Tekin Bicer, Ph.D.

Tekin Bicer, Ph.D.

Computer Scientist

Publications

The following list might not be up-to-date. If you are interested in learning more about my relatively recent works, you can check my Google Scholar profile.

Suppressing strain propagation in ultrahigh-Ni cathodes during fast charging via epitaxial entropy-assisted coating

Published in Nature Energy, 2024

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Recommended citation: Chen Zhao, Chuanwei Wang, Xiang Liu, Inhui Hwang, Tianyi Li, Xinwei Zhou, Jiecheng Diao, Junjing Deng, Yan Qin, Zhenzhen Yang, Guanyi Wang, Wenqian Xu, Chengjun Sun, Longlong Wu, Wonsuk Cha, Ian Robinson, Ross Harder, Yi Jiang, Tekin Bicer, Jun-Tao Li, Wenquan Lu, Luxi Li, Yuzi Liu, Shi-Gang Sun, Gui-Liang Xu, Khalil Amine, "Suppressing strain propagation in ultrahigh-Ni cathodes during fast charging via epitaxial entropy-assisted coating." Nature Energy, 2024.

CommBench: Micro-Benchmarking Hierarchical Networks with Multi-GPU, Multi-NIC Nodes

Published in In the Proceedings of the 38th ACM International Conference on Supercomputing, 2024

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Recommended citation: Mert Hidayetoglu, Simon De, Elliott Slaughter, Yu Li, Christopher Zimmer, Tekin Bicer, Bin Ren, William Gropp, Wen-Mei Hwu, Alex Aiken, "CommBench: Micro-Benchmarking Hierarchical Networks with Multi-GPU, Multi-NIC Nodes." In the Proceedings of the 38th ACM International Conference on Supercomputing, 2024.

Throughput Optimization with a NUMA-Aware Runtime System for Efficient Scientific Data Streaming

Published in In the Proceedings of the SC'23 Workshops of The International Conference on High Performance Computing, Network, Storage, and Analysis, 2023

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Recommended citation: Hasibul Jamil, Joaquin Chung, Tekin Bicer, Tevfik Kosar, Rajkumar Kettimuthu, "Throughput Optimization with a NUMA-Aware Runtime System for Efficient Scientific Data Streaming." In the Proceedings of the SC'23 Workshops of The International Conference on High Performance Computing, Network, Storage, and Analysis, 2023.

Deep learning at the edge enables real-time streaming ptychographic imaging

Published in Nature Communications, 2023

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Recommended citation: Anakha Babu, Tao Zhou, Saugat Kandel, Tekin Bicer, Zhengchun Liu, William Judge, Daniel Ching, Yi Jiang, Sinisa Veseli, Steven Henke, Ryan Chard, Yudong Yao, Ekaterina Sirazitdinova, Geetika Gupta, Martin Holt, Ian T, Antonino Miceli, Mathew J, "Deep learning at the edge enables real-time streaming ptychographic imaging." Nature Communications, 2023.

SciStream: Architecture and toolkit for data streaming between federated science instruments

Published in In the Proceedings of the 31st International Symposium on High-Performance Parallel and Distributed Computing, 2022

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Recommended citation: Joaquin Chung, Wojciech Zacherek, AJ Wisniewski, Zhengchun Liu, Tekin Bicer, Rajkumar Kettimuthu, Ian Foster, "SciStream: Architecture and toolkit for data streaming between federated science instruments." In the Proceedings of the 31st International Symposium on High-Performance Parallel and Distributed Computing, 2022.

Large scale caching and streaming of training data for online deep learning

Published in In the Proceedings of the 12th Workshop on AI and Scientific Computing at Scale using Flexible Computing Infrastructures, 2022

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Recommended citation: Jie Liu, Bogdan Nicolae, Dong Li, Justin Wozniak, Tekin Bicer, Zhengchun Liu, Ian Foster, "Large scale caching and streaming of training data for online deep learning." In the Proceedings of the 12th Workshop on AI and Scientific Computing at Scale using Flexible Computing Infrastructures, 2022.

Evaluating SciStream (Federated Scientific Data Streaming Architecture) on FABRIC

Published in In the 2022 IEEE/ACM International Workshop on Innovating the Network for Data-Intensive Science (INDIS), 2022

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Recommended citation: Chengyi Qu, Joaquin Chung, Zhengchun Liu, Tekin Bicer, Rajkumar Kettimuthu, "Evaluating SciStream (Federated Scientific Data Streaming Architecture) on FABRIC." In the 2022 IEEE/ACM International Workshop on Innovating the Network for Data-Intensive Science (INDIS), 2022.

Advancing AI/ML at the Advanced Photon Source

Published in Synchrotron Radiation News, 2022

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Recommended citation: Chris Benmore, Tekin Bicer, Maria Chan, Zichao Di, Doga G{\"u}rsoy, Inhui Hwang, Nikita Kuklev, Dergan Lin, Zhengchun Liu, Ihar Lobach, Zhi Qiao, Luca Rebuffi, Hemant Sharma, Xianbo Shi, Chengjun Sun, Yudong Yao, Tao Zhou, Alec Sandy, Antonino Miceli, Yine Sun, Nicholas Schwarz, Mathew J, "Advancing AI/ML at the Advanced Photon Source." Synchrotron Radiation News, 2022.

MemXCT: design, optimization, scaling, and reproducibility of x-ray tomography imaging

Published in IEEE Transactions on Parallel and Distributed Systems, 2021

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Recommended citation: Mert Hidayeto{\u{g}}lu, Tekin Bi{\c{c}}er, Simon Gonzalo, Bin Ren, Do{\u{g}}a G{\"u}rsoy, Rajkumar Kettimuthu, Ian Foster, Wen-Mei Hwu, "MemXCT: design, optimization, scaling, and reproducibility of x-ray tomography imaging." IEEE Transactions on Parallel and Distributed Systems, 2021.

Joint ptycho-tomography with deep generative priors

Published in Machine Learning: Science and Technology, 2021

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Recommended citation: Selin Aslan, Zhengchun Liu, Viktor Nikitin, Tekin Bicer, Sven Leyffer, Do{\u{g}}a G{\"u}rsoy, "Joint ptycho-tomography with deep generative priors." Machine Learning: Science and Technology, 2021.

High-performance ptychographic reconstruction with federated facilities

Published in In the Smoky Mountains Computational Sciences and Engineering Conference, 2021

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Recommended citation: Tekin Bicer, Xiaodong Yu, Daniel Ching, Ryan Chard, Mathew Cherukara, Bogdan Nicolae, Rajkumar Kettimuthu, Ian Foster, "High-performance ptychographic reconstruction with federated facilities." In the Smoky Mountains Computational Sciences and Engineering Conference, 2021.

Collaborative software solutions and data standards for ptychographic Imaging

Published in Acta Crystallographica Section A: Foundations and Advances, 2021

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Recommended citation: J Reinhardt, D McReynolds, H Krishnan, D Shapiro, B Enders, P Jemian, D Ching, J Deng, T Bicer, N Schwarz, A Barbour, W Hu, D Allan, D Gavrilov, A Hexemer, "Collaborative software solutions and data standards for ptychographic Imaging." Acta Crystallographica Section A: Foundations and Advances, 2021.

3d autoencoders for feature extraction in X-ray tomography

Published in In the 2021 IEEE International Conference on Image Processing (ICIP), 2021

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Recommended citation: Aniket Tekawade, Zhengchun Liu, Peter Kenesei, Tekin Bicer, Francesco De, Rajkumar Kettimuthu, Ian Foster, "3d autoencoders for feature extraction in X-ray tomography." In the 2021 IEEE International Conference on Image Processing (ICIP), 2021.

Tomographic Reconstruction of Dynamic Features with Streaming Sliding Subsets

Published in In the Annual Workshop on Large-scale Experiment-in-the-Loop Computing (XLOOP), 2020

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Recommended citation: Tekin Bicer, Viktor Nikitin, Selin Aslan, Doga G{\"u}rsoy, Rajkumar Kettimuthu, Ian Foster, "Tomographic Reconstruction of Dynamic Features with Streaming Sliding Subsets." In the Annual Workshop on Large-scale Experiment-in-the-Loop Computing (XLOOP), 2020.

Tomographic Reconstruction for Synchrotron Tomography

Published in In the HANDBOOK ON BIG DATA AND MACHINE LEARNING IN THE PHYSICAL SCIENCES: Volume 2. Advanced Analysis Solutions for Leading Experimental Techniques, 2020

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Recommended citation: Dilworth Parkinson, Doga Gursoy, Dani{\"e}l Pelt, Singanallur Venkatakrishnan, Rick Archibald, K Mohan, Tekin Bicer, Matthias Vogelgesang, James Sethian, Nicola Wadeson, Mark Basham, Tomas Farago, "Tomographic Reconstruction for Synchrotron Tomography." In the HANDBOOK ON BIG DATA AND MACHINE LEARNING IN THE PHYSICAL SCIENCES: Volume 2. Advanced Analysis Solutions for Leading Experimental Techniques, 2020.

Petascale XCT: 3D image reconstruction with hierarchical communications on multi-GPU nodes

Published in In the SC20: International Conference for High Performance Computing, Networking, Storage and Analysis, 2020

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Recommended citation: Mert Hidayeto{\u{g}}lu, Tekin Bicer, Simon De, Bin Ren, Vincent De, Doga Gursoy, Raj Kettimuthu, Ian Foster, W Wen-mei, "Petascale XCT: 3D image reconstruction with hierarchical communications on multi-GPU nodes." In the SC20: International Conference for High Performance Computing, Networking, Storage and Analysis, 2020.

GPU-based static data-flow analysis for fast and scalable android app vetting

Published in In the 2020 IEEE International Parallel and Distributed Processing Symposium (IPDPS), 2020

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Recommended citation: Xiaodong Yu, Fengguo Wei, Xinming Ou, Michela Becchi, Tekin Bicer, Danfeng Yao, "GPU-based static data-flow analysis for fast and scalable android app vetting." In the 2020 IEEE International Parallel and Distributed Processing Symposium (IPDPS), 2020.

Deep learning-based low-dose tomography reconstruction with hybrid-dose measurements

Published in In the 2020 IEEE/ACM Workshop on Machine Learning in High Performance Computing Environments (MLHPC) and Workshop on Artificial Intelligence and Machine Learning for Scientific Applications (AI4S), 2020

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Recommended citation: Ziling Wu, Tekin Bicer, Zhengchun Liu, Vincent De, Yunhui Zhu, Ian Foster, "Deep learning-based low-dose tomography reconstruction with hybrid-dose measurements." In the 2020 IEEE/ACM Workshop on Machine Learning in High Performance Computing Environments (MLHPC) and Workshop on Artificial Intelligence and Machine Learning for Scientific Applications (AI4S), 2020.

Deep Priors for Ptycho-tomography

Published in Microscopy and Microanalysis, 2020

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Recommended citation: Selin Aslan, Zhengchun Liu, Viktor Nikitin, Tekin Bicer, Sven Leyffer, Doga Gursoy, "Deep Priors for Ptycho-tomography." Microscopy and Microanalysis, 2020.

Cyberinfrastructure and System Software for Online Analysis of Large-Scale Data: Challenges and Design Choices

Published in In the HANDBOOK ON BIG DATA AND MACHINE LEARNING IN THE PHYSICAL SCIENCES: Volume 2. Advanced Analysis Solutions for Leading Experimental Techniques, 2020

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Recommended citation: Rajkumar Kettimuthu, Zhengchun Liu, Tekin Bicer, Ian Foster, "Cyberinfrastructure and System Software for Online Analysis of Large-Scale Data: Challenges and Design Choices." In the HANDBOOK ON BIG DATA AND MACHINE LEARNING IN THE PHYSICAL SCIENCES: Volume 2. Advanced Analysis Solutions for Leading Experimental Techniques, 2020.

MemXCT: Memory-centric X-ray CT Reconstruction with Massive Parallelization

Published in In the Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis, 2019

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Recommended citation: Mert Hidayeto{\u{g}}lu, Tekin Bi{\c{c}}er, Simon Gonzalo, Bin Ren, Do{\u{g}}a G{\"u}rsoy, Rajkumar Kettimuthu, Ian Foster, Wen-mei Hwu, "MemXCT: Memory-centric X-ray CT Reconstruction with Massive Parallelization." In the Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis, 2019.

Deep learning accelerated light source experiments

Published in In the 2019 IEEE/ACM Third Workshop on Deep Learning on Supercomputers (DLS), 2019

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Recommended citation: Zhengchun Liu, Tekin Bicer, Rajkumar Kettimuthu, Ian Foster, "Deep learning accelerated light source experiments." In the 2019 IEEE/ACM Third Workshop on Deep Learning on Supercomputers (DLS), 2019.

Graphphi: efficient parallel graph processing on emerging throughput-oriented architectures

Published in In the Proceedings of the 27th International Conference on Parallel Architectures and Compilation Techniques, 2018

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Recommended citation: Zhen Peng, Alexander Powell, Bo Wu, Tekin Bicer, Bin Ren, "Graphphi: efficient parallel graph processing on emerging throughput-oriented architectures." In the Proceedings of the 27th International Conference on Parallel Architectures and Compilation Techniques, 2018.

Time-resolved x-ray tomography of gasoline direct injection sprays

Published in SAE International Journal of Engines, 2016

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Recommended citation: Daniel Duke, Andrew Swantek, Nicolas Sovis, F Tilocco, Christopher Powell, Alan Kastengren, Do{\u{g}}a G{\"u}rsoy, Tekin Bi{\c{c}}er, "Time-resolved x-ray tomography of gasoline direct injection sprays." SAE International Journal of Engines, 2016.

Smart: A mapreduce-like framework for in-situ scientific analytics

Published in In the Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis, 2015

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Recommended citation: Yi Wang, Gagan Agrawal, Tekin Bicer, Wei Jiang, "Smart: A mapreduce-like framework for in-situ scientific analytics." In the Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis, 2015.

Maximum a posteriori estimation of crystallographic phases in x-ray diffraction tomography

Published in Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, 2015

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Recommended citation: Do{\^g}a G{\"u}rsoy, Tekin Bi{\c{c}}er, Jonathan Almer, Raj Kettimuthu, Stuart Stock, Francesco De, "Maximum a posteriori estimation of crystallographic phases in x-ray diffraction tomography." Philosophical Transactions of the Royal Society A: Mathematical, Physical and Engineering Sciences, 2015.

A compression framework for multidimensional scientific datasets

Published in In the 2013 IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum, 2013

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Recommended citation: Tekin Bicer, Gagan Agrawal, "A compression framework for multidimensional scientific datasets." In the 2013 IEEE International Symposium on Parallel & Distributed Processing, Workshops and Phd Forum, 2013.

Time and cost sensitive data-intensive computing on hybrid clouds

Published in In the 2012 12th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (ccgrid 2012), 2012

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Recommended citation: Tekin Bicer, David Chiu, Gagan Agrawal, "Time and cost sensitive data-intensive computing on hybrid clouds." In the 2012 12th IEEE/ACM International Symposium on Cluster, Cloud and Grid Computing (ccgrid 2012), 2012.

Poster: a framework for data-intensive computing with cloud bursting

Published in In the Proceedings of the 2011 companion on High Performance Computing Networking, Storage and Analysis Companion, 2011

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Recommended citation: Tekin Bicer, David Chiu, Gagan Agrawal, "Poster: a framework for data-intensive computing with cloud bursting." In the Proceedings of the 2011 companion on High Performance Computing Networking, Storage and Analysis Companion, 2011.

Mate-ec2: A middleware for processing data with aws

Published in In the Proceedings of the 2011 ACM international workshop on Many task computing on grids and supercomputers, 2011

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Recommended citation: Tekin Bicer, David Chiu, Gagan Agrawal, "Mate-ec2: A middleware for processing data with aws." In the Proceedings of the 2011 ACM international workshop on Many task computing on grids and supercomputers, 2011.

A framework for elastic execution of existing mpi programs

Published in In the 2011 IEEE International Symposium on Parallel and Distributed Processing Workshops and Phd Forum, 2011

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Recommended citation: Aarthi Raveendran, Tekin Bicer, Gagan Agrawal, "A framework for elastic execution of existing mpi programs." In the 2011 IEEE International Symposium on Parallel and Distributed Processing Workshops and Phd Forum, 2011.

Supporting fault tolerance in a data-intensive computing middleware

Published in In the 2010 IEEE International Symposium on Parallel & Distributed Processing (IPDPS), 2010

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Recommended citation: Tekin Bicer, Wei Jiang, Gagan Agrawal, "Supporting fault tolerance in a data-intensive computing middleware." In the 2010 IEEE International Symposium on Parallel & Distributed Processing (IPDPS), 2010.