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chromium
Single Cell Gene Expression Flex
chromium
Single Cell Gene Expression (3')
chromium
Single Cell Immune Profiling (5')
Single Cell Gene Expression Flex

Whole transcriptome gene expression, with flexibility to fix, batch, and run samples on your schedule

We recommend Flex in experiments that...

  • Use archival or lower-quality samples

  • Require flexible sample batching

  • Will scale up and require the lowest cost per-cell

Build a Flex Experiment
Learn more about Flex
Single Cell Gene Expression (3')

A versatile solution providing 3' gene expression with options for multiomic analysis

We recommend 3' in experiments that...

  • Require full length transcript readouts

  • Only require gene expression, or may use ATAC in the future

  • Have lower cell input requirements

Single Cell Immune Profiling (5')

Comprehensive analysis of immune diversity, combining 5' gene expression with multiomic profiling

We recommend 5' in experiments that...

  • Require full length transcript readouts

  • Require or may use CRISPR and TCR/BCR sequencing in the future

  • Have lower cell input requirements

Primary Capability

Probe-based Gene ExpressionProbe-based Gene Expression

Gene expression analysis using pre-designed probes with the option to add custom probes

3' Gene Expression3' Gene Expression

Detect and quantify RNA molecules near the 3' end of genes

5' Gene Expression5' Gene Expression

Detect and quantify RNA molecules near the 5' end of genes

Multiomic Capabilities

Cell Surface ProteinCell Surface Protein

Identify proteins to categorize cell types, pinpoint biomarkers, and explore cell signaling and interactions

Cell Surface ProteinCell Surface Protein

Identify proteins to categorize cell types, pinpoint biomarkers, and explore cell signaling and interactions

Cell Surface ProteinCell Surface Protein

Identify proteins to categorize cell types, pinpoint biomarkers, and explore cell signaling and interactions

CRISPR ScreeningCRISPR Screening

Assess effects of CRISPR perturbations at single cell resolution with direct capture of cellular sgRNAs and changes in gene expression

TCR/BCR SequencingTCR/BCR Sequencing

Understand clonal expansion and diversity by capturing full-length, paired B-cell and T-cell receptors

Compatible Species

Human
Human
Mouse
Mouse
Additional Species
Additional SpeciesWith custom probes
Learn more
Human
Human
Mouse
Mouse
Rat
Rat
Non-Human Primate
Non-Human Primate
Marine
Marine
Plant
Plant
Insect
Insect
Human
Human
Mouse
Mouse
Rat
RatExcept with TCR/BCR Sequencing
Non-Human Primate
Non-Human PrimateExcept with TCR/BCR Sequencing

Compatible Sample Types

Cell Suspension
Cell Suspension
Fresh Tissue
Fresh Tissue
Frozen Tissue
Frozen Tissue
FFPE Tissue
FFPE Tissue
Cell Suspension
Cell Suspension
Fresh Tissue
Fresh Tissue
Frozen Tissue
Frozen Tissue
Cell Suspension
Cell Suspension
Fresh Tissue
Fresh Tissue
Frozen Tissue (GEX only)
Frozen Tissue (GEX only)

Assay Input

Cells
Cells
Nuclei
Nuclei
Cells
Cells
Nuclei
Nuclei
Cells
Cells
Nuclei (GEX only)
Nuclei (GEX only)

Resolution

Whole Cell/NucleusWhole Cell/Nucleus

Cells or nuclei are partitioned into GEM Gel Beads that uniquely barcode each, enabling single cell resolution

Learn about Next GEM Technology
Whole Cell/NucleusWhole Cell/Nucleus

Cells or nuclei are partitioned into GEM Gel Beads that uniquely barcode each, enabling single cell resolution

Learn about GEM-X Technology
Whole CellWhole Cell

Cells or nuclei are partitioned into GEM Gel Beads that uniquely barcode each, enabling single cell resolution

Learn about GEM-X Technology

Run Configuration Options

Multiplexed
Multiplexed

Compatible Instruments

Chromium X and iXChromium X and iX

Access single cell analysis at any stage. From Chromium iX, offering cost-effective, lower throughput single cell analysis, upgradable to the high-throughput full-range Chromium X, we make single cell analysis a perfect fit.

Discover the Chromium X Series
Chromium X and iXChromium X and iX

Access single cell analysis at any stage. From Chromium iX, offering cost-effective, lower throughput single cell analysis, upgradable to the high-throughput full-range Chromium X, we make single cell analysis a perfect fit.

Discover the Chromium X Series
Chromium X and iXChromium X and iX

Access single cell analysis at any stage. From Chromium iX, offering cost-effective, lower throughput single cell analysis, upgradable to the high-throughput full-range Chromium X, we make single cell analysis a perfect fit.

Discover the Chromium X Series

Included Data Processing & Analysis Software

Cell RangerCell Ranger

Cell Ranger is a set of free analysis pipelines for processing Chromium Single Cell data on-prem.

Learn about Running Cell Ranger
Cloud AnalysisCloud Analysis

A platform for running 10x analysis pipelines on optimized cloud clusters for a quick and easy path to results.

Discover Cloud Analysis
Cell RangerCell Ranger

Cell Ranger is a set of free analysis pipelines for processing Chromium Single Cell data on-prem.

Learn about Running Cell Ranger
Cloud AnalysisCloud Analysis

A platform for running 10x analysis pipelines on optimized cloud clusters for a quick and easy path to results.

Discover Cloud Analysis
Cell RangerCell Ranger

Cell Ranger is a set of free analysis pipelines for processing Chromium Single Cell data on-prem.

Learn about Running Cell Ranger
Cloud AnalysisCloud Analysis

A platform for running 10x analysis pipelines on optimized cloud clusters for a quick and easy path to results.

Discover Cloud Analysis

Included Interactive Visualization Tools

Loupe BrowserLoupe Browser

Visualize and interpret Chromium single cell gene expression data with Loupe Browser, a visualization tool that enables identification of gene expression patterns and cell clusters.

Dive into Data with Loupe Browser
Loupe BrowserLoupe Browser

Visualize and interpret Chromium single cell gene expression data with Loupe Browser, a visualization tool that enables identification of gene expression patterns and cell clusters.

Dive into Data with Loupe Browser
Loupe BrowserLoupe Browser

Interactively explore clonotype information and repertoire diversity alongside gene expression data in Loupe Browser.

Dive into Data with Loupe Browser
Loupe V(D)J BrowserLoupe V(D)J Browser

Investigate clonotypes and examine V(D)J transcripts in Single Cell Immune Profiling data with this interactive visualization tool.

Download Loupe V(D)J