10x Genomics libraries contain P5 and P7 adapters, which can be used for Illumina sequencing. 10x Genomics assays can also be modified to enable sequencing on various long- and short-read sequencing platforms, with some platforms requiring third-party analysis tools. Some variation in assay performance is expected based on the sequencer choice.

The 10x Genomics Compatible Products page contains a list of sequencing platforms compatible with 10x Genomics libraries.

The number of cycles required for each sequencing read, and the recommended sequencing read depth, can be found in the Visium HD 3’ Spatial Gene Expression User Guide (CG000805).

The sequencers listed below have been verified as compatible with the indicated library type. Sequencer compatibility testing was performed either directly by 10x Genomics or by the Compatible Partner with data review by 10x Genomics.

Not all library types have been tested with every sequencer. For clarity, library types that have been tested are indicated below.

The Sequencing Handbook CG000809 contains additional resources for various 10x Genomics libraries, including:

• Number of cycles for each read & read depth
• Loading concentration recommendations
• Index combinations for low plex pools
• Library pooling compatibility

Compatible sequencers - short-read sequencing:

Illumina®

* Recommended loading concentrations and % PhiX are provided based on internal testing. These recommendations are suggested starting points and may need adjustments.

Compatible sequencers - long-read sequencing

Pacific Biosciences

Oxford Nanopore