This Technical Note provides guidance on custom probe design, spike-in, and analysis for GEM-X Flex v2 applications.

Custom Probe Design for GEM-X Flex v2

Plan ahead by referring to the list of equipment, kits, and reagents needed for Flex Gene Expression.

Experimental Design

Experimental Design & Planning

Flex Gene Expression enables single cell gene expression on precious samples that were previously inaccessible due to logistical challenges in sample handling. Fixation at the point of sample collection preserves fragile biology and greatly streamlines workflows to provide critical insights on more samples.

Prepare single cell/nuclei suspension from fresh samples for fixation or from archived samples by following our Demonstrated Protocols.

Sample Prep

Find a list of probes targeting protein-coding genes in human and mouse transcriptomes for the Flex Gene Expression assay.

Probe Sets

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

Library Construction

Refer to instrument-specific documents for seamless instrument operation.

Instruments

Sequence your single cell or nuclei library as per our provided recommendations.

Sequencing

Analyze your genome and exome data using our pipelines and visualization tools.

Software Analysis

Chromium X Series

Flex Gene Expression

Overview

User Guides

Workflow Documentation

Additional Applications

Datasets

Videos

What is Flex Gene Expression?

Reveal gene expression and protein expression from the same fixed cell.

Protein

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

Documentation

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

GEM-X: How to assemble, load and generate GEMs

Chromium Next GEM Tissue Fixation and Dissociation

Chromium Next GEM Single Cell Isolation from FFPE Sections

Find answers to common technical questions, from sample prep through data analysis, about the Flex Gene Expression workflow.

Custom Probe Design for GEM-X Flex v2

Technical Note, CG000839

CG000839_GEM-X_Flex_v2_CustomProbeDesign_TechNote_Rev_A.pdf