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ToolsHunter, Ewan, Alshaker, Heba, Weston, Cicely, Issa, Mutaz, Bautista, Shekinah, Gebregzabhar, Abel, Virdi, Anya, Dring, Ann, Powell, Ryan, Green, Jayne, Lal, Roshan, Velchuru, Vamsi, Aryal, Kamal, Bin Abu Hassan, Muhammad Radzi, Meng, Goh Tiong, Patel, Janisha Suriakant, Mohamed Gani, Shameera Pharveen, Lim, Chun Ren, Guiel, Thomas, Akoulitchev, Alexandre and Pchejetski, Dmitri (2025) A new blood-bBased epigenetic diagnostic biomarker test (EpiSwitch®® NST) with high sensitivity and positive predictive value for colorectal cancer and precancerous polyps. Cancers, 17 (3). ISSN 2072-6694
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Abstract
Background/Objectives: Colorectal cancer (CRC) arises from the epithelial lining of the colon or rectum, often following a progression from benign adenomatous polyps to malignant carcinoma. Screening modalities such as colonoscopy, faecal immunochemical tests (FIT), and FIT-DNA are critical for early detection and prevention, but non-invasive methods lack sensitivity to polyps and early CRC. Chromosome conformations (CCs) are potent epigenetic regulators of gene expression. We have previously developed an epigenetic assay, EpiSwitch®®, that employs an algorithmic-based CCs analysis. Using EpiSwitch®® technology, we have shown the presence of cancer-specific CCs in peripheral blood mononuclear cells (PBMCs) and primary tumours of patients with melanoma and prostate cancer. EpiSwitch®®-based commercial tests are now available to diagnose prostate cancer with 94% accuracy (PSE test) and response to immune checkpoint inhibitors across 14 cancers with 85% accuracy (CiRT test). Methods/Results/Conclusions: Using blood samples collected from n = 171 patients with CRC, n = 44 patients with colorectal polyps and n = 110 patients with a ‘clear’ colonoscopy we performed whole Genome DNA screening for CCs correlating to CRC diagnosis. Our findings suggest the presence of two eight-marker CC signatures (EpiSwitch®® NST) in whole blood that allow diagnosis of CRC and precancerous polyps, respectively. Independent validation cohort testing demonstrated high accuracy in identifying colorectal polyps and early versus late stages of CRC with an exceptionally high sensitivity of 79–90% and a high positive prediction value of 60–84%. Linking the top diagnostic CCs to nearby genes, we have built pathways maps that likely underline processes contributing to the pathology of polyp and CRC progression, including TGFβ, cMYC, Rho GTPase, ROS, TNFa/NFκB, and APC.
| Item Type: | Article |
|---|---|
| Additional Information: | Data Availability Statement: The data presented in this study are available on request from the corresponding author. Funding Information: This work was funded by Oxford BioDynamics Plc. |
| Uncontrolled Keywords: | 3d-genomic profiling,blood-based biomarkers,cancer diagnosis,chromosome conformations,colonic polyp,colorectal cancer,epigenetics,oncology,cancer research,sdg 3 - good health and well-being ,/dk/atira/pure/subjectarea/asjc/2700/2730 |
| Faculty \ School: | Faculty of Medicine and Health Sciences > Norwich Medical School |
| UEA Research Groups: | Faculty of Medicine and Health Sciences > Research Centres > Metabolic Health |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 21 Jul 2025 10:35 |
| Last Modified: | 21 Jul 2025 10:35 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/99959 |
| DOI: | 10.3390/cancers17030521 |
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