Single-cell transcriptome analysis in plants: advances and challenges

R Shaw, X Tian, J Xu - Molecular Plant, 2021 - cell.com
The rapid and enthusiastic adoption of single-cell RNA sequencing (scRNA-seq) has
demonstrated that this technology is far more than just another way to perform transcriptome …

Single‐cell analysis using droplet microfluidics

K Matuła, F Rivello, WTS Huck - Advanced Biosystems, 2020 - Wiley Online Library
Droplet microfluidics has revolutionized the study of single cells. The ability to
compartmentalize cells within picoliter droplets in microfluidic devices has opened up a wide …

[HTML][HTML] Chromatin potential identified by shared single-cell profiling of RNA and chromatin

S Ma, B Zhang, LM LaFave, AS Earl, Z Chiang, Y Hu… - Cell, 2020 - cell.com
Cell differentiation and function are regulated across multiple layers of gene regulation,
including modulation of gene expression by changes in chromatin accessibility. However …

The spatial and cell-type distribution of SARS-CoV-2 receptor ACE2 in the human and mouse brains

R Chen, K Wang, J Yu, D Howard, L French… - Frontiers in …, 2021 - frontiersin.org
By engaging angiotensin-converting enzyme 2 (ACE2 or Ace2), the novel pathogenic
severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) invades host cells and …

A comparison of automatic cell identification methods for single-cell RNA sequencing data

T Abdelaal, L Michielsen, D Cats, D Hoogduin, H Mei… - Genome biology, 2019 - Springer
Background Single-cell transcriptomics is rapidly advancing our understanding of the
cellular composition of complex tissues and organisms. A major limitation in most analysis …

[HTML][HTML] Single-cell profiles of retinal ganglion cells differing in resilience to injury reveal neuroprotective genes

NM Tran, K Shekhar, IE Whitney, A Jacobi, I Benhar… - Neuron, 2019 - cell.com
Neuronal types in the central nervous system differ dramatically in their resilience to injury or
other insults. Here we studied the selective resilience of mouse retinal ganglion cells …

Assessment of computational methods for the analysis of single-cell ATAC-seq data

H Chen, C Lareau, T Andreani, ME Vinyard, SP Garcia… - Genome biology, 2019 - Springer
Background Recent innovations in single-cell Assay for Transposase Accessible Chromatin
using sequencing (scATAC-seq) enable profiling of the epigenetic landscape of thousands …

Efficient and precise single-cell reference atlas mapping with Symphony

JB Kang, A Nathan, K Weinand, F Zhang… - Nature …, 2021 - nature.com
Recent advances in single-cell technologies and integration algorithms make it possible to
construct comprehensive reference atlases encompassing many donors, studies, disease …

Hybridization-based in situ sequencing (HybISS) for spatially resolved transcriptomics in human and mouse brain tissue

D Gyllborg, CM Langseth, X Qian, E Choi… - Nucleic acids …, 2020 - academic.oup.com
Visualization of the transcriptome in situ has proven to be a valuable tool in exploring single-
cell RNA-sequencing data, providing an additional spatial dimension to investigate …

Single-cell analyses of aging, inflammation and senescence

B Uyar, D Palmer, A Kowald, HM Escobar… - Ageing research …, 2020 - Elsevier
Single-cell gene expression (transcriptomics) data are becoming robust and abundant, and
are increasingly used to track organisms along their life-course. This allows investigation …