Single-Cell RNA Sequencing
The Applied Bioinformatics Laboratories perform single-cell RNA sequencing (RNA-seq) services. Single-cell RNA-seq is a genomic approach for the quantitative analysis of mRNA levels at a single cell resolution, allowing for transcriptome analysis of individual cells. This enables the evaluation of the level of heterogeneity within a single population or identification of rare subpopulations. It can also reveal co-expressed genes and uncover co-regulated gene modules.
Request a Single-Cell RNA-Seq Service
To request this service from us, please provide the following:
- a sample sheet with the corresponding conditions for the samples
- the organism(s) of the particular study
- the link to the generated FASTQ data (obtained from NYU Langone’s Genome Technology Center or another sequencing facility)
You receive the following from us:
- a comprehensive report
- quality assessment (alignment rates, average number of genes, and transcripts)
- visualization using t-SNE plots
- clustering (unbiased classification of cells based on gene expression)
- identification of cluster biomarkers
- normalized expression values for all genes across all cells and clusters
Additional or Customized Analyses
We also provide the following analyses:
- heatmaps for specific gene signatures
- differential expression between different sample groups
- cell differentiation/development trajectories
Each of these may be subject to an additional charge.
Below you can find links to the computational pipelines that we typically use for our analyses:
The following select publication has used our analyses:
- Tikhonova AN, Dolgalev I, Hu H, Sivaraj KK, Hoxha E, Cuesta-Dominguez A, et al. The bone marrow microenvironment at single-cell resolution. Nature. 2019.