[HTML][HTML] Microglia states and nomenclature: A field at its crossroads

RC Paolicelli, A Sierra, B Stevens, ME Tremblay… - Neuron, 2022 - cell.com
Microglial research has advanced considerably in recent decades yet has been constrained
by a rolling series of dichotomies such as" resting versus activated" and" M1 versus M2." …

Methods and applications for single-cell and spatial multi-omics

K Vandereyken, A Sifrim, B Thienpont… - Nature Reviews Genetics, 2023 - nature.com
The joint analysis of the genome, epigenome, transcriptome, proteome and/or metabolome
from single cells is transforming our understanding of cell biology in health and disease. In …

Single‐cell RNA sequencing technologies and applications: A brief overview

D Jovic, X Liang, H Zeng, L Lin, F Xu… - Clinical and …, 2022 - Wiley Online Library
Single‐cell RNA sequencing (scRNA‐seq) technology has become the state‐of‐the‐art
approach for unravelling the heterogeneity and complexity of RNA transcripts within …

Live-seq enables temporal transcriptomic recording of single cells

W Chen, O Guillaume-Gentil, PY Rainer, CG Gäbelein… - Nature, 2022 - nature.com
Single-cell transcriptomics (scRNA-seq) has greatly advanced our ability to characterize
cellular heterogeneity. However, scRNA-seq requires lysing cells, which impedes further …

Applications of single-cell sequencing in cancer research: progress and perspectives

Y Lei, R Tang, J Xu, W Wang, B Zhang, J Liu… - Journal of hematology & …, 2021 - Springer
Single-cell sequencing, including genomics, transcriptomics, epigenomics, proteomics and
metabolomics sequencing, is a powerful tool to decipher the cellular and molecular …

High-throughput and single-cell T cell receptor sequencing technologies

JA Pai, AT Satpathy - Nature methods, 2021 - nature.com
T cells express T cell receptors (TCRs) composed of somatically recombined TCRα and
TCRβ chains, which mediate recognition of major histocompatibility complex (MHC)–antigen …

Integrating microarray-based spatial transcriptomics and single-cell RNA-seq reveals tissue architecture in pancreatic ductal adenocarcinomas

R Moncada, D Barkley, F Wagner, M Chiodin… - Nature …, 2020 - nature.com
Single-cell RNA sequencing (scRNA-seq) enables the systematic identification of cell
populations in a tissue, but characterizing their spatial organization remains challenging. We …

Single-cell RNA-seq technologies and related computational data analysis

G Chen, B Ning, T Shi - Frontiers in genetics, 2019 - frontiersin.org
Single-cell RNA sequencing (scRNA-seq) technologies allow the dissection of gene
expression at single-cell resolution, which greatly revolutionizes transcriptomic studies. A …

Ensemble deep learning in bioinformatics

Y Cao, TA Geddes, JYH Yang, P Yang - Nature Machine Intelligence, 2020 - nature.com
The remarkable flexibility and adaptability of ensemble methods and deep learning models
have led to the proliferation of their application in bioinformatics research. Traditionally …

Single‐cell RNA sequencing in cancer research

Y Zhang, D Wang, M Peng, L Tang, J Ouyang… - Journal of Experimental …, 2021 - Springer
Single-cell RNA sequencing (scRNA-seq), a technology that analyzes transcriptomes of
complex tissues at single-cell levels, can identify differential gene expression and epigenetic …