Methods for characterisation of individual cells using a wide range of solutions.
NOTE! From October 1st 2024, all single-cell projects are ordered through the Single-cell library preparation and sequencing order form at the NGI order portal.
Bulk RNA transcriptomic methods have become very popular and give access to basic gene expression (GE) data on eg. whole tissues. However, any tissue is going to be composed of multiple cell types, and cells with a somewhat different agenda. To really dissect gene expression signals at the cellular level, one will need to look at gene expression at the single cell level.
A number of different methods for single cell expression analysis are available, each with their own advantages and disadvantages. The data you get out may be from the full transcript (eg. Smart-seq) or the 5’ or 3’ ends only (eg. 10X), the platform may be optimised for deep info from each cell (eg. Smart-seq) or for getting you data from the largest possible number of cells (eg. 10X). You may also be happy with standard 10X 3’ GE data, or you may wish to combine it with other “omics” (eg 10X ATACseq, cell surface markers, etc). Finally, the sequencing depth and the optimal scale to plan for - these will depend on what you are after.
NGI currently offers single-cell sequencing using the plate-based Smart-seq3 and droplet-based 10X Genomics platforms, but we are also continually evaluating new methods and protocols.
Profiling of gene expression levels at single-cell resolution.
library preparation transcriptomics single cell illumina rnaseq smartseq3 SS3 single-cellSingle-cell profiling of gene expression levels on a large number of cells.
library preparation transcriptomics single cell RNA mRNA illumina RNA-Seq scaleSingle-cell profiling of gene expression levels on fixed cells.
RNA-Seq chromium 10x Genomics fixed cells library preparation transcriptomics single cell RNA mRNA illuminaProfiling of gene expression levels at single-cell resolution.
single cell RNA mRNA illumina RNA-Seq chromium 10x Genomics library preparation transcriptomicsProfiling of chromatin accessibility at the single cell level.
single cell illumina ATAC-seq dna chromium chromatin 10x Genomics ATAC library preparation epigeneticsProfiling of 3´gene expression and chromatin accessibility in the same cell.
RNA-Seq ATAC chromium library preparation 10x Genomics transcriptomics single cell RNA mRNA illumina ATAC-seqCombining short & long reads at the single cell level.
single cell long-read illumina ont chromium 10x Genomics full transcript library preparation