Progress in multifactorial single-cell chromatin profiling methods

T Stuart - Biochemical Society Transactions, 2024 - portlandpress.com
Chromatin states play a key role in shaping overall cellular states and fates. Building a
complete picture of the functional state of chromatin in cells requires the co-detection of …

DNA microarray chips: Fabrication and cutting-edge applications

JX Xu, H Chun, L Wang, H Mei, S Chen… - Chemical Engineering …, 2024 - Elsevier
For decades, DNA chips, also known as DNA microarrays, have been extensively utilized for
high-throughput gene expression analysis and single nucleotide polymorphism (SNP) …

Predicting regulators of epithelial cell state through regularized regression analysis of single cell multiomic sequencing

N Ledru, PC Wilson, Y Muto, Y Yoshimura, H Wu… - bioRxiv, 2022 - biorxiv.org
Chronic disease processes are marked by cell-specific transcriptomic and epigenomic
changes. Single nucleus joint RNA-and ATAC-seq offers an opportunity to study the gene …

Integration of spatial and single-cell data across modalities with weak linkage

S Chen, B Zhu, S Huang, JW Hickey, KZ Lin, M Snyder… - bioRxiv, 2023 - biorxiv.org
Abstract single-cell sequencing methods have enabled the profiling of multiple types of
molecular readouts at cellular resolution, and recent developments in spatial barcoding, in …

Predictive Prioritization of Enhancers Associated with Pancreas Disease Risk

L Wang, S Baek, G Prasad, J Wildenthal, K Guo… - bioRxiv, 2024 - biorxiv.org
Genetic and epigenetic variations in regulatory enhancer elements increase susceptibility to
a range of pathologies. Despite recent advances, linking enhancer elements to target genes …

[HTML][HTML] Homocysteine accelerates hepatocyte autophagy by upregulating TFEB via DNMT3b-mediated DNA hypomethylation: TFEB accelerates autophagy of …

A Yang, W Zeng, H Zhang, Y Hao, Q Wang… - Acta biochimica et …, 2023 - ncbi.nlm.nih.gov
Autophagy plays a critical role in the physiology and pathophysiology of hepatocytes. High
level of homocysteine (Hcy) promotes autophagy in hepatocytes, but the underlying …

[HTML][HTML] Mini-review: Gene regulatory network benefits from three-dimensional chromatin conformation and structural biology

X Zhu, Q Huang, J Luo, D Kong, Y Zhang - Computational and Structural …, 2023 - Elsevier
Gene regulatory networks are now at the forefront of precision biology, which can help
researchers better understand how genes and regulatory elements interact to control …

Epigenomic insights into common human disease pathology

CG Bell - Cellular and Molecular Life Sciences, 2024 - Springer
The epigenome—the chemical modifications and chromatin-related packaging of the
genome—enables the same genetic template to be activated or repressed in different …

Evolution of plant cell-type-specific cis-regulatory elements

H Yan, JP Mendieta, X Zhang, AP Marand, Y Liang… - bioRxiv, 2024 - biorxiv.org
Cis-regulatory elements (CREs) are critical in coordinating the regulation of gene
expression. Understanding how CREs evolve represents a challenging endeavor. Here, we …

Tackling neurodegeneration in vitro with omics: a path towards new targets and drugs

C Carraro, JV Montgomery, J Klimmt… - Frontiers in molecular …, 2024 - frontiersin.org
Drug discovery is a generally inefficient and capital-intensive process. For
neurodegenerative diseases (NDDs), the development of novel therapeutics is particularly …