Single-Cell RNA-Sequencing: Assessment of Differential Expression Analysis Methods

Discrete distributional differential expression (D3E) - a tool for gene expression analysis of single-cell RNA-seq data

(2016) Mihails Delmans et al.   BMC BIOINFORMATICS

Comparison of methods to detect differentially expressed genes between single-cell populations

(2016) Maria K. Jaakkola et al.   BRIEFINGS IN BIOINFORMATICS

Single-Cell Transcriptomics of the Human Endocrine Pancreas

(2016) Yue J. Wang et al.   DIABETES

Adult mouse cortical cell taxonomy revealed by single cell transcriptomics

(2016) Bosiljka Tasic et al.   NATURE NEUROSCIENCE

The Technology and Biology of Single-Cell RNA Sequencing

(2015) Aleksandra A. Kolodziejczyk et al.   MOLECULAR CELL

Single-cell transcriptome analysis reveals coordinated ectopic gene-expression patterns in medullary thymic epithelial cells

(2015) Philip Brennecke et al.   NATURE IMMUNOLOGY

Computational and analytical challenges in single-cell transcriptomics

(2015) Oliver Stegle et al.   NATURE REVIEWS GENETICS

ROTS: reproducible RNA-seq biomarker detector—prognostic markers for clear cell renal cell cancer

(2015) Fatemeh Seyednasrollah et al.   NUCLEIC ACIDS RESEARCH

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells

(2014) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Validation of noise models for single-cell transcriptomics

(2014) Dominic Grün et al.   NATURE METHODS

Bayesian approach to single-cell differential expression analysis

(2014) Peter V Kharchenko et al.   NATURE METHODS

Single-cell transcriptomics reveals bimodality in expression and splicing in immune cells

(2013) Alex K. Shalek et al.   NATURE

Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq

(2011) S. Islam et al.   GENOME RESEARCH

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Mouse Embryonic Stem Cell-Derived Spheres with Distinct Neurogenic Potentials

(2008) Annalena Moliner et al.   STEM CELLS AND DEVELOPMENT