Atera Instrument Software enables run set up, Atera Onboard Analysis data generation, and data egress.

Atera Onboard Analysis

Atera

Cell Ranger ARC

Chromium

Simultaneously profile gene expression and open chromatin from the same cell with Chromium Single Cell Multiome ATAC + Gene Expression. Multiply your power of discovery to characterize cell types and states, and uncover gene regulatory programs.

Unify the transcriptome and epigenome in every cell

Chromium X Series

Advanced system for multiomic analysis of hundreds to millions of cells.

Single Cell Multiome ATAC + Gene Expression

Combined profiling of 3' gene expression and chromatin accessibility from the same cell.

Analyze Epi Multiome data with a set of free, easy-to-use pipelines for primary and secondary analyses.

Cell Ranger ATAC

Chromium Single Cell ATAC (Assay for Transposase Accessible Chromatin) allows you to analyze chromatin accessibility at the single cell level, providing insights into cell types and states, and deeper understanding of gene regulatory mechanisms. 

Reveal the epigenomic landscape, cell by cell

Single Cell ATAC

Chromatin accessibilility profiling at the single cell level.

Analyze Epi ATAC data to identify open chromatin regions, motif annotation, and differential accessibility.

Cell Ranger DNA

Cell Ranger VDJ

Chromium Single Cell Immune Profiling provides a multiomic solution to your immunology questions. Analyze full-length V(D)J sequences for paired B-cell or T-cell receptors, cell surface protein expression, antigen specificity, and/or CRISPR edits, along with gene expression, all from a single cell.

Multiomic profiling of immune diversity, cell by cell

Single Cell Immune Profiling

5' gene expression alongside V(D)J repertoire profiling and antigen specificity of T and B cells.

Analyze single cell gene expression and V(D)J transcripts and clonotypes for T and B cells.

Cell Ranger

Chromium Single Cell Gene Expression provides single cell transcriptome 3' gene expression and multiomic capabilities to profile tens of thousands of cells. Explore cellular heterogeneity, novel targets, and biomarkers with combined gene expression, cell surface protein expression, or CRISPR edits in each cell.

Reveal the full complexity of cellular diversity, cell by cell

Single Cell Gene Expression

3' gene expression profiling at scale with single cell resolution.

Profile a defined set of transcripts from single cells or tissue sections with Targeted Gene Expression. Reduce costs while increasing the number of samples, or increasing sequencing depth with customizable, comprehensive gene panels.

Discontinuation of Targeted Gene Expression

Chromium Connect

Automated system for single cell partitioning, barcoding, and library preparation.

Chromium Controller

Compact system for multiomic analysis of hundreds to tens of thousands of single cells.

Targeted Gene Expression

Visium

Profiling of defined transcript sets from single cells or fresh frozen tissue sections.

Analyze single cell gene expression data with a set of free, easy-to-use analysis pipelines.

Panel Designer

Build fully custom Targeted Gene Expression panels or customize pre-designed panels.

Long Ranger

Loupe Browser is a powerful visualization software that provides intuitive analysis functionality you need to explore your 10x Genomics data. This easy-to-use desktop application for Windows and MacOS is available at no cost, enabling anyone to uncover biological insights from their data.

From data to biological insights

Loupe Browser

Visium Spatial Gene Expression is a next-generation molecular profiling solution for classifying tissue based on total mRNA. Map the whole transcriptome with morphological context in FFPE or fresh frozen tissues to discover novel insights into normal development, disease pathology, and clinical translational research.

Map the whole transcriptome within the tissue context

Visium CytAssist

Compact instrument designed to simplify the Visium workflow by facilitating the transfer of analytes from standard glass slides to Visium slides.

Spatial Gene Expression

Spatial gene expression profiling and imaging data of fresh frozen or FFPE tissues.

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.

10x Genomics Pipeline Runner (formerly known as Cloud Analysis) is a platform for data management, analysis, and collaboration to streamline and accelerate the interpretation of data generated from 10x Genomics assays.

Data analysis,
simplified

Pipeline Runner

Formerly known as Cloud Analysis. Analyze 10x Genomics data quickly and securely in the cloud.

An integrated, cloud-based platform for single cell and spatial analysis of Chromium, Xenium, and Atera data.

Sentira

Space Ranger

Analyze your Visium Spatial data with microscope images.

Supernova

Explore in situ data from the tissue scale down to subcellular resolution with our interactive visualization tool.

10x Explorer

Xenium

Explore Xenium In Situ data from the tissue scale down to subcellular resolution with our interactive visualization tool.

Xenium Explorer

Xenium Onboard Analysis

Our diverse panel menu of pre-validated biologically relevant targets can be customized with up to 100 additional targets. Standalone custom panels can also be designed for your specific research questions.

Expertly curated, easily customizable in situ panels

Xenium Analyzer

Powerful in situ profiling platform using curated panels, powerful visualization software, and easy-to-follow workflow.

Xenium In Situ Gene Expression

Enables subcellular profiling of 100s of RNA targets from Fresh Frozen or FFPE tissues.

Details about the algorithms and output files for Xenium In Situ data.

Xenium Panel Designer

Submit custom panel requests in the cloud.

Xenium Ranger

Analyze Xenium In Situ data with a set of easy-to-use analysis pipelines.

The Atera platform sets a new standard for spatial biology by enabling you to analyze the entire transcriptome at unprecedented scale and subcellular resolution, helping to accelerate our understanding of tissue and disease and enable groundbreaking advancements in human health.

Find resources from protocols to free-to-use analysis tools.

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

Experimental Design

Experimental Design & Planning

Learn about the pre-designed Gene Expression panels and engage with 10x design experts to design, order, and manufacture Atera Custom Genes.

Panel Design

For proper tissue handling and preparation techniques to preserve the morphology, quality, and integrity of tissue sections, refer to our Demonstrated Protocols for FFPE and Fresh Frozen.

Tissue Prep

Prepare tissue sections for on-instrument analysis by following our step-by-step User Guide/Protocols.

Assay

Refer to instrument-specific documents for seamless instrument operation.

Instrument

Analyze your Atera in situ data using our pipelines and visualization tools.

Software Analysis

Safety Data Sheets

Workflow Documentation

User guides

How-to videos

FAQs

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

Knowledge base Q&A

Access free, publicly available data from a number of different sample types generated with Atera.

Datasets

Other resources

A high-throughput single-cell spatial imaging platform with automated in situ hybridization, imaging, and on-instrument decoding.

Overview

User Guides

Videos

Workflow Overview

Documentation overview and required third-party equipment and reagents for Atera Gene Expression.

Atera Gene Expression Protocol Planner

Step-by-step instructions and visual guides for using the Atera Tissue Placement Aid on OTS slides.

Atera Quick Reference Cards for Tissue Placement on OTS Slides

Provides step-by-step guidance for preparing formalin fixed & paraffin embedded (FFPE) tissues for downstream Atera workflows.

Atera Gene Expression FFPE Tissue Preparation Handbook

Provides step-by-step guidance and visual aids for cassette assembly.

Atera Quick Reference Cards for Slide Cassette Assembly

Provides step-by-step guidance for preparing fresh frozen (FF) tissues for downstream Atera workflows.

Atera Gene Expression - Fresh Frozen Tissue Preparation Handbook

Tissue Preparation

This document details the protocol for generating Atera Whole Transcriptome (WTA) and Targeted Select Gene Expression data.

Atera Gene Expression User Guide

Comprehensive operating instructions and maintenance guidelines for the Atera Instrument.