Single-cell RNA-Seq Gaining Steam

rna-seq Can single-cell RNA sequencing crack the mystery of cells? (7/25/2017) - There is a rapid increase of evidence to address the importance of the interaction between single cells, drugs, and the response of single cells to therapies. Single-cell measurements were used to evaluate the DNA-damaging ability of the herbicide in freshly isolated human leukocytes or the ethoxyresorufin-O-deethylase activity of cytochrome P450 1A1 in single-living cells with ...
rna-seq Miniaturization and Automation of Single Cell RNAseq Library Preparation (7/21/2017) - SLAS 2017 Webinar, presented by Dr. Louise Laurent, MD, PhD, Associate Professor, University of California, San Diego: “Miniaturization and Automation of Single Cell RNAseq Library Preparation” In this tutorial, Dr. Laurent presents data published in the Journal of Laboratory Automation, to demonstrate how low-cost Nextera XT libraries can be prepared accurately in as little as ...
zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs (7/13/2017) - The recent development of sensitive protocols allows to generate RNA-seq libraries of single cells. The throughput of such scRNA-seq protocols is rapidly increasing, enabling the profiling of tens of thousands of cells and opening exciting possibilities to analyse cellular identities. In this context, unique molecular identifiers (UMIs) are used to reduce amplification noise and sample-specific ...
rna-seq Quartz-Seq2 – a high-throughput single-cell RNA-sequencing method that effectively uses limited sequence reads (7/12/2017) - High-throughput single-cell RNA-seq methods assign limited unique molecular identifier (UMI) counts as gene expression values to single cells from shallow sequence reads and detect limited gene counts. Researchers from the RIKEN Institute thus developed a high-throughput single-cell RNA-seq method, Quartz-Seq2, to overcome these issues. Their improvements in several of the reaction steps of Quartz-Seq2 allow ...
BRIE – transcriptome-wide splicing quantification in single cells (7/3/2017) - Single-cell RNA-seq (scRNA-seq) provides a comprehensive measurement of stochasticity in transcription, but the limitations of the technology have prevented its application to dissect variability in RNA processing events such as splicing. Here, University of Edinburgh researchers present BRIE (Bayesian regression for isoform estimation), a Bayesian hierarchical model that resolves these problems by learning an informative ...
rna-seq RNA-Seq reveals the multilineage communication that regulates human liver bud development from pluripotency (6/20/2017) - Conventional two-dimensional differentiation from pluripotency fails to recapitulate cell interactions occurring during organogenesis. Three-dimensional organoids generate complex organ-like tissues; however, it is unclear how heterotypic interactions affect lineage identity. Here researchers from the Max Planck Institute for Evolutionary Anthropology use single-cell RNA sequencing to reconstruct hepatocyte-like lineage progression from pluripotency in two-dimensional culture. They then ...
rna-seq Featured RNA-Seq Job – Molecular Biologist Single Cell RNA-sequencing (6/19/2017) - Target Validation- Single Cell RNA sequencing Immunocore Limited, just south of Oxford, UK, is an innovative and dynamic biotechnology company developing a unique platform of T Cell antigen receptor-based therapeutics, called ImmTACs, as a novel class of treatments for cancer. Due to continuing rapid expansion, we are seeking to recruit enthusiastic and talented individuals to ...
rna-seq Single-Cell RNA-Sequencing: Assessment of Differential Expression Analysis Methods (6/9/2017) - The sequencing of the transcriptomes of single-cells, or single-cell RNA-sequencing, has now become the dominant technology for the identification of novel cell types and for the study of stochastic gene expression. In recent years, various tools for analyzing single-cell RNA-sequencing data have been proposed, many of them with the purpose of performing differentially expression analysis. ...
rna-seq SCENT – Single-cell entropy for accurate estimation of differentiation potency from a cell’s transcriptome (6/2/2017) - The ability to quantify differentiation potential of single cells is a task of critical importance. Here researchers from the University College London demonstrate, using over 7,000 single-cell RNA-Seq profiles, that differentiation potency of a single cell can be approximated by computing the signalling promiscuity, or entropy, of a cell’s transcriptome in the context of an ...
rna-seq Prior Knowledge And Sampling Model Informed Learning With Single Cell RNA-Seq Data (6/1/2017) - Single cell RNA-seq (scRNA-seq) experiments can provide a wealth of information about heterogeneous, multi-cellular systems. However, this information has to be inferred computationally from sequencing reads which constitute a sparse and noisy sub-sampling of the actual cellular transcriptomes. Here, University of Washington researchers present UNCURL, a unified framework for scRNA-seq data visualization, cell type identification ...

A slew of recent high profile papers and upcoming conferences highlight the growing interest in single-cell transcriptomics.