Assays
HTG EdgeSeq Oncology Biomarker Panel

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.

Request A Quote

Features and Benefits

  • Simultaneous, quantitative detection of 2,549 genes 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

Learn More

Sample Requirements

Sample Type Recommended Sample Input

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

Extracted RNA from FFPE 35 ng
PAXgene 500 µl
FFPE Tissue One 5 µm section
Cells ≥3,000 cells
Extracted RNA from Frozen 10 - 35 ng

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.

Processor Day 1 Day 2 Day 3 Overall
         
P23 0.96 0.96 0.96 0.96
P31 0.96 0.96 0.96 0.96
P33 0.96 0.97 0.96 0.96
Overall 0.96 0.96 0.96 0.96

Graph of Pearson Correlations for all Replicate Pairs

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
KLK3 (PSA) - Prostate Cancer Marker
CDX2 - Colorectal Cancer Marker
CDX2 - Colorectal Cancer Marker
KRT7 - Breast and Lung Cancer Marker
KRT7 - Breast and Lung Cancer Marker
NKX2-1 (TTF-1) - 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 Scientific 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)
916-002-196 HTG EdgeSeq Oncology Biomarker Panel (1X96)

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

Integrated Molecular Profiling of Genitourinary Tumors: Applications for Personalized Radiotherapy
View Webinar

FFPE Tissue and the HTG EdgeSeq Oncology Biomarker Panel
View Webinar

Expression-Based Profiling of Challenging FFPE Tumor Samples
View Webinar

HTG EdgeSeq Oncology Biomarker Panel Product Sheet
Download pdf 967KB

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

Publications

Pan-cancer gene expression analysis of tissue microarray using EdgeSeq oncology biomarker panel and a cross-comparison with HER2 and HER3 immunohistochemical analysis
View External Link

Mutational And Gene Expression Profiling Of Blastic Plasmacytoid Dendritic Cell Neoplasm Reveals Two Distinct Age-Dependent Subgroups And A Role For Clonal Hematopoiesis In Elderly Patients
View External Link

NKG2A and HLA-E define an alternative immune checkpoint axis in bladder cancer
View External Link

Datasets for gene expression profiles of head and neck squamous cell carcinoma and lung cancer treated or not by PD1/PD-L1 inhibitors
View External Link

Comparative biomarker analysis of PALOMA-2/3 trials for palbociclib
View External Link

Prognostic Value of EZH2 Expression for Immunotherapy-based Schemes in Advanced Soft-tissue Sarcoma
Download pdf 2.1MB

Biomarkers for Response to Immunotherapy in Triple-Negative Breast Cancer - Differences Between Survival and pCR Biomarkers
Download pdf 674KB

P-481 Characterization of the gene expression profile of breast cancer tumours in patients undergoing ovarian stimulation for fertility preservation purposes
View External Link

OTHR-43. Composition of Cell-Free miRNA in Cerebrospinal Fluid and Plasma as a Monitoring Tool for Pediatric Brain Tumors
View External Link

Genetic and phenotypic attributes of splenic marginal zone lymphoma
View External Link

Abstract PD2-07: Impact of using cross-platform gene expression profiling technologies and computational methods for intrinsic breast cancer subtyping in PALOMA-2 and PALLET
View External Link

Oropharyngeal cancer outcomes correlate with p16 status, multinucleation and immune infiltration
View External Link

Abstract PD2-04: Molecular plasticity of luminal breast cancer and response to CDK 4/6 inhibition - The biomarker program of the PENELOPE-B trial investigating post-neoadjuvant palbociclib
View External Link

Biological processes associated with the efficacy of sunitinib plus nivolumab in soft tissue sarcoma: correlative studies of the IMMUNOSARC trial of Spanish (GEIS) and Italian (ISG) sarcoma groups - poster
Download pdf 1.0MB

Tomentosin a Sesquiterpene Lactone Induces Antiproliferative and Proapoptotic Effects in Human Burkitt Lymphoma by Deregulation of Anti- and Pro-Apoptotic Genes
View External Link

The pulmonary pathology of COVID-19. Virchows Arch (2021). https://doi.org/10.1007/s00428-021-03053-1 2.21.2021 FFPE
Download pdf 6.6MB

HTG EdgeSeq technology offers a competitive alternative to RNA-Seq with equivalent performance and distinct advantages.
Download pdf 613KB

Enapotamab vedotin, an AXL-specific antibody-drug conjugate, shows preclinical antitumor activity in non-small cell lung cancer.
Download pdf 3.8MB

Reliable Gene Expression Profiling from Small and Hematoxylin and Eosin-Stained Clinical Formalin-Fixed, Paraffin-Embedded Specimens Using the HTG EdgeSeq Platform
View External Link


Download ppt 1.1MB

Gene expression and genetic variants in Parkinson's disease (PD) genes to predict outcome in metastatic colorectal cancer (mCRC): Data from FIRE-3 phase III trial.
View External Link

Baseline tumor-immune signatures associated with response to bempegaldesleukin (NKTR-214) and nivolumab
View External Link

Gene expression comparison between primary triple-negative breast cancer and matched axillary lymph node metastasis
Download pdf 1.2MB
View External Link

Association of an Inflammatory Gene Signature with CD8 Expression by Immunohistochemistry (IHC) in Multiple Tumor Types.
Download pdf 606KB
View External Link

Predicting Response to Neoadjuvant Therapy in Oesophageal Adenocarcinoma Pre-Treatment Biopsies
Download pdf 1.5MB

EMT- and stroma-related gene expression and resistance to PD-1 blockade in urothelial cancer
Download pdf 2.0MB

Randomized phase II neoadjuvant study (GepartNuevo) to investigate the addition of durvalumab to a taxane-anthracycline containing chemotherapy in triple negative breast cancer (TNBC)
Download pdf 2.8MB
View External Link

Correlation between gene expression and prognostic biomarkers in small cell bladder cancer (SCBC).
Download ppt 1.2MB
View External Link

Effect of rilimogene galvacirepvec/rilimogene glafolivec on intra/peritumoral immune infiltrate in patients with localized prostate cancer undergoing radical prostatectomy.
View External Link

A biologic basis for locoregional failure in patients with oral cavity cancers
View External Link

Integrative omics to detect bacteremia in patients with febrile neutropenia
Download pdf 3.1MB

Prognostic value of CD56, ASCL1, and other biomarkers in small cell bladder cancer (SCBC).
View External Link

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 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

Evaluation and selection of a non-PCR based technology for improved gene expression profiling from clinical formalin-fixed, paraffin-embedded samples
Download pdf 1.0MB
View External Link

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


View All Publications

Learn More

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

Stay up to date on HTG Product, Service & Event announcements.

*Required field


Page last updated June 29, 2022