Understanding 3D genome organization by multidisciplinary methods
I Jerkovic, G Cavalli - Nature Reviews Molecular Cell Biology, 2021 - nature.com
Understanding how chromatin is folded in the nucleus is fundamental to understanding its
function. Although 3D genome organization has been historically difficult to study owing to a …
function. Although 3D genome organization has been historically difficult to study owing to a …
Machine learning meets omics: applications and perspectives
The innovation of biotechnologies has allowed the accumulation of omics data at an
alarming rate, thus introducing the era of 'big data'. Extracting inherent valuable knowledge …
alarming rate, thus introducing the era of 'big data'. Extracting inherent valuable knowledge …
Depletion of lamins B1 and B2 promotes chromatin mobility and induces differential gene expression by a mesoscale-motion-dependent mechanism
EM Pujadas Liwag, X Wei, N Acosta, LM Carter, J Yang… - Genome biology, 2024 - Springer
Background B-type lamins are critical nuclear envelope proteins that interact with the three-
dimensional genomic architecture. However, identifying the direct roles of B-lamins on …
dimensional genomic architecture. However, identifying the direct roles of B-lamins on …
[PDF][PDF] Nuclear genome organization in fungi: From gene folding to Rabl chromosomes
DE Torres, AT Reckard, AD Klocko… - FEMS Microbiology …, 2023 - academic.oup.com
Comparative genomics has recently provided unprecedented insights into the biology and
evolution of the fungal lineage. In the postgenomics era, a major research interest focuses …
evolution of the fungal lineage. In the postgenomics era, a major research interest focuses …
Techniques for and challenges in reconstructing 3D genome structures from 2D chromosome conformation capture data
Chromosome conformation capture technologies that provide frequency information for
contacts between genomic regions have been crucial for increasing our understanding of …
contacts between genomic regions have been crucial for increasing our understanding of …
A new precision medicine initiative at the dawn of exascale computing
Which signaling pathway and protein to select to mitigate the patient's expected drug
resistance? The number of possibilities facing the physician is massive, and the drug …
resistance? The number of possibilities facing the physician is massive, and the drug …
Extracellular matrix cues regulate mechanosensing and mechanotransduction of cancer cells
CT Mierke - Cells, 2024 - mdpi.com
Extracellular biophysical properties have particular implications for a wide spectrum of
cellular behaviors and functions, including growth, motility, differentiation, apoptosis, gene …
cellular behaviors and functions, including growth, motility, differentiation, apoptosis, gene …
Structures and functions of chromatin fibers
In eukaryotes, genomic DNA is packaged into chromatin in the nucleus. The accessibility of
DNA is dependent on the chromatin structure and dynamics, which essentially control DNA …
DNA is dependent on the chromatin structure and dynamics, which essentially control DNA …
Reconstruct high-resolution 3D genome structures for diverse cell-types using FLAMINGO
High-resolution reconstruction of spatial chromosome organizations from chromatin contact
maps is highly demanded, but is hindered by extensive pairwise constraints, substantial …
maps is highly demanded, but is hindered by extensive pairwise constraints, substantial …
Federating structural models and data: outcomes from a workshop on archiving integrative structures
Structures of biomolecular systems are increasingly computed by integrative modeling. In
this approach, a structural model is constructed by combining information from multiple …
this approach, a structural model is constructed by combining information from multiple …