Proof of Concept for Tumor Mutational Burden Prediction Through Biophysical Analysis Based on UHF-Dielectrophoresis
Abstract
1. Introduction
2. Materials and Methods
2.1. Cell Culture
2.2. ENU Treatment
2.3. Electromagnetic Signature Analysis
2.4. DEP Medium Preparation
2.5. Genomic DNA Extraction and Qualification
2.6. Tumor Samples
2.7. TMB Determination by Next-Generation-Sequencing
2.8. Statistical Analysis
3. Results
3.1. Analysis Workflow Development: Focus on Maintaining Cell Viability
3.2. Discrepancies Between Methods for TMB Calculation
3.3. Relevance of EMS for Determining TMB in Solid Tumor Cells
3.4. Assessing TMB and EMS in Response to Evolving Mutations
4. Discussion
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
| ATCC | American Type Culture Collection |
| CCLE | Cancer Cell Line Encyclopedia |
| CF | Crossover Frequency |
| CTLA-A | Cytotoxic T-lymphocyte-associated protein 4 |
| DEP | Dielectrophoresis |
| DEP-B | DEP-Buffer |
| DMEM | Dulbecco’s Modified Eagle Medium |
| DMSO | Dimethyl Sulfoxide |
| DNA | Deoxyribonucleic Acid |
| EMS | Electromagnetic Signature |
| ENU | N-ethyl-N-nitrosourea |
| FDA | Food and Drug Administration |
| FBS | Fetal Bovine Serum |
| FDEP | Dielectrophoretic Force |
| FMI | Foundation Medicine, Inc. |
| ICI | Immune Checkpoint Inhibitors |
| nDEP | negative DEP |
| pDEP | Positive DEP |
| PCR | Polymerase Chain Reaction |
| qPCR | Quantitative Polymerase Chain Reaction |
| PD-1 | Programmed cell Death protein 1 |
| PD-L1 | Programmed Death-Ligand 1 |
| RF | Radio Frequency |
| TMB | Tumor Mutational Burden |
| UHF | Ultra High-Frequency |
| VSWR | Voltage Standing Wave Ratio |
| WES | Whole Exome Sequencing |
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| (A) | (B) | ||||||
|---|---|---|---|---|---|---|---|
| OncomineTM | CCLE | TMB | |||||
| TMB | Mutation Count | TMB | Mutation Count | Foundation Medicine | OncomineTM | ||
| U87-MG | 3.69 | 613 | 4.77 | 140 | Neg. template | 0 | |
| DAOY | 5.9 | 804 | 7.27 | 214 | Tumor A | 0 | 1.78 |
| H1975 | 9.56 | 707 | 11.36 | 337 | Tumor B | 117 | 90.18 |
| MEL-28 | 11.66 | 739 | 10.67 | 321 | |||
| MEL-5 | 13.45 | 966 | 18.57 | 549 | |||
| A549 | 14.76 | 859 | 18.97 | 561 | |||
| SW480 | 17.97 | 709 | 18.8 | 565 | |||
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© 2026 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license.
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Daverat, H.; Blasco, N.; Robert, S.; Rovini, A.; Dalmay, C.; Lalloué, F.; Pothier, A.; Durand, K.; Naves, T. Proof of Concept for Tumor Mutational Burden Prediction Through Biophysical Analysis Based on UHF-Dielectrophoresis. Biosensors 2026, 16, 134. https://doi.org/10.3390/bios16030134
Daverat H, Blasco N, Robert S, Rovini A, Dalmay C, Lalloué F, Pothier A, Durand K, Naves T. Proof of Concept for Tumor Mutational Burden Prediction Through Biophysical Analysis Based on UHF-Dielectrophoresis. Biosensors. 2026; 16(3):134. https://doi.org/10.3390/bios16030134
Chicago/Turabian StyleDaverat, Héloïse, Nina Blasco, Sandrine Robert, Amandine Rovini, Claire Dalmay, Fabrice Lalloué, Arnaud Pothier, Karine Durand, and Thomas Naves. 2026. "Proof of Concept for Tumor Mutational Burden Prediction Through Biophysical Analysis Based on UHF-Dielectrophoresis" Biosensors 16, no. 3: 134. https://doi.org/10.3390/bios16030134
APA StyleDaverat, H., Blasco, N., Robert, S., Rovini, A., Dalmay, C., Lalloué, F., Pothier, A., Durand, K., & Naves, T. (2026). Proof of Concept for Tumor Mutational Burden Prediction Through Biophysical Analysis Based on UHF-Dielectrophoresis. Biosensors, 16(3), 134. https://doi.org/10.3390/bios16030134

