PRODUCT
Single Cell ATAC Pre-Indexing Kit
With the ScaleBioTM Single Cell ATAC Pre-Indexing Kit, process 300,000 nuclei per run with a significant cost reduction while maintaining high data quality.
Description
The ScaleBio Single Cell ATAC Pre-Indexing Kit enables the high-throughput processing of up to 300,000 nuclei per run using combinatorial indexing.
The upfront barcoding of isolated nuclei during tagmentation enables the superloading of existing droplet systems, enabling a 10-fold increase in throughput at a significant reduction in cost, without compromising on data quality.
Specifications
Throughput
300,000 nuclei per run
Recommended input
~50,000 nuclei/well (x24 wells)
Instrument compatibility
On-market single-cell droplet capture systems, such as the 10X Chromium controller
Single Cell ATAC Pre-Indexing Kit
This schematic shows an overview of the split-pool scheme for Single Cell ATAC Pre-Indexing Kit using ScaleBio. Nuclei are indexed during tagmentation and superloaded onto a droplet system, where an additional barcode is incorporated.
Single Cell ATAC Pre-Indexing Kit
The workflow is 1.5 hours with only 30 minutes of additional hands-on time, and enables superloading of on-market droplet systems.
Frequently asked questions
We provide a total of 24 indexes in our kit, which are incorporated during tagmentation. We typically recommend to load between 20,000-50,000 nuclei per well. You can run up to 24 samples (50,000 nuclei/sample), or, for more nuclei per sample, run fewer samples across the plate.
We do provide a demultiplexing software which can be used directly on the raw data files obtained from Illumina’s sequencers.
We have tested compatibility on MiSeq, iSeq, NextSeq 500/550, NextSeq 1000/2000, NovaSeq6000.
Even with a 10-fold increase in throughput, our combinatorial indexing method results in an effective doublet rate of ~4.7%.
In our protocol, we describe the use of the Single Cell ATAC Pre-Indexing Kit upstream of the Chromium Next GEM Single Cell ATAC Reagent Kit (1000175/1000176).
Single Cell ATAC Pre-Indexing Kit resources
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