[HTML][HTML] A single-cell atlas of entorhinal cortex from individuals with Alzheimer's disease reveals cell-type-specific gene expression regulation

A Grubman, G Chew, JF Ouyang, G Sun, XY Choo… - Nature …, 2019 - nature.com
There is currently little information available about how individual cell types contribute to
Alzheimer's disease. Here we applied single-nucleus RNA sequencing to entorhinal cortex …

[HTML][HTML] Network-based approaches for modeling disease regulation and progression

G Galindez, S Sadegh, J Baumbach… - Computational and …, 2023 - Elsevier
Molecular interaction networks lay the foundation for studying how biological functions are
controlled by the complex interplay of genes and proteins. Investigating perturbed processes …

Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation

RJ Miragaia, T Gomes, A Chomka, L Jardine, A Riedel… - Immunity, 2019 - cell.com
Non-lymphoid tissues (NLTs) harbor a pool of adaptive immune cells with largely
unexplored phenotype and development. We used single-cell RNA-seq to characterize …

[HTML][HTML] Differential gene regulatory networks in development and disease

AJ Singh, SA Ramsey, TM Filtz, C Kioussi - Cellular and Molecular Life …, 2018 - Springer
Gene regulatory networks, in which differential expression of regulator genes induce
differential expression of their target genes, underlie diverse biological processes such as …

[HTML][HTML] Altered mycobiota signatures and enriched pathogenic Aspergillus rambellii are associated with colorectal cancer based on multicohort fecal metagenomic …

Y Lin, HCH Lau, Y Liu, X Kang, Y Wang, NLN Ting… - Gastroenterology, 2022 - Elsevier
Background & Aims The enteric mycobiota is a major component of the human gut
microbiota, but its role in colorectal cancer (CRC) remains largely elusive. We conducted a …

Single-nucleus RNA-seq identifies Huntington disease astrocyte states

O Al-Dalahmah, AA Sosunov, A Shaik, K Ofori… - Acta neuropathologica …, 2020 - Springer
Huntington Disease (HD) is an inherited movement disorder caused by expanded CAG
repeats in the Huntingtin gene. We have used single nucleus RNASeq (snRNASeq) to …

Commensal microbiota modulate gene expression in the skin

JS Meisel, G Sfyroera, C Bartow-McKenney, C Gimblet… - Microbiome, 2018 - Springer
Background The skin harbors complex communities of resident microorganisms, yet little is
known of their physiological roles and the molecular mechanisms that mediate cutaneous …

Immune checkpoint blockade sensitivity and progression-free survival associates with baseline CD8+ T cell clone size and cytotoxicity

RA Watson, O Tong, R Cooper, CA Taylor… - Science …, 2021 - science.org
The antitumor action of immune checkpoint blockade (ICB) is primarily mediated by CD8+ T
cells. How sensitivity to ICB varies across CD8+ T cell subsets and clonotypes and the …

[HTML][HTML] C. difficile exploits a host metabolite produced during toxin-mediated disease

KM Pruss, JL Sonnenburg - Nature, 2021 - nature.com
Several enteric pathogens can gain specific metabolic advantages over other members of
the microbiota by inducing host pathology and inflammation. The pathogen Clostridium …

Systematic profiling of the chicken gut microbiome reveals dietary supplementation with antibiotics alters expression of multiple microbial pathways with minimal …

A Zou, K Nadeau, X Xiong, PW Wang, JK Copeland… - Microbiome, 2022 - Springer
Background The emergence of antimicrobial resistance is a major threat to global health
and has placed pressure on the livestock industry to eliminate the use of antibiotic growth …