Pseudoalignment tools as an efficient alternative to detect repeated transposable elements in scRNAseq data
Sign Up to like & getrecommendations! Published in 2022 at "Bioinformatics"
DOI: 10.1093/bioinformatics/btac737
Abstract: Abstract Motivation Transposable elements (TE) have played a major role in configuring the structures of mammalian genomes through evolution. In normal conditions, the expression of these elements is repressed by different epigenetic regulation mechanisms such… read more here.
Keywords: transposable elements; efficient alternative; pseudoalignment tools; expression ... See more keywords
Comparative analysis of differential gene expression analysis tools for single-cell RNA sequencing data
Sign Up to like & getrecommendations! Published in 2019 at "BMC Bioinformatics"
DOI: 10.1186/s12859-019-2599-6
Abstract: BackgroundThe analysis of single-cell RNA sequencing (scRNAseq) data plays an important role in understanding the intrinsic and extrinsic cellular processes in biological and biomedical research. One significant effort in this area is the detection of… read more here.
Keywords: differential gene; analysis; gene expression; expression analysis ... See more keywords
CIPR: a web-based R/shiny app and R package to annotate cell clusters in single cell RNA sequencing experiments
Sign Up to like & getrecommendations! Published in 2020 at "BMC Bioinformatics"
DOI: 10.1186/s12859-020-3538-2
Abstract: Background Single cell RNA sequencing (scRNAseq) has provided invaluable insights into cellular heterogeneity and functional states in health and disease. During the analysis of scRNAseq data, annotating the biological identity of cell clusters is an… read more here.
Keywords: single cell; cell clusters; cell rna; rna sequencing ... See more keywords