Cell populations are seldom homogeneous and similar in their characteristics. While traditional bulk sequencing methods can be powerful, cost-effective tools for analysis, they cannot detect differences that arise between individual cells in complex environments. With recent developments in microfluidics and molecular barcoding, however, NGS-based technologies for genomic, transcriptomic, and epigenomic research have increasingly focused on the analysis of single cells, enabling scientists to examine the diversity of heterogenous cell populations and uncover new biological discoveries. 

Azenta Life Sciences, formerly GENEWIZ offers a suite of end-to-end single-cell sequencing solutions utilizing the latest technology on the market: the 10x Genomics® Chromium™ and Illumina® NovaSeq™. As an early adopter of these platforms, our optimized workflows — including pre-submission cryopreservation and post-submission dead cell removal — maximize project flexibility, speed, and data accuracy.

For single-cell and single-nuclei RNA-Seq projects, utilize our interactive data portal powered by ROSALIND to receive robust analysis and publication-ready visuals of your sequencing data.



Exploring Bioinformatics for
Single-Cell Sequencing Data



Single-Cell RNA-Seq

Analyze transcriptome heterogeneity at the single-cell level. Azenta offers optimized workflows for 5’ and 3’ gene expression libraries to uncover cellular differences that are masked by bulk RNA sequencing and visualize sequencing data via our interactive data portal, powered by ROSALIND.


Single-Cell ATAC-Seq

Identify chromatin accessibility in the epigenome by profiling thousands of single cells in parallel, and discover how chromatin structure and DNA-binding proteins regulate gene expression in varying states and cellular processes.


Single-Cell Immuno-Profiling

Examine the immune repertoires of individual B and T cells by physically pairing VH/VL or α/β chains in B- or T-cell receptors, respectively, while simultaneously capturing data for gene expression, V(D)J clone types, and cell surface protein expression. 


Ask us about CITE-Seq

SINGLE-CELL sequencing workflow 

1. Cell Partitioning

Cells and barcoded beads are isolated in droplets using the 10x Genomics Chromium

2. Library Preparation

Unique barcodes for each individual cell are added to RNA or DNA prior to library preparation 

3. Sequencing

Barcoded libraries are pooled and sequenced on the Illumina platform for high-throughput characterization

4. Data Analysis

Receive custom analysis and visualize results through interactive software, including our data portal powered by ROSALIND for sc / snRNA-Seq projects

Features & Benefits

  • Building

    Superior Data Quality

    Exceeding manufacturer’s benchmarks

  • Real-Time Project Updates

    Through our online system

  • Ph.D.-Level Support

    At every step

Early adopter of 10x Genomics Chromium with optimized workflows that maximize project flexibility, speed, and data accuracy
Highest throughput sequencing platforms, including the Illumina NovaSeq, provide cost-effective single-cell sequencing solutions
Samples accepted at different stages of the 10x workflow including cells, Gel Beads in Emulsion (GEMs), or 10x barcoded cDNA libraries for maximum workflow flexibility
Proprietary cell freezing protocol maintains cell viability during transit and provides a convenient method to ship samples
Dead cell removal to improve data quality, especially for projects with suboptimal samples
Visualize results through interactive software, including our data portal powered by ROSALIND for sc / snRNA-Seq projects

Technical Resources

Webinar | Expanding Opportunities for Single-Cell RNA Sequencing

Single-cell sequencing can be a powerful tool used to discover new targets for therapeutic development. In this webinar, co-sponsored by Azenta and 10x Genomics, learn about the latest developments in single-cell technologies and their use in uncovering novel therapeutic discoveries.

Webinar Series | Advancing Transcriptomics: Gene Expression Screening, Single-Cell RNA-Seq, and Beyond

With this two-part webinar series, go beyond traditional transcriptomics and learn about the various NGS approaches available for gene expression analysis. In part 1, we take an in-depth look at various gene expression approaches, including RNA-Seq, single-cell RNA-Seq, digital spatial profiling, and more. In part 2, we explore the data generated from these approaches and how they can complement each other and confirm findings.

Webinar: Improving Single-Cell RNA-Seq Workflow Efficiency to Scale Clinical Research

In this webinar co-hosted by Azenta Life Sciences and 10x Genomics, learn how Clinical Research Organizations (CROs) provide expertise across the single-cell RNA sequencing (scRNA-Seq) workflow, including sample prep and experimental execution. This enables pharmaceutical and biotech clients to perform single-cell analysis at greater scale, efficiency, and reproducibility for clinical research.

Poster: Highly Multiplexed Single-Cell Transcriptome and Epigenome Profiling of Cryopreserved Tissue Enables Multi-Omic Tissue Characterization in Clinical Settings

Single-cell analysis typically relies upon immediate processing of fresh tissue, presenting limitations for translational and clinical applications. Learn how Azenta’s robust cryopreservation workflow for downstream processing enabled high-quality, single-cell transcriptomic and epigenomic analysis of translational and clinical samples by coupling scATAC-seq and scRNA-seq. 

Tech Note: Add More Life to Your Data: Optimizing Single-Cell RNA-Seq with Dead Cell Removal

Obtaining samples with high cell viability can be difficult for many experiments but is necessary for success on the 10x Genomics® Chromium™ platform. This tech note describes how Azenta scientists used optimized single-cell workflows, including dead cell removal, to overcome low viability and generate high-quality sequencing data.

Webinar: Advancements to the 10x Genomics Chromium™, Single-Cell RNA-Seq System

In this webinar, we review how recent advancements of the 10x Genomics Chromium™ system, coupled with Azenta developmental efforts, can benefit the researcher. In addition, we spotlight the new Single-Cell V(D)J Solution, which can be used in conjunction with single-cell transcriptome profiling to identify pairing of full-length BCR and TCR sequences

Top 3 Factors to Consider Before Starting a Single-Cell Sequencing Project

With several commercial platforms available, high-throughput single-cell sequencing is now more accessible than ever. In this article, we’ll touch upon the 3 most important factors to consider before embarking on your single-cell project to ensure you select the right NGS approach for your research.

Webinar: Towards High Dimensional Sequencing: From Single-Cell to Spatial Omics

In comparison to traditional profiling methods which assess bulk populations, single-cell technologies empower researchers to examine diversity of heterogeneous cell populations and uncover new, and potentially unexpected, biological discoveries. This webinar highlights the unparalleled capabilities of single-cell sequencing.

Case Study: Single-Cell RNA-Seq Analysis Identifies Rare Drug-Resistant Cancer Stem Cells

Cell populations are rarely homogeneous and synchronized in their characteristics. Standard RNA-Seq approaches are limited to reporting general expression levels thus omitting minor subpopulation profiles. This study highlights new single-cell RNA sequencing capabilities for identifying rare cells, characterizing their transcriptomes, and discovering potential biomarkers.

Poster | Utilizing an alternate cell fixation method to expand opportunities for single-cell RNA sequencing

The complexity of sample preparation for single-cell sequencing remains a bottleneck for researchers interested in performing analysis at the cellular level. In this poster, we highlight an alternative sample preparation and processing workflow to standard methods that help to broaden the usage of single-cell sequencing approaches.

NGS Platforms

Azenta is a certified service provider for Illumina and Life Technology NGS platforms. For information on our NGS platforms as well as recommended configurations of your projects, please visit the NGS Platforms page. Azenta does not guarantee data output or quality for sequencing-only projects.

How To Order

Email | Phone +49 (0)341 520 122-41