Abstract Systems biology has experienced dramatic growth in the number, size, and
complexity of computational models. To reproduce simulation results and reuse models, …

Single-cell RNA-seq enables the quantitative characterization of cell types based on global
transcriptome profiles. We present single-cell consensus clustering (SC3), a user-friendly …

Recent technical developments have enabled the transcriptomes of hundreds of cells to be
assayed in an unbiased manner, opening up the possibility that new subpopulations of cells …

Single-cell RNA sequencing (scRNA-seq) has become an established and powerful method
to investigate transcriptomic cell-to-cell variation, thereby revealing new cell types and …

Embryonic stem cell (ESC) culture conditions are important for maintaining long-term self-renewal,
and they influence cellular pluripotency state. Here, we report single cell RNA-…

The transcriptome of single cells can reveal important information about cellular states and
heterogeneity within populations of cells. Recently, single-cell RNA-sequencing has …

BioModels ( http://www.ebi.ac.uk/biomodels/ ) is a repository of mathematical models of
biological processes. A large set of models is curated to verify both correspondence to the …

The majority of human cancers evolve over time through the stepwise accumulation of
somatic mutations followed by clonal selection akin to Darwinian evolution. However, the in-depth …

Single-cell resolution analysis of complex biological tissues is fundamental to capture cell-state
heterogeneity and distinct cellular signaling patterns that remain obscured with …

Recent developments in stem cell biology have enabled the study of cell fate decisions in
early human development that are impossible to study in vivo. However, understanding how …