Education

Master of Science in Computer EngineeringSeptember 12, 2022 - January 10, 2025
Middle East Technical University (METU)
Advisor: Prof. Dr. Sinan Kalkan, Co-advisor: Assoc. Prof. Dr. Emre Akbas

Developed novel differentiable frameworks integrating combinatorial optimization algorithms into deep neural networks. Research focus: optimal transport theory, ranking-based losses, and advanced object detection architectures. Funded by TUBITAK 2247-C STAR National Scholarship Program.

Bachelor of Science in Computer EngineeringSeptember 10, 2018 - July 17, 2022
Middle East Technical University (METU)

Capstone Project: Designed and implemented a Transformer-based question-answering system utilizing T5 pre-trained architecture for extractive and abstractive text comprehension. Comprehensive curriculum spanning algorithms, systems programming, machine learning, and software engineering fundamentals.

Graduated in the first quantile of the class - Middle East Technical University (METU)

Publications

Dogan, A. H., Celtik, S. O., Baran, O. U., & Alemdar, H. (2026). Prediction-driven adaptive mesh refinement with graph neural networks for transonic airfoil flows.
Under Review
Dogan, A. H., Deniz, M., Alemdar, H., & Baran, O. U. (2026). CoFINN: Conservation flux informed neural networks for physics problems governed by conservation laws. Scientific Reports.
Dogan, A. H., Demirel, B. U., & Holz, C. (June 2026). Frequency-weighted neural Kalman filters. IEEE/ICRA'26.
Demirel, B. U., Dogan, A. H., Rossie, J., Möbus, M., & Holz, C. (May 2025). Beyond subjectivity: Continuous cybersickness detection using EEG-based multitaper spectrum estimation. IEEE/TVCG'25.
Yavuz, F., Cam, B. C., Dogan, A. H., Oksuz, K., Kalkan, S., & Akbas, E. (October 2024). Bucketed ranking-based losses for efficient training of object detectors. ECCV'24.
Amin, M. A., Dogan, A. H., Kuru, E. S., Sever, Y., & Angin, P. (April 2024). Misuse detection and response for orchestrated microservices based software. International Conference on Advanced Information Networking and Applications (AINA), Lecture Notes on Data Engineering and Communications Technologies, vol 204, pp. 217-226.
Karagoz, P., Cekinel, R. F., Dogan, A. H., Oktay, B., Ozturk, A. U., Tonay, T. S., & Tuncel, B. M. (December 2023). Enhancing underground built heritage analysis with text mining: A case study on Cappadocia. In M. Akkar Ercan & K. Aydiner (Eds.), Valorising Underground Built Heritage in Cappadocia (pp. 61-92). CNR Edizioni. ISBN 978-88-8080-605-9.
Sever, Y., & Dogan, A. H. (June 2023). A Kubernetes dataset for misuse detection. ITU Journal on Future and Evolving Technologies, 4(2), 383-388.
Sever, Y., Ekinci, G., Dogan, A. H., Alparslan, B., Gurbuz, A. S., Jabrayilov, V., & Angin, P. (September 2022). An empirical analysis of IDS approaches in container security. International Workshop on Secure and Reliable Microservices and Containers (SRMC), pp. 18-26.
Best Paper Award - IEEE/SRMC'22
Demirel, B. U., Dogan, A. H., & Al-Faruque, M. A. (September 2021). Two might do: A beat-by-beat classification of cardiac abnormalities using deep learning and domain-specific features. CinC'21.
Buyukbas, E. B., Dogan, A. H., Ozturk, A. U., & Karagoz, P. (September 2021). Explainability in irony detection. Big Data Analytics and Knowledge Discovery (DaWaK), Lecture Notes in Computer Science, vol 12925, pp. 152-157.

Experience

InternJanuary 2025 - October 2025
Sensing, Interaction, & Perception Laboratory (SIPLab), ETH Zürich Full-time, 10 months
Supervisor: Prof. Dr. Christian Holz

Advanced research on continuous cybersickness detection in virtual reality environments using EEG-based multitaper spectrum estimation. Pioneered novel deep learning architectures achieving 30% performance improvement over baseline methods in real-time cybersickness prediction from brain signals, with potential applications in adaptive VR systems and user experience optimization.

Research AssistantFebruary 2023 - Present
Image Processing and Pattern Recognition Laboratory (ImageLab), METU Full-time
Supervisor: Prof. Dr. Sinan Kalkan, Assoc. Prof. Dr. Emre Akbas

Pioneering research on differentiable optimization frameworks for deep learning in computer vision. Developed novel methods for incorporating combinatorial optimization algorithms into neural network training pipelines, achieving state-of-the-art performance in object detection.

  • Contributed to Bucketed Ranking Loss, speeding up ranking-based training of DETR/transformer detectors by up to 6x
  • Developed optimal-transport (Sinkhorn-Knopp) and ranking-based loss formulations for end-to-end object detection
TUBITAK 2247-C STAR'23 Scholarship - The Scientific and Technological Research Institution of Turkey (TUBITAK)
InternOctober 2021 - February 2022
Center for Artificial Intelligence and Robotics (ROMER), METU Term project course: ME460
Supervisor: Assoc. Prof. Dr. Erol Sahin, Assoc. Prof. Dr. Bugra Koku
  • Built a self-driving stack for a physical RC car, and trained RL agents for autonomous navigation task in ROS/Gym/PyTorch
  • Simulated a Hector-quadrotor swarm in ROS/Gazebo, approximating numerical solvers for multi-agent localization
InternJune 2021 - September 2021
Cyber-Physical Systems Laboratory (AICPS), University of California, Irvine Remote collaboration, Full-time, 4 months
Supervisor: Prof. Dr. Mohammad Abdullah Al-Faruque

Developed sophisticated multi-modal deep learning systems for cardiac and sleep abnormality detection from physiological signals. Designed novel architectures integrating time-series analysis with spectral feature extraction for beat-by-beat cardiac arrhythmia classification, achieving competitive performance in international challenges. Published research findings at Computing in Cardiology (CinC) 2021.

  • Built multi-modal deep models for beat-by-beat cardiac and sleep abnormality detection from physiological signals
  • Fused time-series and spectral features for arrhythmia classification, competitive in international challenges

Research Internships

Image Processing and Pattern Recognition Laboratory (ImageLab), METUJanuary 2020 - June 2022
Undergraduate Research Project
Supervisor: Assist. Prof. Dr. Hande Alemdar, Assist. Prof. Dr. Ozgur Ugras Baran

CNNFOIL: Approximating HLLC Riemann solver for flow prediction around airfoils via encoder-decoder neural networks. Engineered state-of-the-art neural network models achieving 4.4% performance improvement in predicting critical flow field parameters around airfoil geometries.

  • Approximated HLLC Riemann solver for airfoil flow prediction via encoder-decoder networks
  • Achieved 4.4% improvement in predicting flow field parameters around airfoil geometries
High Performance Intrusion Detection and Prevention for Software-Defined Container Networks in the Cloud, METUSeptember 2021 - June 2022
Undergraduate Research Project 6 hours/week
Supervisor: Assoc. Prof. Dr. Pelin Angin

TUBITAK 3501 funded research project. Designed and implemented high-performance IDS pipeline optimized for containerized cloud infrastructures. Collaborated on Kubernetes misuse detection research, contributing to novel datasets and detection methodologies.

  • Published at AINA 2024 on microservices security architectures
  • Received Best Paper Award at IEEE/SRMC 2022 for empirical analysis of IDS approaches
  • Co-authored ITU FET journal paper introducing a Kubernetes misuse detection dataset
TUBITAK 2247-C STAR'22 Scholarship - The Scientific and Technological Research Institution of Turkey (TUBITAK)
Textual Event Graph HUB (TEGHub), METUOctober 2020 - October 2021
Undergraduate Research Project 6 hours/week
Supervisor: Prof. Dr. Pinar Karagoz

Textual analysis for irony detection and research impact prediction. Implemented end-to-end neural pipelines integrating GCN and LSTM networks for analyzing citation patterns and textual content on Twitter datasets.

  • Published at DaWaK 2021 on explainability in irony detection
  • Developed graph-based models for information retrieval
School of Medicine, Koç UniversityFebruary 2020 - June 2021
Undergraduate Research Project 6 hours/week × 60 weeks
Supervisor: Assist. Prof. Dr. Ozge Karanfil

Healthcare policy simulation for evidence-based decision making. Utilized simulation models focusing on mechatronics applications in healthcare. Developed GCN-based citation graph embeddings for healthcare policy papers.

  • Built simulation models for healthcare policy decision making
  • Developed GCN-based citation graph embeddings for healthcare policy papers
TUBITAK 2247-C STAR'21 Scholarship - The Scientific and Technological Research Institution of Turkey (TUBITAK)

Teaching Experience

Teaching AssistantFebruary 2022 - Present
Computer Engineering Department, METU 20 hours/week

Conducted recitations, graded assignments, proctored exams, and provided office hours.

  • CENG 280 - Automata Theory (Spring 2024, Spring 2025, Spring 2026)
  • CENG 242 - Programming Language Concepts (Spring 2022, Spring 2023, Spring 2025, Spring 2026)
  • CENG 223 - Discrete Computational Structures (Fall 2023, Fall 2024, Fall 2025)
  • CENG 424 - Logic for Computer Science (Fall 2023, Fall 2025)
  • CENG 460 - Introduction to Robotics for Computer Science (Fall 2024)
  • CENG 213 - Data Structures (Spring 2024)
  • CENG 382 - Analysis of Dynamical Systems (Spring 2023)
  • CENG 334 - Introduction to Operating Systems (Spring 2022)
Undergraduate Teaching AssistantSpring 2019 - Fall 2021
Computer Engineering Department, METU 8 hours/week

Helped TAs in recitations and lab sessions, also organized social sessions during covid'19.

  • CENG 240 - Programming with Python for Engineers (Fall 2021)
  • CENG 111 - Introduction to Computer Engineering Concepts (Fall 2020)
  • CENG 230 - Introduction to C Programming (Spring 2019)

Scores, Honors, & Awards

TUBITAK 2247-C STAR'23 Scholarship2022-2023
The Scientific and Technological Research Institution of Turkey (TUBITAK)

Merit-based national scholarship awarded to students contributing to TUBITAK-funded research projects. Supported graduate thesis on differentiable combinatorial optimization at ImageLab, METU.

Graduated in the first quantile of the classJuly 2022
Middle East Technical University (METU)

For "Bachelor of Science in Computer Engineering".

TUBITAK 2247-C STAR'22 Scholarship2021-2022
The Scientific and Technological Research Institution of Turkey (TUBITAK)

Merit-based national scholarship awarded to students contributing to TUBITAK-funded research projects. Supported undergraduate research on container security and intrusion detection (CONTSEC) at METU.

TUBITAK 2247-C STAR'21 Scholarship2020-2021
The Scientific and Technological Research Institution of Turkey (TUBITAK)

Merit-based national scholarship awarded to students contributing to TUBITAK-funded research projects. Supported undergraduate research on healthcare policy simulation at Koç University School of Medicine.

University Entrance Exam: ranked 1466th of 2.27M candidatesAugust 2017
OSYM, Turkey