Chromium Single Cell

The most versatile single cell toolkit

Chromium Single Cell
Two powerful chemistries to choose from

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Overview
Gene expression

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
Gene expression

Flex

Protein coding gene coverage

  • Analyze a broad range of sample types including FFPE and whole blood
  • Fix and batch flexible workflow
  • Customized content based on experimental need
  • Run up to 2.56M cells per chip
Products
  • Universal 3' Gene ExpressionUniversal 3' Gene Expression
  • Universal 5' Gene ExpressionUniversal 5' Gene Expression
Chemistry
  • Reverse transcription-basedReverse transcription-based
  • Probe-basedProbe-based
Compatible species
  • AgnosticAgnostic
  • HumanHuman
  • MouseMouse
  • Other species with custom probesOther species with custom probes
Compatible samples
  • Cell suspensionsCell suspensions
  • Nuclei suspensionsNuclei suspensions
  • Flow-sorted cellsFlow-sorted cells
  • Fixed human PBMCsFixed human PBMCs
  • Fresh tissueFresh tissue
  • Frozen tissueFrozen tissue
  • DSP/Methanol-fixedDSP/Methanol-fixed
  • OrganoidsOrganoids
  • Cell suspensionsCell suspensions
  • Nuclei suspensionsNuclei suspensions
  • Flow-sorted cellsFlow-sorted cells
  • Fixed whole bloodFixed whole blood
  • Fresh tissueFresh tissue
  • Frozen tissueFrozen tissue
  • FFPE tissueFFPE tissue
  • PFA-fixed tissuePFA-fixed tissue
  • OrganoidsOrganoids
Multiomic capabilities
  • Gene expressionGene expression
  • TCR & BCR sequencingTCR & BCR sequencing
  • Antigen specificityAntigen specificity
  • Cell surface proteinCell surface protein
  • CRISPR screeningCRISPR screening
  • Chromatin accessibilityChromatin accessibility
  • Gene expressionGene expression
  • Cell surface proteinCell surface protein
  • Intracellular proteinIntracellular protein
  • CRISPR screeningCRISPR screening
Cell & sample throughput

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
Up to 4 samples/channel
Output: 8 samples/chip
Hashing
8 channels/chip
60K cells/channel
480K cells/chip
Output: 96+ samples/chip

Maximum scalability

Singleplex
20K cells/sample
160K cells/chip
Output: 8 samples/chip
In-line multiplex
20K cells/sample
2.56M cells/chip
Up to 16 samples/channel
Output: 128 samples/chip
Epigenetics icon
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.
Use fresh, frozen, or fixed samples—even FFPE samples

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

Learn about Epi ATAC
Use fresh, frozen, or fixed samples—even FFPE samples

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

Learn about Epi Multiome
Use fresh, frozen, or fixed samples—even FFPE samples

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

Use fresh, frozen, or fixed samples—even FFPE samples

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

Learn about the Nuclei Isolation Kit
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