Single nucleus multiomics identifies ZEB1 and MAFB as candidate regulators of Alzheimer's disease-specific cis-regulatory elements

AG Anderson, BB Rogers, JM Loupe… - Cell Genomics, 2023 - cell.com
Cell type-specific transcriptional differences between brain tissues from donors with
Alzheimer's disease (AD) and unaffected controls have been well documented, but few …

A single-cell multimodal view on gene regulatory network inference from transcriptomics and chromatin accessibility data

JU Loers, V Vermeirssen - Briefings in Bioinformatics, 2024 - academic.oup.com
Eukaryotic gene regulation is a combinatorial, dynamic, and quantitative process that plays
a vital role in development and disease and can be modeled at a systems level in gene …

The DEAD-box helicase Hlc regulates basal transcription and chromatin opening of stress-responsive genes

R Jia, J Lin, J You, S Li, G Shan… - Nucleic Acids …, 2022 - academic.oup.com
Stress-responsive genes are lowly transcribed under normal conditions and robustly
induced in response to stress. The significant difference between basal and induced …

Early-life stress and ovarian hormones alter transcriptional regulation in the nucleus accumbens resulting in sex-specific responses to cocaine

D Rocks, I Jaric, F Bellia, H Cham, JM Greally… - Cell reports, 2023 - cell.com
Early-life stress and ovarian hormones contribute to increased female vulnerability to
cocaine addiction. Here, we reveal molecular substrates in the reward area, the nucleus …

Loss of the accessory chromosome converts a pathogenic tree-root fungus into a mutualistic endophyte

H Wei, Z Zhong, Z Li, Y Zhang, EH Stukenbrock… - Plant …, 2024 - cell.com
Some fungal accessory chromosomes (ACs) may contribute to virulence in plants. However,
the mechanisms by which ACs determine specific traits associated with lifestyle transitions …

Chromatin accessibility and transcriptional landscape in PK-15 cells during early exposure to Aflatoxin B1

C Li, X Liu, J Liu, X Zhang, J Wu, X Ji, H Niu… - … and Biophysical Research …, 2024 - Elsevier
Abstract Aflatoxin B 1 (AFB 1) not only causes significant losses in livestock production but
also poses a serious threat to human health. It is the most carcinogenic among known …

Systematic Multi-Omics Investigation of Androgen Receptor Driven Gene Expression and Epigenetics changes in Prostate Cancer

L Li, KH Cho, X Yu, S Cheng - bioRxiv, 2024 - pmc.ncbi.nlm.nih.gov
Background: Prostate cancer, a common malignancy, is driven by androgen receptor (AR)
signaling. Understanding the function of AR signaling is critical for prostate cancer research …

Ancestry‐related differences in chromatin accessibility and gene expression of APOE ε4 are associated with Alzheimer's disease risk

K Celis, MDMM Moreno, F Rajabli… - Alzheimer's & …, 2023 - Wiley Online Library
Introduction European local ancestry (ELA) surrounding apolipoprotein E (APOE) ε4 confers
higher risk for Alzheimer's disease (AD) compared to African local ancestry (ALA). We …

Single-cell ATAC sequencing identifies sleepy macrophages during reciprocity of cytokines in L. major infection

S Khandibharad, S Singh - Microbiology Spectrum, 2024 - Am Soc Microbiol
The hallmark characteristic of macrophages lies in their inherent plasticity, allowing them to
adapt to dynamic microenvironments. Leishmania strategically modulates the phenotypic …

Ancestry-related differences in chromatin accessibility and gene expression of APOE4 are associated with Alzheimer disease risk

K Celis, MDM Muniz Moreno, F Rajabli, P Whitehead… - bioRxiv, 2022 - biorxiv.org
Background European local ancestry (ELA) surrounding APOE4 is associated with a higher
risk for Alzheimer Disease (AD) compared to African local ancestry (ALA). We previously …