Single cell sequencing using the 10X Chromium platform.
The 10X Genomics Chromium single cell gene expression protocols allow one to look at gene expression (GEX) in thousands of cells from each sample. The Chromium setup is based on a single cell/nucleus suspension being pushed through a channel, where it meets up with a 10X barcoded gel bead. This results in the formation of a unique GEM partition - an oil bubble where RT and cDNA synthesis is performed - and all cDNA from a particular GEM will share the same 10X barcodes. An Illumina-compatible library is made from the cDNA and sequencing is typically performed on the Illumina NextSeq or NovaSeq platforms.
– Single-cell/nuclei gene expression (GEX) analysis from 3′ or 5′ ends of transcripts.
– Probe-based single-cell gene expression (GEX) analysis on fixed cells.
– Immune receptor profiling at the single cell level, with/without matched 5′ end of transcript gene expression.
– Single-cell Crispr/Cas screening, with 3′ or 5′ gene expression.
– Single-nuclei chromatin accessibility (ATACseq) analysis, with optional 3’ gene expression.
– Matched single nuclei ATAC and 3’ gene expression from the same nuclei (multiome).
Single-cell profiling of gene expression levels on fixed cells
chromium 10x Genomics fixed cells library preparation transcriptomics single cell RNA mRNA illumina RNA-Seq(now available!) Profiling of gene expression levels at single-cell resolution.
illumina RNA-Seq chromium 10x Genomics library preparation transcriptomics single cell RNA mRNAProfiling of gene expression levels at single-cell resolution.
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