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Genome (DNA) sequencing. Single-cell DNA genome sequencing involves isolating a single cell, amplifying the whole genome or region of interest, constructing sequencing libraries, and then applying next-generation DNA sequencing (for example Illumina, Ion Torrent). Single-cell DNA sequencing has been widely applied in mammalian systems to study ...
As a result of the aforementioned properties of single-cell transcriptomic data, batch correction methods developed for bulk sequencing data were observed to perform poorly. Consequently, researchers developed statistical methods to correct for batch effects that are robust to the properties of single-cell transcriptomic data to integrate data ...
TCR sequencing can be performed in on pooled cell populations (“bulk sequencing”) or single cells (“single cell sequencing”). [4] Bulk sequencing is useful to explore entire TCR repertoires - all the TCRs within an individual or a sample - and to generate comparisons between repertoires of different individuals. [4] This method can ...
A branch of the field of multiomics is the analysis of multilevel single-cell data, called single-cell multiomics. [8] [9] This approach gives us an unprecedent resolution to look at multilevel transitions in health and disease at the single cell level. An advantage in relation to bulk analysis is to mitigate confounding factors derived from ...
CITE-Seq. CITE-Seq (C ellular I ndexing of T ranscriptomes and E pitopes by Seq uencing) is a method for performing RNA sequencing along with gaining quantitative and qualitative information on surface proteins with available antibodies on a single cell level. [1] So far, the method has been demonstrated to work with only a few proteins per cell.
There are two major applications to studying the genome at the single-cell level. One application is to track the changes that occur in bacterial populations, where phenotypic differences are often seen. These differences are easily missed by bulk sequencing of a population, but can be observed in single-cell sequencing. [30]
snRNA-seq, also known as single nucleus RNA sequencing, single nuclei RNA sequencing or sNuc-seq, is an RNA sequencing method for profiling gene expression in cells which are difficult to isolate, such as those from tissues that are archived or which are hard to be dissociated. It is an alternative to single cell RNA seq (scRNA-seq), as it ...
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] 2012 2017 High, multi-thread, low RAM requirement Used for transcriptomics experiments on single cells. RSEM [127] 2011 2017 High, multi-thread, low RAM requirement
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