Redefining fundamental concepts of transcription initiation in bacteria

C Mejía-Almonte, SJW Busby, JT Wade… - Nature Reviews …, 2020 - nature.com
Despite enormous progress in understanding the fundamentals of bacterial gene regulation,
our knowledge remains limited when compared with the number of bacterial genomes and …

Data analysis guidelines for single-cell RNA-seq in biomedical studies and clinical applications

M Su, T Pan, QZ Chen, WW Zhou, Y Gong, G Xu… - Military Medical …, 2022 - Springer
The application of single-cell RNA sequencing (scRNA-seq) in biomedical research has
advanced our understanding of the pathogenesis of disease and provided valuable insights …

Single-cell and spatial analysis reveal interaction of FAP+ fibroblasts and SPP1+ macrophages in colorectal cancer

J Qi, H Sun, Y Zhang, Z Wang, Z Xun, Z Li… - Nature …, 2022 - nature.com
Colorectal cancer (CRC) is among the most common malignancies with limited treatments
other than surgery. The tumor microenvironment (TME) profiling enables the discovery of …

Single-cell RNA-seq reveals fibroblast heterogeneity and increased mesenchymal fibroblasts in human fibrotic skin diseases

CC Deng, YF Hu, DH Zhu, Q Cheng, JJ Gu… - Nature …, 2021 - nature.com
Fibrotic skin disease represents a major global healthcare burden, characterized by
fibroblast hyperproliferation and excessive accumulation of extracellular matrix. Fibroblasts …

Phosphorylated NFS1 weakens oxaliplatin-based chemosensitivity of colorectal cancer by preventing PANoptosis

JF Lin, PS Hu, YY Wang, YT Tan, K Yu, K Liao… - Signal transduction and …, 2022 - nature.com
Metabolic enzymes have an indispensable role in metabolic reprogramming, and their
aberrant expression or activity has been associated with chemosensitivity. Hence, targeting …

AnimalTFDB 4.0: a comprehensive animal transcription factor database updated with variation and expression annotations

WK Shen, SY Chen, ZQ Gan, YZ Zhang… - Nucleic acids …, 2023 - academic.oup.com
Transcription factors (TFs) are proteins that interact with specific DNA sequences to regulate
gene expression and play crucial roles in all kinds of biological processes. To keep up with …

Inferring and perturbing cell fate regulomes in human brain organoids

JS Fleck, SMJ Jansen, D Wollny, F Zenk, M Seimiya… - Nature, 2023 - nature.com
Self-organizing neural organoids grown from pluripotent stem cells,–combined with single-
cell genomic technologies provide opportunities to examine gene regulatory networks …

A cell atlas of human thymic development defines T cell repertoire formation

JE Park, RA Botting, C Domínguez Conde… - Science, 2020 - science.org
INTRODUCTION The thymus is the critical organ for T cell development and T cell receptor
(TCR) repertoire formation, which shapes the landscape of adaptive immunity. T cell …

Systematic reconstruction of cellular trajectories across mouse embryogenesis

C Qiu, J Cao, BK Martin, T Li, IC Welsh, S Srivatsan… - Nature …, 2022 - nature.com
Mammalian embryogenesis is characterized by rapid cellular proliferation and
diversification. Within a few weeks, a single-cell zygote gives rise to millions of cells …

A molecular cell atlas of the human lung from single-cell RNA sequencing

KJ Travaglini, AN Nabhan, L Penland, R Sinha… - Nature, 2020 - nature.com
Although single-cell RNA sequencing studies have begun to provide compendia of cell
expression profiles,,,,,,,–, it has been difficult to systematically identify and localize all …