Integrating single-cell and spatial transcriptomics to elucidate intercellular tissue dynamics
Single-cell RNA sequencing (scRNA-seq) identifies cell subpopulations within tissue but
does not capture their spatial distribution nor reveal local networks of intercellular …
does not capture their spatial distribution nor reveal local networks of intercellular …
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 …
expression at single-cell resolution, which greatly revolutionizes transcriptomic studies. A …
Orchestrating single-cell analysis with Bioconductor
Recent technological advancements have enabled the profiling of a large number of
genome-wide features in individual cells. However, single-cell data present unique …
genome-wide features in individual cells. However, single-cell data present unique …
Feature selection and dimension reduction for single-cell RNA-Seq based on a multinomial model
Abstract Single-cell RNA-Seq (scRNA-Seq) profiles gene expression of individual cells.
Recent scRNA-Seq datasets have incorporated unique molecular identifiers (UMIs). Using …
Recent scRNA-Seq datasets have incorporated unique molecular identifiers (UMIs). Using …
[HTML][HTML] A systematic performance evaluation of clustering methods for single-cell RNA-seq data
A Duò, MD Robinson, C Soneson - F1000Research, 2018 - ncbi.nlm.nih.gov
Subpopulation identification, usually via some form of unsupervised clustering, is a
fundamental step in the analysis of many single-cell RNA-seq data sets. This has motivated …
fundamental step in the analysis of many single-cell RNA-seq data sets. This has motivated …
Single-cell RNA sequencing in cardiovascular development, disease and medicine
Advances in single-cell RNA sequencing (scRNA-seq) technologies in the past 10 years
have had a transformative effect on biomedical research, enabling the profiling and analysis …
have had a transformative effect on biomedical research, enabling the profiling and analysis …
Single-cell RNA sequencing analysis: a step-by-step overview
Thanks to innovative sample-preparation and sequencing technologies, gene expression in
individual cells can now be measured for thousands of cells in a single experiment. Since its …
individual cells can now be measured for thousands of cells in a single experiment. Since its …
Heterogeneity of human bone marrow and blood natural killer cells defined by single-cell transcriptome
C Yang, JR Siebert, R Burns, ZJ Gerbec… - Nature …, 2019 - nature.com
Natural killer (NK) cells are critical to both innate and adaptive immunity. However, the
development and heterogeneity of human NK cells are yet to be fully defined. Using single …
development and heterogeneity of human NK cells are yet to be fully defined. Using single …
Benchmarking clustering algorithms on estimating the number of cell types from single-cell RNA-sequencing data
Background A key task in single-cell RNA-seq (scRNA-seq) data analysis is to accurately
detect the number of cell types in the sample, which can be critical for downstream analyses …
detect the number of cell types in the sample, which can be critical for downstream analyses …
A systematic evaluation of single cell RNA-seq analysis pipelines
The recent rapid spread of single cell RNA sequencing (scRNA-seq) methods has created a
large variety of experimental and computational pipelines for which best practices have not …
large variety of experimental and computational pipelines for which best practices have not …