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HTG EdgeSeq Oncology Biomarker Panel

The HTG EdgeSeq Oncology Biomarker Panel (OBP) is a systems biology pathway analysis tool that profiles samples to identify therapeutic targets and drug response markers. The OBP assay utilizes our automated HTG EdgeSeq system coupled with the sensitivity and dynamic range of next-generation sequencing (NGS)-based detection, and can be performed in your lab using the HTG EdgeSeq system, from our VERI/O lab as a service, or at one of the Qualified Service Provider (QSP) sites.

For Research Use Only. Not for Use in Diagnostic Procedures.

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Features and Benefits

  • Simultaneous, quantitative detection of 2,560 transcripts associated with tumor biology
  • Extraction-free: reduce extraction-associated data bias and sample loss
  • Reliable, reproducible performance from a single formalin-fixed, paraffin-embedded (FFPE) needle core biopsy slide
  • Gain insights faster: results in as little as 36 hours
  • Simplified data analysis: raw numerical data output provided in Excel format

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Sample Requirements

Sample Type HTG EdgeSeq Oncology Biomarker Panel

Larger sample input amounts must be diluted. Please consult the assay package insert and HTG EdgeSeq System User Manual for more details. 

FFPE TissueOne 5 µm section
Extracted RNA from FFPE35 ng / 35 µl
Extracted RNA from Frozen10 - 35 ng
PAXgene500 µl
Cells≥3,000 cells

Performance

Pearson correlations for all replicate pairs within each condition are summarized in the table below. The vertical line in the histogram represents the median correlation for all 225 Pearson correlation pairs.

ProcessorDay 1Day 2Day 3Overall
     
P230.960.960.960.96
P310.960.960.960.96
P330.960.970.960.96
Overall0.960.960.960.96

Applications

  • Assess FFPE tumor samples for potential biomarkers
  • Subtype tumors based on cellular origin, treatment response, or aggressiveness
  • Develop predictive and prognostic gene signatures

Breast, colon, lung, and prostate FFPE tumor tissue were processed with the HTG EdgeSeq Oncology Biomarker Panel.  Data are displayed as normalized counts per million (CPM).

KLK3 (PSA) - Prostate Cancer Marker
CDX2 - Colorectal Cancer Marker
KRT7 - Breast and Lung Cancer Marker
NKX2-1 (TTF-1) - Lung Cancer Marker

 

Ordering Information

When placing an order, please specify the catalog number. The HTG EdgeSeq Oncology Biomarker Panel is compatible with both Illumina sequencers and Thermo Fisher Ion Torrent sequencers.

Kit Configurations for use with Illumina Sequencers

916-002-208 HTG EdgeSeq Oncology Biomarker Panel (2x8) 
916-002-008 HTG EdgeSeq Oncology Biomarker Panel (4x8) 
916-002-224 HTG EdgeSeq Oncology Biomarker Panel (1x24) 
916-002-024 HTG EdgeSeq Oncology Biomarker Panel (4x24) 
916-002-096 HTG EdgeSeq Oncology Biomarker Panel (1x96) 

Kit Configurations for use with Thermo Fisher Ion Torrent Sequencers

916-002-308 HTG EdgeSeq Oncology Biomarker Panel (2x8) 
916-002-108 HTG EdgeSeq Oncology Biomarker Panel (4x8) 
916-002-324 HTG EdgeSeq Oncology Biomarker Panel (1x24) 
916-002-124 HTG EdgeSeq Oncology Biomarker Panel (4x24)

For Research Use Only. Not for Use in Diagnostic Procedures.

Request A Quote

Resources and Publications

Learn more about the HTG EdgeSeq Oncology Biomarker Panel

Resources

Biopharma and HTG Molecular Diagnostics Brochure
Download pdf 678KB

Comprehensive Tumor Profiling of Immune Response and Systems Biology Brochure
Download pdf 374KB

HTG EdgeSeq Oncology Biomarker Panel Complete Gene List
Download pdf 345KB

HTG EdgeSeq Oncology Biomarker Panel Gene List By Group
Download pdf 241KB

HTG EdgeSeq Oncology Biomarker Panel Product Sheet
Download pdf 1.1MB

Select and download available HTG EdgeSeq Oncology Biomarker Panel genes
View Link

Publications

PQR309 is a novel dual P13K/mTOR inhibitor with pre-clinical anti-tumor activity in lymphomas as a single agent and in combination therapy.
View External Link

Association of immune-related genes to neutrophil-lymphocyte ratio (NLR) with survival of cetuximab treatment for metastatic colorectal cancer (mCRC)
View External Link

Reliable Gene Expression Profiling from Smaller and H & E-Stained Clinical FFPE Specimens Using HTG EdgeSeq Platform
Download pdf 1.3MB

The immune microenvironment of HPV-negative oral squamous cell carcinoma from never-smokers and never-drinkers patients suggests higher clinical benefit of IDO1 and PD1/PD-L1 blockade
View External Link

The promising impact of molecular profiling on treatment strategies in oral cancers.
Download pdf 706KB
View External Link

Association of gene signature to identify molecular subtypes with clinical outcomes of 1st-line cetuximab (cet) treatment for metastatic colorectal cancer (mCRC)
View External Link

Phase II study of dovitinib in patients (Pts) progressing on anti-vascular endothelial growth factor (VEGF) therapy
Download pdf 848KB

HTG EdgeSeq Oncology Biomarker Panel (OBP), an NGS-based Measurement of Gene Expression of 2,560 Oncology-Related genes in FFPE tissue in different sample types.
Download pdf 2.6MB

Evaluation and selection of a non-PCR based technology for improved gene expression profiling from clinical formalin-fixed, paraffin-embedded samples
View External Link

An Expression Signature as an Aid to the Histologic Classification of Non-Small Cell Lung Cancer
View External Link

FFPE Tissue and the HTG EdgeSeq Oncology Biomarker Panel
View Webinar

Gene expression profiling of transplant formalin-fixed, paraffin-embedded biopsies: comparison of a custom TaqMan low density array and quantitative nuclease-protection assay
View External Link

Alteration of ADCC-related genes as a novel predictor of efficacy of cetuximab (cet)-based chemotherapy in patients (pts) with metastic colorectal cancer (mCRC)
Download pdf 463KB
View External Link

Expression-Based Profiling of Challenging FFPE Tumor Samples
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Combining Automated Tissue Dissection with Extraction Free Nucleic Acid Analysis
View External Link

FFPE Tissue and the HTG Oncology Biomarker Panel: Low-Input, Extraction-Free Gene Expression Pilot Study
Download pdf 2.9MB


Download pdf 1.1MB


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For further information about the HTG EdgeSeq Oncology Biomarker Panel, please fill out the registration form below. Or call us at (877) 507-3259.

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Page last updated January 15, 2018