New software tool allows researchers to rapidly search datasets from single-cell sequencing A new software tool allows researchers to quickly query datasets generated from single-cell sequencing...
Read More »New algorithm identifies ‘escaping’ cells in single-cell CRISPR screens
“Mixscape” tool helps researchers understand gene function and regulation A team of researchers from New York University and the New York Genome Center has developed a new computational tool to help understand the function and regulation of human genes. The ...
Read More »2passtools: two-pass alignment using machine-learning-filtered splice junctions increases the accuracy of intron detection in long-read RNA sequencing
Transcription of eukaryotic genomes involves complex alternative processing of RNAs. Sequencing of full-length RNAs using long reads reveals the...
Read More »DEBKS – a tool to detect differentially expressed circular RNA
Circular RNAs (circRNAs) are involved in various biological processes and disease pathogenesis. However, only a small number of functional circRNAs have been identified among hundreds of thousands of circRNA species, partly because most current...
Read More »Single-cell RNA and protein expression in relation to cell cycle progression
Today researchers within the Human Protein Atlas (HPA) publish a study of single-cell RNA and protein expression in relation to cell cycle progression in...
Read More »Evaluating capture sequence performance for single-cell CRISPR activation experiments
The combination of single-cell RNA sequencing with CRISPR inhibition/activation provides a high-throughput approach to simultaneously study the...
Read More »Single-cell mapper (scMappR) – using scRNA-seq to infer the cell-type specificities of differentially expressed genes
RNA sequencing (RNA-seq) is widely used to identify differentially expressed genes (DEGs) and reveal biological mechanisms underlying complex biological processes. RNA-seq is often performed on...
Read More »Simplified Drop-seq workflow with minimized bead loss using a bead capture and processing microfluidic chip
Single-cell RNA-sequencing (scRNA-seq) has revolutionized biomedical research by enabling the in-depth analysis of cell-to-cell heterogeneity of tissues with unprecedented resolution. One of the...
Read More »SUGAR-seq – simultaneous detection of glycans, epitopes, and the transcriptome in single cells
Multimodal single-cell RNA sequencing enables the precise mapping of transcriptional and phenotypic features of cellular differentiation states but does not allow for simultaneous integration of critical posttranslational modification data. Researchers from the Peter MacCallum Cancer Centre describe SUrface-protein Glycan And ...
Read More »TransPi – a comprehensive TRanscriptome ANalysiS PIpeline for de novo transcriptome assembly
The use of RNA-Seq data and the generation of de novo transcriptome assemblies have been pivotal for studies in ecology and evolution. This is distinctly true for non-model organisms, where no genome information is available; yet, studies of differential gene ...
Read More »