Dergiler / Gazi Üniversitesi Mühendislik Mimarlık Fakültesi Dergisi / 2026 / Cilt: 41 Sayı: 2

Genomik verilerin güvenliği için transformer ağı destekli DNA şifreleme

Transformer network-enabled DNA encryption for genomic data security

Sayfa
841–854
Yayın Tarihi
2026-07-20
🏛️Bu makalenin bibliyografik verileri ve tam metin bağlantısı DergiPark üzerinden sağlanmıştır.
DergiPark Kaydı ↗
✨

Yapay Zeka Hızlı Bakış & Çıkarımlar

AI Insight
⚡ TL;DR(1 Cümlede Hızlı Çıkarım)

Test sonuçları, hem küçük hem de büyük veri setlerinde geleneksel yöntemlere kıyasla kayda değer performans artışlarını ortaya koymuştur.

📌 3 Maddede Bu Makale

🎯
Amaç & Hipotez:Teknolojik gelişmeler, genomik verilerin toplanması, işlenmesi ve iletilmesini mümkün kılarken, bu verilerin korunması kritik bir zorluk oluşturmaktadır.
📊
Temel Bulgular & Veri:Test sonuçları, hem küçük hem de büyük veri setlerinde geleneksel yöntemlere kıyasla kayda değer performans artışlarını ortaya koymuştur.
💡
Sonuç & Katkı:Farklı saldırı türlerine karşı kapsamlı koruma sağlayan bu sistem, geniş çaplı genomik verilerin güvenliği için güçlü ve hızlı bir çözüm sunarak, transformer sinir ağlarının kriptografideki potansiyelini göstermektedir.
🔬Tür:Araştırma Makalesi
📍Kapsam:Genişletilmiş Akademik Örneklem
⚙️Değişkenler:Genomik veri güvenliği · DNA şifreleme · yapay zekâ tabanlı kriptosistem

Özet

Teknolojik gelişmeler, genomik verilerin toplanması, işlenmesi ve iletilmesini mümkün kılarken, bu verilerin korunması kritik bir zorluk oluşturmaktadır. Mevcut şifreleme yöntemleri, yüksek işlem maliyetleri, karmaşık anahtar yönetimi ve sınırlı rastgelelik gibi nedenlerle geniş veri setlerinde yetersiz kalmaktadır. Bu çalışma, DNA hesaplamalarını ve transformer sinir ağı mimarisini birleştiren yenilikçi bir şifreleme sistemi önermektedir. Sistem, DNA hesaplamaları ve transformer sinir ağı mimarisi ile verileri şifrelerken, aynı zamanda güvenliği artırmak için dinamik bir sözde rastgele sayı üreteci (PRNG) geliştirmiştir. Üretilen DNA baz dizilimli dinamik PRNG, tüm NIST testlerini başarıyla geçerek güvenilir bir rastgelelik sunmuş, sinir ağı ise referans veriye bağımlı olmaksızın anahtar dizini oluşturmayı başarmıştır. Yöntemin, yüksek entropili DNA dizilerinin avantajları ve moleküler seviyede hesaplamaların paralel işlem kapasitesi sayesinde sofistike saldırılara karşı dayanıklı olduğu kanıtlanmıştır. Test sonuçları, hem küçük hem de büyük veri setlerinde geleneksel yöntemlere kıyasla kayda değer performans artışlarını ortaya koymuştur. Şifreleme ve çözme süreçlerinde sırasıyla 909 ve 1071 kat daha hızlı sonuçlar elde edilmiş, büyük veri setlerinde bu oranlar şifreleme için 923 kata, şifre çözme için ise 1714 kata kadar çıkmıştır. Farklı saldırı türlerine karşı kapsamlı koruma sağlayan bu sistem, geniş çaplı genomik verilerin güvenliği için güçlü ve hızlı bir çözüm sunarak, transformer sinir ağlarının kriptografideki potansiyelini göstermektedir.

Abstract

Although technological advances have made it possible to collect, process, and transmit genomic data, protecting this data poses a critical challenge. Existing encryption methods are inadequate for large datasets due to reasons such as high processing costs, complex key management, and limited randomness. This study proposes an innovative encryption system that combines DNA computations and a transforming neural network architecture. The system encrypts data with DNA computations and a transforming neural network architecture, while also developing a dynamic pseudo random number generator (PRNG) to increase security. The generated DNA base sequence dynamic PRNG successfully passed all NIST tests and provided reliable randomness, while the neural network was able to generate a key index without relying on reference data. The method has been proven to be resistant to sophisticated attacks thanks to the advantages of high-entropy DNA sequences and the parallel processing capacity of molecular-level computations. The test results revealed significant performance improvements compared to traditional methods on both small and large datasets. While 909 and 1071 times faster results were achieved in encryption and decryption operations, respectively, these rates increased up to 923 times for encryption and 1714 times for decryption in large datasets. Providing comprehensive protection against different types of attacks, this system offers a powerful and fast solution for the security of large-scale genomic data, demonstrating the potential of transformative neural networks in cryptography.

🔖

Bu Makaleye Atıf Yap

Kaya, A., Türkoğlu, İ. (2026). Genomik verilerin güvenliği için transformer ağı destekli DNA şifreleme. Gazi Üniversitesi Mühendislik Mimarlık Fakültesi Dergisi, Cilt: 41 Sayı: 2, 841–854. https://doi.org/10.17341/gazimmfd.1619337

📄 Tam Metin PDF Okuyucu

📄

PDF görüntüleyici hazırlanıyor...

Kaynakça (55)

  1. Al Aziz M.M., Sadat M.N., Alhadidi D., et al., Privacy-preserving techniques of genomic data-a survey, Brief Bioinform., 20, 887-895, 2019.
  2. Ewejobi P., Okokpujie K., Adetiba E., et al., Homomorphic Encryption for Genomics Data Storage on a Federated Cloud: A Mini Review, 2024 International Conference on Science, Engineering and Business for Driving Sustainable Development Goals (SEB4SDG), 1-13, 2024.
  3. Bonomi L., Huang Y., Ohno-Machado L., Privacy challenges and research opportunities for genomic data sharing, Nat Genet., 52, 646-654, 2020.
  4. Wan Z., Hazel J.W., Clayton E.W., et al., Sociotechnical safeguards for genomic data privacy, Nat Rev Genet., 23, 429-445, 2022.
  5. Jiang Y., Shang T., Liu J., SM algorithms-based encryption scheme for large genomic data files, Digit Commun Netw., 7, 543-550, 2021.
  6. Kantarcioglu M., Jiang W., Liu Y., et al., A cryptographic approach to securely share and query genomic sequences, IEEE Trans Inf Technol Biomed., 12, 606-617, 2008.
  7. Canim M., Kantarcioglu M., Malin B., Secure management of biomedical data with cryptographic hardware, IEEE Trans Inf Technol Biomed., 16, 166-175, 2011.
  8. Lu D., Li M., Liao Y., et al., Verifiable privacy-preserving queries on multi-source dynamic DNA datasets, IEEE Trans Cloud Comput., 11, 1927-1939, 2022.
  9. Hasan M.Z., Mahdi M.S.R., Sadat M.N., Mohammed N., Secure count query on encrypted genomic data, J Biomed Inform., 81, 41-52, 2018.
  10. Kızıl A., Karabulut K., Makespan and energy based virtual machine scheduling in cloud systems, Journal of the Faculty of Engineering and Architecture of Gazi University, 39 (3), 1661-1672, 2024.
  11. İlgün E.G., Samet R., Increasing the performance of intrusion detection models developed using machine learning method with preprocessing applied to the dataset, Journal of the Faculty of Engineering and Architecture of Gazi University, 39 (2), 679-692, 2024.
  12. Nassar M., Malluhi Q., Atallah M., et al., Securing aggregate queries for DNA databases, IEEE Trans Cloud Comput., 7, 827-837, 2019.
  13. Thabit F., Alhomdy S., Jagtap S., A new data security algorithm for cloud computing based on genetics techniques and logical-mathematical functions, Int J Intell Netw., 2, 18-33, 2021.
  14. Taj T.A., Hossain M.I., A multi-level random key cryptosystem based on DNA encoding and state-changing Mealy machine, J Inf Secur Appl., 83, 103760, 2024.
  15. Patel S., Thanikaiselvan V., Pelusi D., et al., Colour image encryption based on customized neural network and DNA encoding, Neural Comput Appl., 33, 14533-14550, 2021.
  16. Yang X., Lai L., Qiang X., et al., Towards Chinese text and DNA shift encoding scheme based on biomass plasmid storage, Front Bioinform., 3, 1276934, 2023.
  17. Şatir E., Kendirli O., A symmetric DNA encryption process with a biotechnical hardware, J King Saud Univ Sci., 34, 101838, 2022.
  18. Kalsi S., Kaur H., Chang V., DNA cryptography and deep learning using genetic algorithm with NW algorithm for key generation, J Med Syst., 42 (17), 2018.
  19. Basu S., Karuppiah M., Nasipuri M., et al., Bio-inspired cryptosystem with DNA cryptography and neural networks, J Syst Archit., 94, 24-31, 2019.
  20. Maddodi G., Awad A., Awad D., et al., A new image encryption algorithm based on heterogeneous chaotic neural network generator and DNA encoding, Multimed Tools Appl., 77, 24701-24725, 2018.
  21. Tirdad K., Sadeghian A., Hopfield neural networks as pseudo random number generators, 2010 Annual Meeting of the North American Fuzzy Information Processing Society, IEEE, 1-6, 2010.
  22. Wu Y., Zeng J., Dong W., et al., A novel color image encryption scheme based on hyperchaos and Hopfield chaotic neural network, Entropy, 24, 1474, 2022.
  23. Jeong Y.S., Oh K.J., Cho C.K., et al., Pseudo-random number generation using LSTMs, J Supercomput., 76, 8324-8342, 2020.
  24. Pasqualini L., Parton M., Pseudo random number generation through reinforcement learning and recurrent neural networks, Algorithms, 13, 307, 2020.
  25. Kim H., Kwon Y., Sim M., et al., Generative adversarial networks-based pseudo-random number generator for embedded processors, Information Security and Cryptology – ICISC 2020, Cilt 12593, Editör: Hong D., Springer, Cham, 2021.
  26. De Bernardi M., Khouzani M.H.R., Malacaria P., Pseudo-random number generation using generative adversarial networks, ECML PKDD 2018 Workshops, Cilt 11329, Editörler: Alzate C. ve diğerleri, Springer, Cham, 2019.
  27. Chai X., Tian Y., Gan Z., et al., A robust compressed sensing image encryption algorithm based on GAN and CNN, J Mod Opt., 69, 103-120, 2022.
  28. Raghuvanshi K.K., Kumar S., Kumar S., et al., Image encryption algorithm based on DNA encoding and CNN, Expert Syst Appl., 252, 124287, 2024.
  29. Okada K., Endo K., Yasuoka K., et al., Learned pseudo-random number generator: WGAN-GP for generating statistically robust random numbers, PLoS One, 18 (6), 2023.
  30. Duan X., Liu J., Zhang E., Efficient image encryption and compression based on VAE generative model, J Real-Time Image Process., 16, 765-773, 2019.
  31. Teng Y., Yang S., Liu L., et al., Nanoscale storage encryption: Data storage in synthetic DNA using a cryptosystem with a neural network, Sci China Life Sci., 65, 1673-1676, 2022.
  32. Alloun Y., Azzaz M.S., Kifouche A., A new approach based on artificial neural networks and chaos for designing deterministic random number generator and its application in image encryption, Multimed Tools Appl., 84 (9), 5825-5860, 2024.
  33. Sakr A.S., Shams M.Y., Mahmoud A., et al., Amino acid encryption method using genetic algorithm for key generation, Comput Mater Continua., 70, 123-134, 2022.
  34. Mukherjee P., Garg H., Pradhan C., et al., Best fit DNA-based cryptographic keys: The genetic algorithm approach, Sensors, 22, 7332, 2022.
  35. Petitcolas F.A.P., Kerckhoffs’ principle, Encyclopedia of cryptography, security and privacy, Editörler: Jajodia S., Samarati P., Yung M., Springer, Berlin, Heidelberg, 2023.
  36. Shannon C.E., A Mathematical Theory of Cryptography, Bell System Technical Memo MM 45-110-02, 1945.
  37. Schneider T., Tkachenko O., EPISODE: Efficient privacy-preserving similar sequence queries on outsourced genomic databases, Proceedings of the 2019 ACM Asia Conference on Computer and Communications Security, Auckland, New Zealand, 315-327, 2019.
  38. Ghasemi R., Al Aziz M.M., Mohammed N., et al., Private and efficient query processing on outsourced genomic databases, IEEE J Biomed Health Inform., 21, 1466-1472, 2016.
  39. Adleman L.M., Molecular computation of solutions to combinatorial problems, Science, 266, 1021-1024, 1994. 40. Sheela S.J., Suresh K.V., Tandur D., A novel audio cryptosystem using chaotic maps and DNA encoding, J Comput Netw Commun., 2017 (1), 2721910, 2017.
  40. National Center for Biotechnology Information (NCBI). Tribolium castaneum strain Georgia GA2 linkage group LG4, whole genome shotgun sequence. National Center for Biotechnology Information. https://www.ncbi.nlm.nih.gov/nuccore/CM000279.2. Yayın tarihi 10 Mart 2016. Erişim tarihi 1 Ocak 2025.
  41. Gymrek M., McGuire A.L., Golan D., et al., Identifying personal genomes by surname inference, Science, 339 (6117), 321-324, 2013.
  42. Karaca A., Aydın Ö., Generating headlines for Turkish news texts with transformer architecture based deep learning method, Journal of the Faculty of Engineering and Architecture of Gazi University, 39 (1), 485-495, 2024.
  43. Vaswani A., Shazeer N., Parmar N., et al., Attention is all you need, Adv Neural Inf Process Syst., 30, 5998-6008, 2017.
  44. Lian Z., Liu B., Tao J., CTNet: Conversational transformer network for emotion recognition, IEEE/ACM Trans Audio Speech Lang Process., 29, 985-1000, 2021.
  45. Han K., Xiao A., Wu E., et al., Transformer in transformer, Adv Neural Inf Process Syst., 34, 15908-15919, 2021.
  46. Jiang J., Ke L., Chen L., et al., Transformer technology in molecular science, Wiley Interdiscip Rev Comput Mol Sci., 14 (4), e1725, 2024.
  47. Sohal M., Sharma S., BDNA-A DNA inspired symmetric key cryptographic technique to secure cloud computing, J King Saud Univ Comput Inf Sci., 34, 1417-1425, 2022.
  48. Nagy I., Suciu A., Randomness Testing with Neural Networks, 2021 IEEE 17th International Conference on Intelligent Computer Communication and Processing (ICCP), IEEE, 431-436, 2021.
  49. Feng Y., Hao L., Testing randomness using artificial neural network, IEEE Access, 8, 163685-163693, 2020.
  50. Gautam T., Jain A., Analysis of Brute Force Attack Using TG—Dataset, 2015 SAI Intelligent Systems Conference (IntelliSys), IEEE, 984-988, 2015.
  51. Roy S., Shrivastava M., Pandey C.V., et al., IEVCA: An efficient image encryption technique for IoT applications using 2-D Von-Neumann cellular automata, Multimed Tools Appl., 80, 31529-31567, 2021.
  52. Rajput S.K., Nishchal N.K., Known-plaintext attack on encryption domain independent optical asymmetric cryptosystem, Opt Commun., 309, 231-235, 2013.
  53. Bassham L., Rukhin A., Soto J., et al., A statistical test suite for random and pseudorandom number generators for cryptographic applications (NIST Special Publication 800-22), National Institute of Standards and Technology, 2010.
  54. Turan M.S., Barker E.B., Kelsey J.M., McKay K., et al., Recommendation for the entropy sources used for random bit generation (NIST Special Publication 800-90B), National Institute of Standards and Technology, 2018.
  55. Buller D., Kaufer A., Roginsky A., Sönmez Turan M., Discussion on the full entropy assumption of the SP 800-90 series, NIST Interagency/Internal Report 8427, National Institute of Standards and Technology, 2023.