Cataloging single-cell state papers

Experiments

Cao J. et al. 2017 Comprehensive single cell transcriptional profiling of a multicellular organism by combinatorial indexing bioRxiv. Issue. :x: Data
Moignard, V. et al. 2013. Characterization of transcriptional networks in blood stem and progenitor cells using high-throughput single-cell gene expression analysis. Nature Cell Biology. Issue. :white_check_mark: Data
Buganim et al. 2012 Single-Cell Expression Analyses during Cellular Reprogramming Reveal an Early Stochastic and a Late Hierarchic Phase. Cell. Issue. :x: Data
Islam S. et al. 2011 Characterization of the single-cell transcriptional landscape by highly multiplex RNA-seq Genome Research. Issue. :white_check_mark: Data :x: Source Code

Zwiessele, M. and Lawrence, N.D. 2016 Topslam: Waddington Landscape Recovery for Single Cell Experiments biorXiv. Issue. :white_check_mark: Source Code
Trapnel, C. et al. 2014 The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells Nature Biotech. Issue. :white_check_mark: Data :white_check_mark: Source Code

Moris, N. 2016. Transition states and cell fate decisions in epigenetic landscapes Nat Rev Gen. Issue
Trapnel, C. 2015. Defining cell types and states with single-cell genomics. Genome Research. Issue