Access the broadest range of analytes, samples & workflows
Collect samples anywhere. Process when you’re ready.
Traditional single cell workflows were not built for the realities of multi-site studies or large cohorts. Our latest protocols fix that, making sure that location and timing don’t put limits on your research.
Stabilize samples on the spot, even for remote collection, no onsite lab needed
Keep samples at room temperature or 4°C for up to 3 days, or freeze long-term
Process samples days or months later, on your schedule
Capture deeper insights with multiomic readouts from the same sample
Gene expression
Whole transcriptome coverage
Profile the whole transcriptome by capturing the 3’ or 5’ ends of mRNA transcripts for unbiased characterization of cell types and states from a wide range of species.
Specifications
Cell suspensions
Nuclei suspensions
Flow-sorted cells
Fixed human PBMCs
Fresh tissue
Frozen tissue
DSP/Methanol-fixed tissue
Organoids
Featured resources
Protein coding gene coverage
Achieve sensitive robust profiling of 18,000+ genes (for human, mouse, or rat), even from whole tissue, FFPE samples, and samples with fragmented RNA.
Specifications
Cell suspensions
Nuclei suspensions
Flow-sorted cells
Fixed whole blood
Fresh tissue
Frozen tissue
FFPE tissue
PFA-fixed tissue
Organoids
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Chromatin accessibility
Chromatin accessibility
Analyze thousands of unique open chromatin fragments per cell, genome-wide, to gain insights into deeper understandings of the cell type–specific regulatory mechanisms.
Specifications
Nuclei suspensions
Fresh tissue
Frozen tissue
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Multiomic profiling
CRISPR
Evaluate gene function across different cellular processes with direct assessment of CRISPR-driven edits or knockdowns and their resulting gene expression phenotypes.
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Cell surface protein
Characterize cell subtypes and states more comprehensively with added protein information from the same cell, allowing you to explore transcriptomic and proteomic relationships.
Intracellular protein
Enrich distinct cell phenotype understanding with added protein expression data throughout the entire cell, including nuclear, cytosolic, and secreted proteins.
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T cell receptor/B cell receptor
Gain a comprehensive view of the immune system with paired, full-length receptor sequences from T and/or B cells with complete isotype resolution.
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Antigen specificity
Obtain comprehensive antigen-specific cellular profiles to identify rare, antigen-reactive T and B cells to fully characterize the adaptive immune response and accelerate therapeutic discovery.
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Unique sample prep capabilities
Nuclei isolation from frozen samples
Easily and efficiently prepare frozen samples for single nuclei sequencing, consolidating your experimental processes and improving access to more samples.
Featured resources
Nuclei isolation from FFPE samples
Isolate nuclei from FFPE tissue sections for use with Apex. Now includes a scalable, faster, heat-based protocol.
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Whole blood fixation
Fix then isolate peripheral blood mononuclear cells (PBMCs) and leukocytes from whole blood upstream of the Apex assay, enabling more flexible and convenient blood-based studies.
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Human PBMC fixation
Fix, store, and perform 3’ or 5’ gene expression on human PBMC samples on your schedule, without sacrificing RNA integrity or fragile cell types.
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Chop/Fix
Start with whole tissue, chop it into smaller pieces, and then fix prior to dissociation into a cell suspension, preserving fragile cells that would not survive other dissociation methods.
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Additional experimental options
Long-read sequencing
Combine long-read sequencing with Chromium assays to identify alternative isoforms and splicing at single cell resolution.
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Custom probe design
Target additional mRNAs of interest not covered in the standard Flex transcriptome probe sets, letting you tailor your experiments to your research needs.
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Plate-based sample handling
Run up to 384 samples or 100M cells a week with convenient 96-well multiplexing and automation compatibility
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See Chromium Single Cell’s powerful and versatile capabilities in action
Discover how researchers across the globe have used Chromium Single Cell to discover novel cell types and states, understand disease mechanisms, and beyond.