Universal 5’ Gene Expression
This assay requires Chromium X/iX instrument Firmware v2.0 or newer. Refer to the Chromium X Series Firmware Update Procedure for details
Workflow Overview
Experimental Design & Planning
Protocol Planner
Third-party reagents, consumables, and equipment needed for completing Single Cell 3’ v4 and 5’ v3 User Guide steps.
Sample Preparation
Cell Preparation Handbook
Describes best practices and general protocols for washing, counting and concentrating cells from cell suspensions.
Specific Sample Preparation Documents
General guidance on specific sample preparation protocols
Cell Surface Protein Labeling for Single Cell RNA Sequencing Protocols
Provides guidance for antibody-oligonucleotide conjugation and outlines cell surface protein labeling.
Library Construction
Chromium GEM-X Single Cell 5’ v3 Gene Expression User Guide
Instructions for constructing GEM-X Single Cell 5’ v3 Gene Expression libraries.
Chromium GEM-X Single Cell 5’ v3 Gene Expression with Feature Barcoding technology for Cell Surface Protein User Guide
Instructions for constructing GEM-X Single Cell 5’ v3 Gene Expression and Cell Surface Protein libraries.
Chromium GEM-X Single Cell 5’ v3 Gene Expression with Feature Barcoding technology for CRISPR Screening
Instructions for constructing GEM-X Single Cell 5’ v3 Gene Expression and CRISPR Screening libraries.
Chromium GEM-X Single Cell 5’ v3 Gene Expression with Feature Barcoding technology for Cell Surface Protein and CRISPR Screening User Guide
Instructions for constructing GEM-X Single Cell 5’ v3 Gene Expression, Cell Surface Protein, and CRISPR Screening libraries
Sequencing
Sequencing Handbook
Provides guidance and best practices for sequencing 10x Genomics libraries.
Data analysis
Cell Ranger
Analyze single cell gene expression data with a set of free, easy-to-use analysis pipelines.
Pipeline Runner
Formerly known as Cloud Analysis. Analyze 10x Genomics data quickly and securely in the cloud.
Sentira Single Cell
Analyze Chromium single cell data through interactive, agentic workflows.
Loupe Browser
Explore 10x Genomics Chromium and Visium data with our interactive visualization software.
Loupe V(D)J Browser
Investigate single cell 5’ data clonotypes and V(D)J transcripts with our interactive visualization software.
How-to videos
Other resources
Knowledge base Q&A
Find answers to common technical questions, from sample prep through data analysis, about Chromium single cell workflows.
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Datasets
Access free, publicly available data from a number of different sample types generated with Chromium single cell solutions.
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Publications
Read key peer-reviewed research publications offering greater insights into biology, enabled by 10x Genomics products and technologies.
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