FPGA-based accelerator for adaptive banded event alignment in nanopore sequencing data analysis - Yilin Feng; Zheyu Li; Gulsum Gudukbay Akbulut; Vijaykrishnan Narayanan; Mahmut Taylan Kandemir; Chita R. Das (BMC Bioinform., 2025)

Parallelization Strategies for DLRM Embedding Bag Operator on AMD CPUs - Krishnakumar Nair; Avinash-Chandra Pandey; Siddappa Karabannavar; Meena Arunachalam; John Kalamatianos; Varun Agrawal; Saurabh Gupta; Ashish Sirasao; Elliott Delaye; Steven K. Reinhardt; Rajesh Vivekanandham; Ralph Wittig; et al. (IEEE Micro, 2024)

PIFS-Rec: Process-In-Fabric-Switch for Large-Scale Recommendation System Inferences - Pingyi Huo; Anusha Devulapally; Hasan Al Maruf; Minseo Park; Krishnakumar Nair; Meena Arunachalam; Gulsum Gudukbay Akbulut; Mahmut Taylan Kandemir; Vijaykrishnan Narayanan (57th IEEE/ACM International Symposium on Microarchitecture, MICRO 2024, Austin, TX, USA, November 2-6, 2024, 2024)

SpotVerse: Optimizing Bioinformatics Workflows with Multi-Region Spot Instances in Galaxy and Beyond - Myungjun Son; Gulsum Gudukbay Akbulut; Mahmut Taylan Kandemir (Proceedings of the 25th International Middleware Conference, MIDDLEWARE 2024, Hong Kong, SAR, China, December 2-6, 2024, 2024)

PIFS-Rec: Process-In-Fabric-Switch for Large-Scale Recommendation System Inferences - Pingyi Huo; Anusha Devulapally; Hasan Al Maruf; Minseo Park; Krishnakumar Nair; Meena Arunachalam; Gulsum Gudukbay Akbulut; Mahmut Taylan Kandemir; Vijaykrishnan Narayanan (CoRR, 2024)

Architecture-Aware Currying - Mahmut Taylan Kandemir; Gulsum Gudukbay Akbulut; Wonil Choi; Mustafa Karaköy (32nd International Conference on Parallel Architectures and Compilation Techniques, PACT 2023, Vienna, Austria, October 21-25, 2023, 2023)

Data Recomputation for Multithreaded Applications - Gulsum Gudukbay Akbulut; Mahmut T. Kandemir; Mustafa Karaköy; Wonil Choi (IEEE/ACM International Conference on Computer Aided Design, ICCAD 2023, San Francisco, CA, USA, October 28 - Nov. 2, 2023, 2023)

License Forecasting and Scheduling for HPC - Ahmed Burak Gulhan; Gulsum Gudukbay Akbulut; Amit Amritkar; Jack Sampson; Vasant G. Honavar; Adam Focht; Chuck Pavloski; Mahmut T. Kandemir (31st International Symposium on Modeling, Analysis, and Simulation of Computer and Telecommunication Systems, MASCOTS 2023, Stony Brook, NY, USA, October 16-18, 2023, 2023)

The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2022 update - Enis Afgan; Anton Nekrutenko; Björn A. Grüning; Daniel J. Blankenberg; Jeremy Goecks; Michael C. Schatz; Alexander E. Ostrovsky; Alexandru Mahmoud; Andrew J. Lonie; Anna Syme; Anne Fouilloux; Anthony Bretaudeau; et al. (Nucleic Acids Res., 2022)

GYAN: Accelerating Bioinformatics Tools in Galaxy with GPU-Aware Computation Mapping - Gulsum Gudukbay; Jashwant Raj Gunasekaran; Yilin Feng; Mahmut T. Kandemir; Anton Nekrutenko; Chita R. Das; Paul Medvedev; Björn A. Grüning; Nate Coraor; Nathan Roach; Enis Afgan (IEEE International Parallel and Distributed Processing Symposium Workshops, IPDPS Workshops 2021, Portland, OR, USA, June 17-21, 2021, 2021)

ResiRCA: A Resilient Energy Harvesting ReRAM Crossbar-Based Accelerator for Intelligent Embedded Processors - Keni Qiu; Nicholas Jao; Mengying Zhao; Cyan Subhra Mishra; Gulsum Gudukbay; Sethu Jose; Jack Sampson; Mahmut Taylan Kandemir; Vijaykrishnan Narayanan (IEEE International Symposium on High Performance Computer Architecture, HPCA 2020, San Diego, CA, USA, February 22-26, 2020, 2020)