Chromium Single Cell

The most versatile single cell toolkit

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Flex Apex

Plate-based multiplexing with Apex has transformed Flex, enabling unprecedented scale. And because it’s powered by Chromium automated cell partitioning, superior performance comes standard. The benefits of plates plus Apex:

  • Profile up to 384 samples in a 96-well format

  • Run partial plates today, save the rest for later

  • Streamline sample handling with automation compatibility

Two powerful chemistries to choose from

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Overview

Flex

Protein coding gene coverage

  • Profile up to 384 samples a week with 96-well multiplexing

  • Run partial plates: use only the reagents you need, when you need them

  • Analyze more sample types, including FFPE and whole blood

Universal (3' / 5')

Whole transcriptome coverage

  • Broadest multiomic options and diverse species compatibility

  • De novo discovery of isoforms, long non-coding RNA, and more

  • Highest cell recovery for low-input samples

Chemistry

Probe-based
Reverse transcription-based

Compatible species

Human
Mouse
Rat
Other species with custom probes
Agnostic

Compatible samples

Cell suspensions
Nuclei suspensions
Flow-sorted cells
Fixed whole blood
Fresh tissue
Frozen tissue
FFPE tissue
PFA-fixed tissue
Organoids
Cell suspensions
Nuclei suspensions
Flow-sorted cells
Fixed human PBMCs
Fresh tissue
Frozen tissue
DSP/Methanol-fixed
Organoids

Multiomic capabilities

Gene expression
Cell surface protein
Intracellular protein
CRISPR screening
Gene expression
TCR & BCR sequencing
Antigen specificity
Cell surface protein
CRISPR screening
Chromatin accessibility

Cell & sample throughput

Maximum scalability

    Singleplex

    • 20K cells/sample

    • 160K cells/chip

    • Output: 8 samples/chip

    Plate-based multiplexing

    • 20K cells/sample

    • 8M cells/chip

    • Up to 384 samples/channel

    • Output: 3,072 samples/chip

    Great for pilot to mid-scale studies

      Singleplex

      • 20K cells/sample

      • 160K cells/chip

      • Output: 8 samples/chip

      On-chip multiplexing

      • 5K cells/sample

      • 40K cells/chip

      • Output: 8 samples/chip

      Hashing

      • 8 channels/chip

      • 60K cells/channel

      • 480K cells/chip

      • Output: 96+ samples/chip

      Reveal the epigenomic landscape, cell by cell

      Analyze chromatin accessibility at single cell resolution with our Epi kits, resolving cell types and states using genome-wide epigenetic profiles and gaining a deeper understanding of gene regulatory mechanisms.

      Explore open chromatin regions with Assay for Transposase Accessible Chromatin (ATAC-seq) chemistry

      Directly link 3’ gene expression and epigenomic profiles from the same nucleus with the Multiome assay

      Profile up to 80,000 nuclei (1–8 samples) per chip

      Ensure reliable assay performance with an all-in-one isolation kit that requires little to no optimization for most tissues

      Need help with choosing the right product?

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