Hi-C analysis: from data generation to integration
In the epigenetics field, large-scale functional genomics datasets of ever-increasing size and
complexity have been produced using experimental techniques based on high-throughput …
complexity have been produced using experimental techniques based on high-throughput …
Understanding 3D genome organization and its effect on transcriptional gene regulation under environmental stress in plant: a chromatin perspective
The genome of a eukaryotic organism is comprised of a supra-molecular complex of
chromatin fibers and intricately folded three-dimensional (3D) structures. Chromosomal …
chromatin fibers and intricately folded three-dimensional (3D) structures. Chromosomal …
Engineering abiotic stress tolerance via CRISPR/Cas-mediated genome editing
Abiotic stresses, including drought, salinity, temperature, and heavy metals, pose a major
challenge for crop production and cause substantial yield reduction worldwide. Breeding …
challenge for crop production and cause substantial yield reduction worldwide. Breeding …
MyoD is a 3D genome structure organizer for muscle cell identity
R Wang, F Chen, Q Chen, X Wan, M Shi… - Nature …, 2022 - nature.com
The genome exists as an organized, three-dimensional (3D) dynamic architecture, and each
cell type has a unique 3D genome organization that determines its cell identity. An …
cell type has a unique 3D genome organization that determines its cell identity. An …
Pervasive chromatin-RNA binding protein interactions enable RNA-based regulation of transcription
Increasing evidence suggests that transcriptional control and chromatin activities at large
involve regulatory RNAs, which likely enlist specific RNA-binding proteins (RBPs). Although …
involve regulatory RNAs, which likely enlist specific RNA-binding proteins (RBPs). Although …
Integrative functional genomic analyses identify genetic variants influencing skin pigmentation in Africans
Skin color is highly variable in Africans, yet little is known about the underlying molecular
mechanism. Here we applied massively parallel reporter assays to screen 1,157 candidate …
mechanism. Here we applied massively parallel reporter assays to screen 1,157 candidate …
Transcription elongation machinery is a druggable dependency and potentiates immunotherapy in glioblastoma stem cells
Glioblastoma (GBM) is the most lethal primary brain cancer characterized by therapeutic
resistance, which is promoted by GBM stem cells (GSC). Here, we interrogated gene …
resistance, which is promoted by GBM stem cells (GSC). Here, we interrogated gene …
Integrated 3D genome, epigenome and transcriptome analyses reveal transcriptional coordination of circadian rhythm in rice
Y Zhang, G Chen, L Deng, B Gao, J Yang… - Nucleic Acids …, 2023 - academic.oup.com
Photoperiods integrate with the circadian clock to coordinate gene expression rhythms and
thus ensure plant fitness to the environment. Genome-wide characterization and comparison …
thus ensure plant fitness to the environment. Genome-wide characterization and comparison …
Chromatin loops associated with active genes and heterochromatin shape rice genome architecture for transcriptional regulation
Insight into high-resolution three-dimensional genome organization and its effect on
transcription remains largely elusive in plants. Here, using a long-read ChIA-PET approach …
transcription remains largely elusive in plants. Here, using a long-read ChIA-PET approach …
3D organization of regulatory elements for transcriptional regulation in Arabidopsis
L Deng, Q Zhou, J Zhou, Q Zhang, Z Jia, G Zhu… - Genome Biology, 2023 - Springer
Background Although spatial organization of compartments and topologically associating
domains at large scale is relatively well studied, the spatial organization of regulatory …
domains at large scale is relatively well studied, the spatial organization of regulatory …