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Provides instructions for constructing libraries using the Chromium Next GEM Single Cell 5' Reagent Kit (v2).

Chromium Next GEM Automated Single Cell 5ʹ Reagent Kits User Guide (v2 Chemistry)

Construct a sequencing-ready single cell library by following our step-by-step User Guide / Protocol.

Library Construction

Chromium Single Cell Immune Profiling allows analysis of full-length, paired B-cell or T-cell receptor (BCR/TCR) sequences, surface protein expression, antigen specificity, and 5’ gene expression, all from a single cell. Scale up with a high-throughput solution, or focus on key genes with targeted gene expression panels.

Plan ahead by referring to the list of equipment, kits, and reagents needed for Single Cell Immune Profiling.

Experimental Design

Experimental Design & Planning

Prepare optimal single cell/nuclei suspension by following our Demonstrated Protocols.

Sample Prep

Refer to instrument-specific documents for seamless instrument operation.

Instruments

Use pre-designed or custom panels for targeted gene expression, followed by sequencing and data analysis.

Targeted

Targeted Gene Expression (Optional)

Sequence your single cell library as per our provided recommendations.

Sequencing

Analyze your single cell data using our pipelines, visualization, and Cloud Analysis tools.

Software Analysis

Chromium X Series

Single Cell Immune Profiling

Overview

Documentation

Additional Applications

Datasets

Videos

Publications

<div><Text as={'span'} size={'medium'} weight={'medium'}>{`This assay requires Chromium X/iX instrument Firmware v2.0 or newer. Refer to the `}</Text><Anchor href={'/support/instruments/chromium-x-series/chromium-x-series-firmware-update-procedure'}><Text as={'span'} color={'inherit'} size={'medium'} weight={'medium'}>{'Chromium X Series Firmware Update Procedure'}</Text></Anchor><Text as={'span'} size={'medium'} weight={'medium'}>{' for details'}</Text></div>

Chromium Single Cell Immune Profiling allows analysis of full-length, paired B-cell or T-cell receptor (BCR/TCR) sequences, surface protein expression, and 5’ gene expression, all from a single cell.

What is Single Cell Immune Profiling?

Measure single cell gene expression, cell surface protein expression, and optionally antigen specificity simultaneously.

Cell Surface Protein

Assess the effects of CRISPR perturbations alongside single cell gene expression.

CRISPR Screening

Enables molecular profiling of 2,000–20,000 cells/sample with simultaneous detection of full length, paired immune receptor sequences, gene and protein expression, and antigen specificity.

High Throughput (HT)

Map antigens to discover novel antigen-specific Ig or T-cell receptors.

Barcode Enabled Antigen Mapping (BEAM)

We provide resources from protocols, user guides, and free-to-use analysis tools.

Access free, publicly available data from a number of different sample types generated with Chromium single cell solutions.

Chromium Next GEM Single Cell 5' v2 Dual Index

Chromium Next GEM Single Cell 5' HT v2 Dual Index

Single Cell 5' v2 Barcode Enabled Antigen Mapping (BEAM)

Find answers to common technical questions, from sample prep through data analysis, about Chromium single cell workflows.

Q&As

Read key peer-reviewed research publications offering greater insights into biology, enabled by 10x Genomics products and technologies.

Chromium Next GEM Automated Single Cell 5ʹ Reagent Kits User Guide (v2 Chemistry)

User Guide, CG000384

CG000384_ChromiumSingleCell5-_v2_Automation_UG_RevD.pdf

User Guide, CG000429

Sample Input File: CG000429_ChromiumConnect_SC5-GEX_InputSampleInfo_Template_RevC.csv

User Guide, CG000430

Input File: CG000430_ChromiumConnect_SC5-GEX_InputFile_RevE.xlsm

User Guide, CG000432

CG000432_ChromiumConnect_SC5-VDJ_InputFile_RevB.xlsm

User Guide, CG000431

CG000431_ChromiumConnect_SC5-VDJ_InputSampleInfo_Template_RevA.csv

User Guide, CG000434

CG000434_ChromiumConnect_qPCR-Setup_InputFile_RevA.xlsm

User Guide, CG000433

CG000433_ChromiumConnect_qPCR-Setup_InputSampleInfo_Template_RevA.csv

User Guide, CG000310

CG000310_ChromiumConnect_Pooling-8Libraries_InputSampleInfo_Template_RevB.csv

User Guide, CG000156

CG000156_ChromiumConnect_PoolingWorksheet_RevC.xlsm

User Guide, CG000430

CG000430_Chromium Connect SC5-GEX Input File_RevC.xlsm

User Guide, CG000432

CG000432_Chromium Connect SC5-VDJ InputFile_Rev C.xlsm

User Guide, CG000466

CG000466_Chromium Connect 32 Pooling Workbook_Rev A.xlsm

User Guide, CG000485

CG000485_Chromium Connect Library Construction Input File_Rev A.xlsm

User Guide, CG000486

CG000486_Chromium Connect Automation Library Construction LIMS Template_Rev A.csv

User Guide, CG000493

CG000493_Chromium Connect Library Pooling LIMS Template_Rev A.csv