AACR 2021

Resolve cancer with single cell and spatial multiomics


The complexity of cancer biology poses challenging questions, and 10x Genomics provides powerful single cell and spatial multiomic solutions to transform the way we approach cancer.

Explore the resources below to see how researchers are leveraging single cell and spatial technologies to resolve the heterogeneity and immune composition of the tumor microenvironment, reveal epigenetic regulators of cancer progression, and develop a clearer picture of what drives successful treatment.

Tumor microenvironment 

Unravel the complex interplay between the immune, tumor, and stromal compartments in a spatial context with Visium Spatial Gene Expression.

Breaking spatial barriers with Visium Spatial Gene Expression for FFPE

Combine the benefits of histology with the massive throughput and discovery power of RNA sequencing in FFPE tissue samples.
  • Resolve heterogeneity in the tumor microenvironment
  • Discover new biomarkers and potential drug targets
  • Reveal the spatial organization of cell types and states
  • Access more clinical samples with FFPE tissue compatibility
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Spatially resolved heterogeneity of triple negative breast cancer

See how Visium Spatial Gene Expression coupled with single nucleus RNA-seq was used to better characterize triple negative breast cancer by:
  • Providing detailed spatial resolution of intratumoral heterogeneity
  • Localizing putative cancer stem cell subtypes
  • Delineating the extent and cellular identity of immune infiltration
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Anti-tumor immune response

Single cell profiling enables researchers to dissect mechanisms of endogenous and engineered anti-tumor immunity to characterize the diverse populations and biological states of immune cells, define the behaviors of different clonal lineages, and identify the cell types active during immune response.

Peripheral T-cell expansion predicts immunotherapy response

Learn how Dr. Thomas Wu, from Genentech, used single cell RNA sequencing (scRNA-seq) and single cell TCR sequencing (scTCR-seq) solutions from 10x Genomics to show that the mechanism of action for immunotherapy is likely recruitment from outside the tumor, upending earlier hypotheses on the subject and pointing to underlying causes of resistance.

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Multi-modal and multi-tissue profiling of glioblastoma patients treated with CAR T-cell therapy

Learn how Dr. Nick Banovich, from the Translational Genomics Research Institute, took a multimodal approach to create a comprehensive picture of the molecular mechanisms underlying the variability in glioblastoma patient response to CAR T cell therapy in a clinical trial. Using a suite of single cell transcriptomic profiling tools coupled with spatial gene expression data and epigenomic profiles, Dr. Banovich was able to view broad changes in the endogenous immune system induced by CAR T-cell therapy and identify gene expression changes associated with specific outcomes.

Epigenetic regulators of cancer progression

Single cell profiling of the chromatin landscape enables researchers to identify epigenetic regulators and related transcriptomic changes that reveal insights about cancer progression and novel targets for development of new treatments.

Identification of a tumor-specific gene regulatory network in human B-cell lymphoma

See how multiomic analysis of paired RNA-seq and ATAC-seq data from the same single cells using the Single Cell Multiome ATAC + Gene Expression kit enables linkage of differential gene expression and open chromatin regions, identifying putative regulatory targets in a diffuse small B-cell lymphoma sample.
Single cell genomics in checkpoint blockade and CAR-T cell immunotherapy

Find out how Dr. Ansuman Satpathy, from Stanford University, applied single cell technologies to understand immune response to cancer:
  • Paired scRNA-seq and scTCR-seq revealed fundamental aspects of T cell response to PD-1 blockade
  • scATAC-seq identified epigenetic regulators of T cell exhaustion
  • scRNA-seq tracked CRISPR-engineered T cells in the first in-human trial in refractory cancer


Therapeutic response and resistance

Whether characterizing changes in the functional state of engineered cells, discovering on-target off-tissue toxicities, or tracking clonal diversity over time, researchers need methodological approaches that offer the scale and resolution required to address the complex mechanisms that determine therapeutic success.

Optimize cell and gene therapies with single cell multiomics

While immune cell therapies like chimeric antigen receptor (CAR) T cell therapy have been effective for treating some cancers, untangling the mechanisms behind patient response, resistance, and development of toxicities after infusion continues to be a critical focus of ongoing research. Browse this collection of publications to see how researchers are applying single cell sequencing and immune profiling tools to study these complexities and accelerate novel translational applications in therapeutic development and treatment.
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Increased intratumoral heterogeneity after the onset of therapy resistance in small-cell lung cancer

Hear from researchers at the MD Anderson Cancer Center leveraging single cell transcriptomic profiling to investigate small-cell lung cancer and the dramatic shift from initial robust treatment responses to rapid relapse with extremely poor therapeutic results. Their single cell analyses suggest that increasing intratumoral heterogeneity at the transcriptional level, following initial therapy, is a key mediator in treatment resistance.


Ready to talk to a 10x-pert? Contact us about single cell and spatial multiomic solutions for cancer research.
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