Single-cell and bulk transcriptomics of the liver reveals potential targets of NASH with fibrosis

ZY Wang, A Keogh, A Waldt, R Cuttat, M Neri, S Zhu… - Scientific reports, 2021 - nature.com
Fibrosis is characterized by the excessive production of collagen and other extracellular
matrix (ECM) components and represents a leading cause of morbidity and mortality …

How does the structure of data impact cell–cell similarity? Evaluating how structural properties influence the performance of proximity metrics in single cell RNA-seq …

ER Watson, A Mora, A Taherian Fard… - Briefings in …, 2022 - academic.oup.com
Accurately identifying cell-populations is paramount to the quality of downstream analyses
and overall interpretations of single-cell RNA-seq (scRNA-seq) datasets but remains a …

Internal checkpoint regulates T cell neoantigen reactivity and susceptibility to PD1 blockade

DC Palmer, BR Webber, Y Patel, MJ Johnson… - Med, 2022 - cell.com
Background Adoptive transfer of tumor-infiltrating lymphocytes (TIL) fails to consistently elicit
tumor rejection. Manipulation of intrinsic factors that inhibit T cell effector function and …

scLink: inferring sparse gene co-expression networks from single-cell expression data

WV Li, Y Li - Genomics, Proteomics and Bioinformatics, 2021 - academic.oup.com
A system-level understanding of the regulation and coordination mechanisms of gene
expression is essential for studying the complexity of biological processes in health and …

Toward modeling context-specific EMT regulatory networks using temporal single cell RNA-Seq data

D Ramirez, V Kohar, M Lu - Frontiers in molecular biosciences, 2020 - frontiersin.org
Epithelial-mesenchymal transition (EMT) is well established as playing a crucial role in
cancer progression and being a potential therapeutic target. To elucidate the gene …

Ribonuclease inhibitor and angiogenin system regulates cell type–specific global translation

M Stillinovic, MA Sarangdhar, N Andina, A Tardivel… - Science …, 2024 - science.org
Translation of mRNAs is a fundamental process that occurs in all cell types of multicellular
organisms. Conventionally, it has been considered a default step in gene expression …

Synergistic effect of the TLR5 agonist CBLB502 and its downstream effector IL-22 against liver injury

N Melin, D Sánchez-Taltavull, R Fahrner, A Keogh… - Cell death & …, 2021 - nature.com
The toll-like receptor 5 (TLR5) agonist, CBLB502/Entolimod, is a peptide derived from
bacterial flagellin and has been shown to protect against radiation-induced tissue damage …

Vitamin D deficiency during development permanently alters liver cell composition and function

K Lundy, JF Greally, G Essilfie-Bondzie… - Frontiers in …, 2022 - frontiersin.org
Vitamin D, a fat-soluble vitamin, plays a critical role in calcium homeostasis, the immune
system, and normal development. Many epidemiological cohort studies globally have found …

[HTML][HTML] Loss of claudin-3 impairs hepatic metabolism, biliary barrier function, and cell proliferation in the murine liver

FA Baier, D Sánchez-Taltavull, T Yarahmadov… - Cellular and molecular …, 2021 - Elsevier
Background & Aims Tight junctions in the liver are essential to maintain the blood-biliary
barrier, however, the functional contribution of individual tight junction proteins to barrier and …

Pan-glioma analyses reveal species-and tumor-specific regulation of neuron-glioma synapse genes by lncRNAs

W **ong, X Zhang, B Peng, H Zhu, L Huang… - Frontiers in …, 2023 - frontiersin.org
Gliomas are highly heterogeneous and aggressive. Malignant cells in gliomas can contact
normal neurons through a synapse-like structure (called neuron-to-glioma synapse, NGS) to …