CSHL Single Cell Biology Core

10X Genomics Single Cell Flex (Fixed RNA Profiling)

• Up to 128,000 cells per lane across up to 16 samples

• Probe-based RNA profiling

• Batch together samples collected and fixed at different times or from FFPE tissue blocks.

• Lowest cost per sample

10X Genomics Single Cell 3’ Gene Expression

• 2,000-20,000 cells per lane

• Oligo-d(T) primed, 3'-biased digital gene expression

• Best option for pure expression profiling

Add-ons: 

• CITE-Seq / Feature Barcoding

• CRISPR guide capture

• Cell Hashing / CellPlex multiplexing

10X Genomics Single Cell 5' Gene Expression

Enables Single Cell Immune Profiling:

• Paired TCR alpha- and beta chain V(DJ) sequencing

• Paired BCR heavy and light chain V(DJ) sequencing

• Combined Immune Profiling 5’-Gene Expression

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BEAM: (Bar-Enabled) Antigen Mapping

• Identify B- or T-cell clones binding to a labeled antigen

10X Genomics Single Cell ATAC-seq

• Genome-wide Chromatin Accessibility in single cells

• 2,000-8,000 cells per lane

• Promoter / enhancer accessibility

• Motif enrichment / discovery

10X Genomics Multiome ATAC + Gene Expression

• 2,000-8,000 cells per lane

• Paired 3’ nuclear gene expression and chromatin accessibility from single cells

• Analyze relationships between regulatory motifs and gene expression in multiple lineages simultaneously

Plate Based 3’ Well Barcoded Low Input RNA-seq:

​Up to 96 Samples per library of well barcoded RNAseq 

You provide one of the following:

• 15 ul of purified RNA at 25 ng/ul or more per sample

• 96 well plate of cells frozen in lysis buffer 

We:​

• Perform Well-Barcoded RT reaction + cDNA pooling

• Sequence using the Illumina NextSeq platform

• Deliver FASTQs, BAM files, gene counts matrix

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