potential to identify lineage‐specific and ...
Aamena Y. Patel +6 more
wiley +1 more source
Three-Dimensional Genome Map of the Filamentous Fungus Penicillium oxalicum
Microbiology Spectrum, 2022 Higher-order spatial organization of the chromatin in the nucleus plays crucial roles in the maintenance of cell functions and the regulation of gene expression. Three-dimensional (3D) genome sequencing has been used to great effect in mammal and plants,
Cheng-Xi Li +5 more
doaj +1 more source
Molecular Oncology, EarlyView.Tumors contain diverse cellular states whose behavior is shaped by context‐dependent gene coordination. By comparing gene–gene relationships across biological contexts, we identify adaptive transcriptional modules that reorganize into distinct vulnerability axes.
Brian Nelson +9 more
wiley +1 more source
Reconstruct high-resolution 3D genome structures for diverse cell-types using FLAMINGO
Nature Communications, 2022 High-resolution reconstruction of spatial chromosome organisation is in demand. Here the authors report FLAMINGO, for reconstructing high-resolution 3D Genome Organisation from HiC data which they use to generate both 5 kb and 1 kb-resolution 3D ...
Hao Wang +4 more
doaj +1 more source
Open for connections: HiCAR reveals the interactions of accessible DNA
Cell Genomics, 2022 Hi-C is a powerful technology for exploring 3D genome organization on a genome-wide scale, yet it can be financially and computationally challenging. In a recent issue of Molecular Cell, Wei et al.1 introduce HiCAR, which simplifies Hi-C by targeting the
Benoit Moindrot, Daan Noordermeer
doaj +1 more source