Coding Schemes for DNA Patient Record Processing to Electronic Health Records Systems
Year 2021,
Volume: 1 Issue: 2, 49 - 54, 31.12.2021
Izabela Mitreska
,
Ninoslav Marina
Natasa Dimoska
Abstract
Lately, electronic health record (EHR) systems became very popular in medical technology. The main aim of such systems is to perform a digital version of a patient’s paper chart. EHRs are real-time, patient-centered records that make information available instantly to authorized users. One critical patient record is the DNA sequence, which should be processed and stored in the EHR without any modifications. Therefore, in this paper, we focus on how DNA sequence can be reliably processed to EHR systems. By introducing coding technique on top of the information we implemented the wanted security. We consider and analyze two coding schemes, the Hamming code and Reed-Solomon, on the same data sample. The results are summarized and compared by error detection and error correction values. The final outputs show that Reed-Solomon coding scheme outperforms the Hamming code scheme for reliably and securely processing the DNA record to the EHR.
Supporting Institution
UIST ”St. Paul the Apostle”
Thanks
Ninoslav Marina, Natasa Dimoska
References
- Mitreska I., Marina N., Capeska Bogatinoska D. (2021) Electronic Health Records System for Efficient Healthcare Services. In: Badnjevic A., Gurbeta Pokvić L. (eds) CMBEBIH 2021. CMBEBIH 2021. IFMBE Proceedings, vol 84. Springer, Cham. https://doi.org/10.1007/978-3-030-73909-6_
- A. Blanco and G. Blanco, “Nitrogenous Base”, Science Direct, 2017
- C. N. Takahashi, B. H. Nguyen, K. Strauss, and L. Ceze, “Demonstration of End-to-End Automation of DNA Data Storage,” Scientific Reports, vol. 9, pp. 4998, 2019
- S. Mahmood, M. J. Khan and S. Anwer, “Applications of Security Reference Architectures in Distributed Systems: Initial Findings of Systematic Mapping Study”, Tenth International Conference on Software Engineering Advances, 2015
- J. A. Milstein, J. Everson, S. D. Lee, “EHR Adoption and Hospital Performance: Time‐Related Effects”, Health Research and Educational Trust, vol. 50, pp. 1751-1771, 2015
- I. Shadmanov and K. Shadmanova, “Summarization of Various Security Aspects and Attacks in Distributed Systems: A Review”, Advances in Computer Science: an International Journal, vol. 5, no. 19, January, 2016
- E. Bertino, “Introduction to Data Security and Privacy”, Springer, pp. 125-126, September, 2016
- G. F. Elkabbany and M. Rasslan, “Security Issues in Distributed Computing System Models”, IGI Global, 2017
- K. E. M. Msiska, A. Kumitawa and B. Kumwenda, “Factors affecting the utilization of electronic medical records system in Malawian central hospitals”, M. M. Journal, pp. 247-253, September, 2017
- D. Wani and M. Malhota, “Does the meaningful use of electronic health records improve patient outcomes?”, Journal of Operations Management, vol. 60, pp. 1-18, June, 2018
- C. S. Kruse, A. Stein, H. Thomas and H. Kaur, “The use of Electronic Health Records to Support Population Health: A Systematic Review of the Literature”, M. M. Journal, September, 2018
- V. C. Hu, D. R. Kuhn and D. F. Ferraiolo, “Access Control for Emerging Distributed Systems”, National Institute of Standards and Technology, 2018
- S. Chenthara, K. Ahmed, H. Wang and F. Whittaker, “Security and Privacy-Preserving Challenges of e-Health Solutions in Cloud Computing”, IEEE Access – Multidisciplinary open access journal, May 2019
- E. Lupu, “Distributed Systems Security”, The National Cyber Security Centre, October, 2019
- N. Paunkoska and A. Risteski, “Security in distributed storage systems – Encryption algorithm vs. Coding schemes”, Journal of Electrical Engineering and Information Technologies, November, 2019
- T. R. Schopf, B. Nedrebq, K. O. Hufthammer, I. K. Daphu and H. Laerum, “How well is the electronic health record supporting the clinical tasks of hospital physicians? A survey of physicians at three Norwegian hospitals”, BMC Health Services Research, December, 2019
- L. Li, C. Chang, J. Bai, H. Le, C. Chen and T. Meen, “Hamming Code Strategy for Medical Image Sharing”, Applied System Innovation – An Open Access Journal from MDPI, January 2020
- M. Blawat, K. Gaedke, I. H¨utter, X.-M. Chen, B. Turczyk, S. Inverso, B. W. Pruitt, and G. M. Church, “Forward Error Correction for DNA Data Storage,” Procedia Computer Science, vol. 80, pp. 1011–1022, 2016
- R. N. Grass, R. Heckel, M. Puddu, D. Paunescu, and W. J. Stark, “Robust chemical preservation of digital information on DNA in silica with error-correcting codes,” Angewandte Chemie - International Edition, vol. 54, pp. 2552–2555, 2 2015
- L. Organick, S. D. Ang, Y.-J. Chen, R. Lopez, S. Yekhanin, K. Makarychev, M. Z. Racz, G. Kamath, P. Gopalan, B. Nguyen, C. N. Takahashi, S. Newman, H.-Y. Parker, C. Rashtchian, K. Stewart, G. Gupta, R. Carlson, J. Mulligan, D. Carmean, G. Seelig, L. Ceze, and K. Strauss, “Random access in large-scale DNA data storage,” Nature Biotechnology, vol. 36, pp. 242–248, 2 2018
- E. Slingerland, “DNA Data Storage Hamming and Reed-Solomon Codes”, Delft, Nederlands, June 2019
Coding Schemes for DNA Patient Record Processing to Electronic Health Records Systems
Year 2021,
Volume: 1 Issue: 2, 49 - 54, 31.12.2021
Izabela Mitreska
,
Ninoslav Marina
Natasa Dimoska
Abstract
Lately, electronic health record (EHR) systems became very popular in medical technology. The main aim of such systems is to perform a digital version of a patient’s paper chart. EHRs are real-time, patient-centered records that make information available instantly to authorized users. One critical patient record is the DNA sequence, which should be processed and stored in the EHR without any modifications. Therefore, in this paper, we focus on how DNA sequence can be reliably processed to EHR systems. By introducing coding technique on top of the information we implemented the wanted security. We consider and analyze two coding schemes, the Hamming code and Reed-Solomon, on the same data sample. The results are summarized and compared by error detection and error correction values. The final outputs show that Reed-Solomon coding scheme outperforms the Hamming code scheme for reliably and securely processing the DNA record to the EHR.
References
- Mitreska I., Marina N., Capeska Bogatinoska D. (2021) Electronic Health Records System for Efficient Healthcare Services. In: Badnjevic A., Gurbeta Pokvić L. (eds) CMBEBIH 2021. CMBEBIH 2021. IFMBE Proceedings, vol 84. Springer, Cham. https://doi.org/10.1007/978-3-030-73909-6_
- A. Blanco and G. Blanco, “Nitrogenous Base”, Science Direct, 2017
- C. N. Takahashi, B. H. Nguyen, K. Strauss, and L. Ceze, “Demonstration of End-to-End Automation of DNA Data Storage,” Scientific Reports, vol. 9, pp. 4998, 2019
- S. Mahmood, M. J. Khan and S. Anwer, “Applications of Security Reference Architectures in Distributed Systems: Initial Findings of Systematic Mapping Study”, Tenth International Conference on Software Engineering Advances, 2015
- J. A. Milstein, J. Everson, S. D. Lee, “EHR Adoption and Hospital Performance: Time‐Related Effects”, Health Research and Educational Trust, vol. 50, pp. 1751-1771, 2015
- I. Shadmanov and K. Shadmanova, “Summarization of Various Security Aspects and Attacks in Distributed Systems: A Review”, Advances in Computer Science: an International Journal, vol. 5, no. 19, January, 2016
- E. Bertino, “Introduction to Data Security and Privacy”, Springer, pp. 125-126, September, 2016
- G. F. Elkabbany and M. Rasslan, “Security Issues in Distributed Computing System Models”, IGI Global, 2017
- K. E. M. Msiska, A. Kumitawa and B. Kumwenda, “Factors affecting the utilization of electronic medical records system in Malawian central hospitals”, M. M. Journal, pp. 247-253, September, 2017
- D. Wani and M. Malhota, “Does the meaningful use of electronic health records improve patient outcomes?”, Journal of Operations Management, vol. 60, pp. 1-18, June, 2018
- C. S. Kruse, A. Stein, H. Thomas and H. Kaur, “The use of Electronic Health Records to Support Population Health: A Systematic Review of the Literature”, M. M. Journal, September, 2018
- V. C. Hu, D. R. Kuhn and D. F. Ferraiolo, “Access Control for Emerging Distributed Systems”, National Institute of Standards and Technology, 2018
- S. Chenthara, K. Ahmed, H. Wang and F. Whittaker, “Security and Privacy-Preserving Challenges of e-Health Solutions in Cloud Computing”, IEEE Access – Multidisciplinary open access journal, May 2019
- E. Lupu, “Distributed Systems Security”, The National Cyber Security Centre, October, 2019
- N. Paunkoska and A. Risteski, “Security in distributed storage systems – Encryption algorithm vs. Coding schemes”, Journal of Electrical Engineering and Information Technologies, November, 2019
- T. R. Schopf, B. Nedrebq, K. O. Hufthammer, I. K. Daphu and H. Laerum, “How well is the electronic health record supporting the clinical tasks of hospital physicians? A survey of physicians at three Norwegian hospitals”, BMC Health Services Research, December, 2019
- L. Li, C. Chang, J. Bai, H. Le, C. Chen and T. Meen, “Hamming Code Strategy for Medical Image Sharing”, Applied System Innovation – An Open Access Journal from MDPI, January 2020
- M. Blawat, K. Gaedke, I. H¨utter, X.-M. Chen, B. Turczyk, S. Inverso, B. W. Pruitt, and G. M. Church, “Forward Error Correction for DNA Data Storage,” Procedia Computer Science, vol. 80, pp. 1011–1022, 2016
- R. N. Grass, R. Heckel, M. Puddu, D. Paunescu, and W. J. Stark, “Robust chemical preservation of digital information on DNA in silica with error-correcting codes,” Angewandte Chemie - International Edition, vol. 54, pp. 2552–2555, 2 2015
- L. Organick, S. D. Ang, Y.-J. Chen, R. Lopez, S. Yekhanin, K. Makarychev, M. Z. Racz, G. Kamath, P. Gopalan, B. Nguyen, C. N. Takahashi, S. Newman, H.-Y. Parker, C. Rashtchian, K. Stewart, G. Gupta, R. Carlson, J. Mulligan, D. Carmean, G. Seelig, L. Ceze, and K. Strauss, “Random access in large-scale DNA data storage,” Nature Biotechnology, vol. 36, pp. 242–248, 2 2018
- E. Slingerland, “DNA Data Storage Hamming and Reed-Solomon Codes”, Delft, Nederlands, June 2019