miQC: An adaptive probabilistic framework for quality control of single-cell RNA-sequencing data

Comprehensive molecular characterization of mitochondrial genomes in human cancers

(2020) Yuan Yuan et al.   NATURE GENETICS

Benchmarking single-cell RNA-sequencing protocols for cell atlas projects

(2020) Elisabetta Mereu et al.   NATURE BIOTECHNOLOGY

A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors

(2020) Michal Slyper et al.   NATURE MEDICINE

Single-cell transcriptomic atlas of the human endometrium during the menstrual cycle

(2020) Wanxin Wang et al.   NATURE MEDICINE

Single-Cell RNA-Seq Technologies and Related Computational Data Analysis

(2019) Geng Chen et al.   Frontiers in Genetics

Single-Cell RNA Sequencing in Cancer: Lessons Learned and Emerging Challenges

(2019) Mario L. Suvà et al.   MOLECULAR CELL

Current best practices in single‐cell RNA‐seq analysis: a tutorial

(2019) Malte D Luecken et al.   Molecular Systems Biology

DMSO cryopreservation is the method of choice to preserve cells for droplet-based single-cell RNA sequencing

(2019) Christian T. Wohnhaas et al.   Scientific Reports

Single-cell analysis uncovers that metabolic reprogramming by ErbB2 signaling is essential for cardiomyocyte proliferation in the regenerating heart

(2019) Hessel Honkoop et al.   eLife

Two novel lncRNAs discovered in human mitochondrial DNA using PacBio full-length transcriptome data

(2018) Shan Gao et al.   MITOCHONDRION

Using single‐cell genomics to understand developmental processes and cell fate decisions

(2018) Jonathan A Griffiths et al.   Molecular Systems Biology

T cell cytolytic capacity is independent of initial stimulation strength

(2018) Arianne C. Richard et al.   NATURE IMMUNOLOGY

Single-cell RNA sequencing of adult mouse testes

(2018) Soeren Lukassen et al.   Scientific Data

An Introduction to the Analysis of Single-Cell RNA-Sequencing Data

(2018) Aisha A. AlJanahi et al.   Molecular Therapy-Methods & Clinical Development

GENCODE reference annotation for the human and mouse genomes

(2018) Adam Frankish et al.   NUCLEIC ACIDS RESEARCH

Comparative Analysis of Single-Cell RNA Sequencing Methods

(2017) Christoph Ziegenhain et al.   MOLECULAR CELL

Massively parallel digital transcriptional profiling of single cells

(2017) Grace X. Y. Zheng et al.   Nature Communications

Mitochondrial respiratory gene expression is suppressed in many cancers

(2017) Ed Reznik et al.   eLife

Comprehensive Classification of Retinal Bipolar Neurons by Single-Cell Transcriptomics

(2016) Karthik Shekhar et al.   CELL

Single-cell transcriptomes identify human islet cell signatures and reveal cell-type–specific expression changes in type 2 diabetes

(2016) Nathan Lawlor et al.   GENOME RESEARCH

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets

(2015) Evan Z. Macosko et al.   CELL

Computational and analytical challenges in single-cell transcriptomics

(2015) Oliver Stegle et al.   NATURE REVIEWS GENETICS

Cell types in the mouse cortex and hippocampus revealed by single-cell RNA-seq

(2015) A. Zeisel et al.   SCIENCE

Deconstructing transcriptional heterogeneity in pluripotent stem cells

(2014) Roshan M. Kumar et al.   NATURE

Quantitative single-cell RNA-seq with unique molecular identifiers

(2013) Saiful Islam et al.   NATURE METHODS

Mitochondria: master regulators of danger signalling

(2012) Lorenzo Galluzzi et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

The Human Mitochondrial Transcriptome

(2011) Tim R. Mercer et al.   CELL

Tackling the widespread and critical impact of batch effects in high-throughput data

(2010) Jeffrey T. Leek et al.   NATURE REVIEWS GENETICS