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Applications

More confident molecular testing

The QCPRECISE™ platform is built for applications where tissue quality, tumor content, spatial context, and sample stewardship matter. From genomic profiling to transcriptomic analysis and future multiomic workflows, QCPRECISE enables researchers and molecular pathology teams to extract more meaningful data from the tissue regions that matter most.

Data below from projects with Mayo Clinic and Singapore General Hospital.

Paired box plot of variant allele frequency (VAF) for SNVs recovered by manual dissection versus QuantumCyte enrichment, Mayo Clinic samples. The median VAF rises from about 0.29 with manual dissection to 0.45 with QuantumCyte, with most paired calls shifting upward.
Paired plot of variant allele frequency (VAF) by method for Singapore General Hospital samples. Manual dissection versus QuantumCyte (Qcyte); the median Qcyte VAF is 2.70× the median manual VAF (P = 1.967×10⁻¹⁰), with most paired calls shifting upward.
Genomics

High-confidence DNA testing begins with better tissue enrichment.

Genomic assays depend on the quality and composition of the tissue that enters the workflow. Low tumor content, stromal admixture, necrosis, inflammation, and limited biopsy material can reduce assay sensitivity, increase uncertainty, or prevent samples from moving forward to testing.

QCPRECISE™ enables pathology-guided tissue enrichment prior to DNA extraction. Using manual or AI annotations, the platform isolates selected regions of interest and delivers enriched DNA inputs for downstream genomic applications, including NGS, qPCR, and other molecular assays.

By enriching the tissue region before extraction, QuantumCyte helps laboratories increase the molecular signal from clinically relevant cells while reducing dilution from surrounding non-target tissue.

Bar chart of percent VAF increase by gene per sample across four low-tumor-content samples (5–14% tumor content). Genes including TP53, KRAS, CDKN2A, and EGFR show VAF increases ranging from roughly 15% to nearly 500% after QuantumCyte enrichment.
Data from Roche and QuantumCyte joint poster at the Association for Molecular Pathology 2025 Annual Conference.
Transcriptomics

Align RNA readouts with the tissue regions that matter most.

Transcriptomic analysis provides critical insight into gene expression, tumor biology, immune activity, pathway activation, and disease state. However, RNA-based workflows are highly dependent on the cellular composition of the input tissue. When target regions are diluted by surrounding tissue, the resulting expression profile may obscure the biology of interest.

QCPRECISE™ enables region-specific tissue enrichment prior to RNA extraction, helping researchers and laboratories generate transcriptomic data from defined pathology-guided regions. This allows teams to better align gene expression data with the underlying tissue architecture and biological context visible on the slide.

The result is a more targeted RNA input that can support applications such as RNA sequencing, expression profiling, biomarker discovery, translational research, and assay development.

Precision extraction resulted in differential clustering of tumor buds vs carcinoma, showing that gene expression between segments is different

Three-dimensional PCA plot of transcriptomic profiles from four colorectal cancer samples (CRC14–CRC17). Tumor-bud regions (red) and carcinoma regions (blue) resolve into distinct clusters, showing region-specific expression differences. PC#1 explains 29.5% of variance, PC#2 17.2%, and PC#3 15.5%.

Data from project with Mayo Clinic.

Multiomics

One tissue region. Multiple molecular insights.

As molecular pathology moves toward multimodal analysis, the ability to connect tissue morphology with genomic, transcriptomic, and proteomic data becomes increasingly important. QCPRECISE™ provides a foundation for multiomic tissue analysis by enabling pathology-guided enrichment from selected regions of interest.

The platform is designed to support extraction workflows that can generate DNA, RNA, and protein lysates from spatially defined tissue regions. Today’s platform can be used for genomics and transcriptomics applications, with proteomics and broader multiomic applications becoming available in the future.

By helping teams analyze multiple molecular layers from pathology-matched regions, QCPRECISE™ creates a bridge between digital pathology and downstream molecular data. This supports a future where tissue selection, molecular profiling, and multimodal analytics work together to deliver deeper biological insight from limited samples.

Future Application Area: Proteomics

QuantumCyte is exploring future applications where precision tissue enrichment may support protein-based analysis. Please contact us for more information about our proteomics applications.

Patient tissue sample
Region-of-interest selection

QCPRECISE™

Spatially precise tissue enrichment

ScanAnnotatePrintExtract
Enriched DNA / RNA / Protein

Genomics

DNA sequencing, mutation detection

Transcriptomics

RNA sequencing, gene expression

Proteomics

Protein analysis

(In development)

Multimodal analytics

Spatial pathology
Genomic data
Transcriptomic data
Proteomic data
Improved assay sensitivity & specificity
Biomarker discovery & validation
Patient stratification & therapy selection
Workflow & test-performance monitoring

Questions

Everything you need to know about QuantumCyte's applications in your lab.

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