Reveal the Full Complexity of Cellular Diversity with Single Cell Transcriptomics

Chromium Single Cell Gene Expression Solution

Go Beyond Traditional Gene Expression Analysis

The Chromium Single Cell Gene Expression Solution provides a comprehensive, scalable solution for cell characterization and gene expression profiling of hundreds to tens of thousands of cells. Our latest improvements allow you to detect even more unique transcripts per cell, and with the addition of Feature Barcoding technology, you can get a more complete molecular readout cell by cell—identify cell-specific CRISPR-mediated perturbations or simultaneously measure gene and cell surface protein expression in the same cell, with virtually unlimited possibilities for the additional feature types.

Go beyond traditional gene expression analysis to characterize cell populations, cell types, cell states, and more on a cell-by-cell basis. From assessing tumor heterogeneity and stem cell composition, to dissecting neuronal populations—the technological advancements provided by the Chromium Single Cell Gene Expression Solution, along with turnkey software tools, allow the creation of high complexity libraries from single cells to maximize insight from any sample type.

  • Identify and characterize rare cell types
  • Analyze and understand cellular heterogeneity and how this contributes to your biological system
  • Perform cellular phenotyping with single cell RNA-seq to identify novel targets, biomarkers, and cell types and states without the need for pre-selected targets
  • Evaluate mRNA and cell surface protein expression profiles within the same cell
  • Perform high-throughput and high-resolution functional genetic screens in tens of thousands of cells simultaneously
  • Assess comprehensive gene expression phenotypes for individual CRISPR perturbations
Gene Expression Profiling

Gene Expression Profiling

Uncover cell-to-cell gene expression variability and identify rare cell types in heterogeneous samples to better characterize cellular contributions during development and disease. Our latest improvements vastly increase sensitivity, so you can detect even more unique transcripts per cell.

Feature Barcoding Technology: Cell Surface Protein

Feature Barcoding Technology: Cell Surface Protein

Better implement published methods like CITE-Seq/REAP-Seq with our new and improved workflow using Feature Barcoding technology. Seamlessly measure both gene and cell surface protein expression in the same cell to identify protein isoforms, detect protein for low abundance transcripts, and further increase phenotypic specificity.

Antigen Specificity

Feature Barcoding Technology: CRISPR Screening

Identify CRISPR-mediated perturbations alongside cellular transcripts using Feature Barcoding technology. Implement this improved and novel methodology to conduct high-throughput and scalable functional genetic screens in hundreds to tens of thousands of single cells simultaneously.

Unlock Single Cell Analysis with These System Features

  • Partition 100 – 80,000+ cells efficiently
  • Superior sensitivity and cell capture rate up to 65%
  • Simple workflow
  • Cell size flexibility, no lower limits
  • Low doublet rates of under 0.9% in 1,000 cells
  • Available with Next GEM technology
View the Workflow
Single Cell Product Family

Getting Started Guide:
Single Cell Gene Expression

Whether you have questions about how to design your experiments, optimize parameters, or identify the computational/analytical tools necessary to best analyze your single cell gene expression data, this guide has you covered. Take full advantage of the rich information enabled by single cell transcriptomic technology by downloading the getting started guide today!

Download Getting Started Guide

Make Every Cell Count

Watch How it Works

Analyze thousands of single cells in every run. See how the 10x technology suite performs millions of parallel reactions to enable gene expression profiling at scale with single cell resolution.


Feature Barcoding Technology

Watch How it Works

See how combining our solution with Feature Barcoding technology allows you to dramatically increase the understanding of complex biological systems. Watch examples of how you can get a more complete cellular read-out, cell by cell—the possibilities are virtually limitless.

Single Cell Controller

Chromium Controller

Compact, Sleek, Efficient.

The compact, sleek Chromium Controller rapidly and efficiently combines large partition numbers with a massively diverse barcode library to generate >100,000 barcode-containing partitions in a matter of minutes. The Chromium Controller fits on a standard laboratory bench and allows a user to run any Chromium Solution, from genome to single cell analysis.

View Our Controller Gallery

Chromium Connect

Prepare consistent single cell gene expression libraries with our automated solution

Chromium Connect combines single cell partitioning, barcoding, and library construction in a standardized, automated workflow, letting you go from cells to sequencing-ready libraries with walk-away convenience.

Download Product Sheet

Product List

To view a list of products by application type, first select your desired version of the Single Cell Gene Expression Solution. If you would like to combine this solution with Feature Barcoding technology, select Feature Barcode type(s).

Gene Expression Version

Gene Expression Type

Feature Barcode Selection

Automation

Reagents & Consumables

Reactions
Product Code
3ʹ Feature Barcode Kit
16 rxns
1000276
Chromium Chip B Single Cell Kit*
1000154 (US, APAC)
1000074 (EMEA)
1000153 (US, APAC)
1000073 (EMEA)
Chromium i7 Multiplex Kit
96 rxns
120262
Chromium Next GEM Automated Single Cell 3′ Library and Gel Bead Kit v3.1
1000147
1000141
Chromium Next GEM Chip G Automated Single Cell Kit
1000146
1000136
Chromium Next GEM Chip G Single Cell Kit
1000127
1000120
Chromium Next GEM Single Cell 3′ GEM, Library & Gel Bead Kit v3.1
1000128
1000121
Chromium Next GEM Single Cell 3′ Kit v3.1
1000269
1000268
Chromium Next GEM Single Cell 3’ Library Construction Kit v3.1 (Optional)
16 rxns
1000157
Chromium Single Cell 3′ Feature Barcode Library Kit
16 rxns
1000079
Chromium Single Cell 3′ Library & Gel Bead Kit v2
120267
120237
Chromium Single Cell 3′ Library & Gel Bead Kit v3
1000092
1000075
Chromium Single Cell 3′ Library Construction Kit v3
16 rxns
1000078
Chromium Single Cell A Chip Kit
1000009
120236
Dual Index Kit NT Set A (for Feature Barcode Libraries)
96 rxns
1000242
Dual Index Kit TT Set A (for Gene Expression Libraries)
96 rxns
1000215
Human Gene Signature Panel
1000258
1000245
Human Immunology Panel
1000259
1000246
Human Neuroscience Panel
1000277
1000278
Human Pan-Cancer Panel
1000260
1000247
Library Amplification Kit
16 rxns
1000249
Library Construction Kit (Optional)
16 rxns
1000190
Single Index Kit T Set A
96 rxns
1000213
Target Hybridization Kit
16 rxns
1000248
*Chromium Chip B Single Cell Kit product code is region specific and should be used based on customer’s geographical location. US = America, APAC = Asia Pacific, EMEA = Europe, Middle East & Africa

Compatible Partner Products

Biolegend TotalSeq™-A
Biolegend TotalSeq™-B
Sigma-Aldrich®* 10x Compatible Custom CRISPR Libraries

Instruments

Warranty
Product Code
Chromium Connect
1000171
1000180
Chromium Controller & Next GEM Accessory Kit
120223
120246
Chromium Controller & Next GEM Accessory Kit
1000202
1000204

Software

Cell Ranger Analysis Pipelines
Custom Panel Designer
Coming soon
Loupe Browser

Documentation

Chromium Next GEM Automated Single Cell 3ʹ Reagent Kits User Guide (v3.1 Chemistry)
Coming soon
Chromium Single Cell 3′ Reagent Kits User Guide (v3.1 Chemistry)
Chromium Single Cell 3′ Reagent Kits User Guide (v3.1 Chemistry) with Feature Barcoding technology for Cell Surface Protein
Chromium Single Cell 3′ Reagent Kits User Guide (v3.1 Chemistry) with Feature Barcoding technology for CRISPR Screening
Chromium Single Cell 3′ Reagent Kits User Guide (v3.1 Chemistry – Dual Index)
Chromium Single Cell 3′ Reagent Kits User Guide (v3.1 Chemistry – Dual Index) with Feature Barcode technology for Cell Surface Protein
Chromium Single Cell 3′ Reagent Kits User Guide (v3.1 Chemistry – Dual Index) with Feature Barcode technology for CRISPR Screening
Demonstrated Protocol: Cell Surface Protein Labeling for Single Cell RNA Sequencing Protocols
Technical Note: Guide RNA Specifications Compatible with Feature Barcoding Technology for CRISPR Screening
User Guide : Chromium Single Cell 3′ Reagent Kits (v3 Chemistry) with CRISPR Screening Feature Barcoding Technology
User Guide: Chromium Single Cell 3′ Reagent Kits (v3 Chemistry)
User Guide: Chromium Single Cell 3′ Reagent Kits (v3 Chemistry) with Cell Surface Protein Feature Barcoding Technology
User Guide: Chromium Single Cell 3′ Reagents v2
Single Cell Gene Expression Datasets
Scientific Seminars

de Novo Assembly of a Large Size Genome: the Olive Fruit Fly

 
  • Jiannis Ragoussis, McGill University
February 14, 2017
AGBT Annual Meeting – Hollywood, FL

Uncovering the Hidden Complexities of Plant Biology

 
  • Leo Chan, PhD, Science & Technology Advisor, APAC Lead, 10x Genomics
July 29, 2020

Direct Capture of Guide RNAs Enables Scalable and Combinatorial Single Cell CRISPR Screens

 
  • Joseph Replogle, MD/PhD trainee, Weissman lab, UCSF/MIT
  • Dina Finan, PhD, Product Manager, 10x Genomics
July 17, 2020
LabTools: The Scientist Webinar Series
Poster Hall

High throughput immune profiling using integrated single cell multi-omics analyses

  • Single Cell Biology Keystone Symposia
    Breckenridge, CO
    January 2019

Single cell ATAC-seq for characterization of complex biological systems

  • Single Cell Biology Keystone Symposia
    Breckenridge, CO
    January 2019

Single cell ATAC-seq for characterization of complex biological systems

  • Human Cell Atlas Conference
    Cambridge, MA
    November 2018

Order your 10x system, today.