Methods and applications for single-cell and spatial multi-omics
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 …
from single cells is transforming our understanding of cell biology in health and disease. In …
Current best practices in single‐cell RNA‐seq analysis: a tutorial
MD Luecken, FJ Theis - Molecular systems biology, 2019 - embopress.org
Single‐cell RNA‐seq has enabled gene expression to be studied at an unprecedented
resolution. The promise of this technology is attracting a growing user base for single‐cell …
resolution. The promise of this technology is attracting a growing user base for single‐cell …
An integrated cell atlas of the lung in health and disease
Single-cell technologies have transformed our understanding of human tissues. Yet, studies
typically capture only a limited number of donors and disagree on cell type definitions …
typically capture only a limited number of donors and disagree on cell type definitions …
Cross-tissue immune cell analysis reveals tissue-specific features in humans
C Domínguez Conde, C Xu, LB Jarvis, DB Rainbow… - Science, 2022 - science.org
Despite their crucial role in health and disease, our knowledge of immune cells within
human tissues remains limited. We surveyed the immune compartment of 16 tissues from 12 …
human tissues remains limited. We surveyed the immune compartment of 16 tissues from 12 …
[HTML][HTML] Comprehensive integration of single-cell data
Single-cell transcriptomics has transformed our ability to characterize cell states, but deep
biological understanding requires more than a taxonomic listing of clusters. As new methods …
biological understanding requires more than a taxonomic listing of clusters. As new methods …
Fast, sensitive and accurate integration of single-cell data with Harmony
The emerging diversity of single-cell RNA-seq datasets allows for the full transcriptional
characterization of cell types across a wide variety of biological and clinical conditions …
characterization of cell types across a wide variety of biological and clinical conditions …
Single-cell multi-omics analysis of the immune response in COVID-19
Abstract Analysis of human blood immune cells provides insights into the coordinated
response to viral infections such as severe acute respiratory syndrome coronavirus 2, which …
response to viral infections such as severe acute respiratory syndrome coronavirus 2, which …
Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors
Large-scale single-cell RNA sequencing (scRNA-seq) data sets that are produced in
different laboratories and at different times contain batch effects that may compromise the …
different laboratories and at different times contain batch effects that may compromise the …
A benchmark of batch-effect correction methods for single-cell RNA sequencing data
Background Large-scale single-cell transcriptomic datasets generated using different
technologies contain batch-specific systematic variations that present a challenge to batch …
technologies contain batch-specific systematic variations that present a challenge to batch …
Challenges in unsupervised clustering of single-cell RNA-seq data
Single-cell RNA sequencing (scRNA-seq) allows researchers to collect large catalogues
detailing the transcriptomes of individual cells. Unsupervised clustering is of central …
detailing the transcriptomes of individual cells. Unsupervised clustering is of central …