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Single-cell sequencing examines the nucleic acid sequence information from individual cells with optimized next-generation sequencing technologies, providing a higher resolution of cellular differences and a better understanding of the function of an individual cell in the context of its microenvironment. [1]
scLVM [117] scLVM is a modelling framework for single-cell RNA-seq data that can be used to dissect the observed heterogeneity into different sources, thereby allowing for the correction of confounding sources of variation. scM&T-Seq Parallel single-cell sequencing.
Detecting differences in gene expression level between two populations is used both single-cell and bulk transcriptomic data. Specialised methods have been designed for single-cell data that considers single cell features such as technical dropouts and shape of the distribution e.g. Bimodal vs. unimodal. [23]
Single-cell RNA sequencing (scRNA-Seq) provides the expression profiles of individual cells. Although it is not possible to obtain complete information on every RNA expressed by each cell, due to the small amount of material available, patterns of gene expression can be identified through gene clustering analyses .
Deconvolution of bulk sequencing experiments using single cell data Reference based Gene expression 2016 MuSiC [18] Cell-type Identification by estimating relative subsets of RNA transcripts Reference based Gene expression 2019 SCDC [30] Bulk gene expression deconvolution by multiple single-Cell RNA sequencing references Reference based
This single cell shows the process of the central dogma of molecular biology, which are all steps researchers are interested to quantify (DNA, RNA, and Protein).. In cell biology, single-cell analysis and subcellular analysis [1] refer to the study of genomics, transcriptomics, proteomics, metabolomics, and cell–cell interactions at the level of an individual cell, as opposed to more ...
Specialised to accommodate the homo-polymer sequencing errors typical of Roche 454 sequencers. CLC genomics workbench [125] 2008 2014 High, multi-thread, low RAM requirement Has a graphical user interface, can combine diverse sequencing technologies, has no transcriptome-specific features, and a licence must be purchased before use. SPAdes [126 ...
Single-cell micrococcal nuclease sequencing (scMNase-seq) is a novel technique that is used to analyze nucleosome positioning and to infer chromatin accessibility with the use of only a single-cell input. [51] First, cells are sorted into single aliquots using fluorescence-activated cell sorting (FACS). [51]