CV

Education

Ph.D in Version Control Theory, GitHub University, 2018 (expected)
M.S. in Jekyll, GitHub University, 2014
B.S. in GitHub, GitHub University, 2012

Work experience

Spring 2024: Academic Pages Collaborator
- Github University
- Duties includes: Updates and improvements to template
- Supervisor: The Users
Fall 2015: Research Assistant
- Github University
- Duties included: Merging pull requests
- Supervisor: Professor Hub
Summer 2015: Research Assistant
- Github University
- Duties included: Tagging issues
- Supervisor: Professor Git

Skills

Skill 1
Skill 2
- Sub-skill 2.1
- Sub-skill 2.2
- Sub-skill 2.3
Skill 3

Publications

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

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.

Steering a Fleet: Adaptation for Large-Scale, Workflow-Based Experiments

Jim Pruyne, Valerie Hayot-Sasson, Weijian Zheng, Ryan Chard, Justin Wozniak, Tekin Bicer, Kyle Chard, Ian Foster, "Steering a Fleet: Adaptation for Large-Scale, Workflow-Based Experiments." arXiv preprint arXiv:2403.06077, 2024.

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

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

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

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.

AI-assisted automated workflow for real-time x-ray ptychography data analysis via federated resources

Anakha Babu, Tekin Bicer, Saugat Kandel, Tao Zhou, Daniel Ching, Steven Henke, Sini{\v{s}}a Veseli, Ryan Chard, Antonino Miceli, Mathew Cherukara, "AI-assisted automated workflow for real-time x-ray ptychography data analysis via federated resources." Electronic Imaging, 2023.

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

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.

Scalable and accurate multi-GPU-based image reconstruction of large-scale ptychography data

Xiaodong Yu, Viktor Nikitin, Daniel Ching, Selin Aslan, Do{\u{g}}a G{\"u}rsoy, Tekin Bi{\c{c}}er, "Scalable and accurate multi-GPU-based image reconstruction of large-scale ptychography data." Scientific reports, 2022.

SOLAR: A Highly Optimized Data Loading Framework for Distributed Training of CNN-based Scientific Surrogates

Baixi Sun, Xiaodong Yu, Chengming Zhang, Jiannan Tian, Sian Jin, Kamil Iskra, Tao Zhou, Tekin Bicer, Pete Beckman, Dingwen Tao, "SOLAR: A Highly Optimized Data Loading Framework for Distributed Training of CNN-based Scientific Surrogates." arXiv preprint arXiv:2211.00224, 2022.

Linking scientific instruments and computation: Patterns, technologies, and experiences

Rafael Vescovi, Ryan Chard, Nickolaus Saint, Ben Blaiszik, Jim Pruyne, Tekin Bicer, Alex Lavens, Zhengchun Liu, Michael Papka, Suresh Narayanan, Nicholas Schwarz, Kyle Chard, Ian T, "Linking scientific instruments and computation: Patterns, technologies, and experiences." Patterns, 2022.

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

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

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

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.

Topology-aware optimizations for multi-gpu ptychographic image reconstruction

Xiaodong Yu, Tekin Bicer, Rajkumar Kettimuthu, Ian Foster, "Topology-aware optimizations for multi-gpu ptychographic image reconstruction." In the Proceedings of the ACM International Conference on Supercomputing, 2021.

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

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

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

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

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

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

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

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

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

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

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

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

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.

TomoGAN: Low-Dose X-Ray Tomography with Generative Adversarial Networks

Zhengchun Liu, Tekin Bicer, Rajkumar Kettimuthu, Doga Gursoy, Francesco De, Ian Foster, "TomoGAN: Low-Dose X-Ray Tomography with Generative Adversarial Networks." In the arXiv preprint arXiv:1902.07582, 2019.

Photon-limited ptychography of 3D objects via Bayesian reconstruction

Viktor Nikitin, Selin Aslan, Yudong Yao, Tekin Bi{\c{c}}er, Sven Leyffer, Rajmund Mokso, Do{\u{g}}a G{\"u}rsoy, "Photon-limited ptychography of 3D objects via Bayesian reconstruction." OSA Continuum, 2019.

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

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.

Joint ptycho-tomography reconstruction through alternating direction method of multipliers

Selin Aslan, Viktor Nikitin, Daniel Ching, Tekin Bicer, Sven Leyffer, Do{\u{g}}a G{\"u}rsoy, "Joint ptycho-tomography reconstruction through alternating direction method of multipliers." Optics express, 2019.

Deep learning accelerated light source experiments

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.

Rotation-as-fast-axis scanning-probe x-ray tomography: the importance of angular diversity for fly-scan modes

Daniel Ching, Mert Hidayeto{\u{g}}lu, Tekin Bi{\c{c}}er, Do{\u{g}}a G{\"u}rsoy, "Rotation-as-fast-axis scanning-probe x-ray tomography: the importance of angular diversity for fly-scan modes." Applied optics, 2018.

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

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.

Trace: a high-throughput tomographic reconstruction engine for large-scale datasets

Tekin Bicer, Do{\u{g}}a G{\"u}rsoy, Vincent Andrade, Rajkumar Kettimuthu, William Scullin, Francesco Carlo, Ian Foster, "Trace: a high-throughput tomographic reconstruction engine for large-scale datasets." Advanced structural and chemical imaging, 2017.

Real-Time Data Analysis and Autonomous Steering of Synchrotron Light Source Experiments

Tekin Bicer, Doga Gursoy, Rajkumar Kettimuthu, Ian Foster, Bin Ren, Vincent De, Francesco De, "Real-Time Data Analysis and Autonomous Steering of Synchrotron Light Source Experiments." In the 2017 IEEE 13th International Conference on e-Science (e-Science), 2017.

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

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.

Optimization of tomographic reconstruction workflows on geographically distributed resources

Tekin Bicer, Dogˇa G{\"u}rsoy, Rajkumar Kettimuthu, Francesco De, Ian Foster, "Optimization of tomographic reconstruction workflows on geographically distributed resources." Journal of synchrotron radiation, 2016.

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

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.

Rapid tomographic image reconstruction via large-scale parallelization

Tekin Bicer, Doga Gursoy, Rajkumar Kettimuthu, Francesco De, Gagan Agrawal, Ian Foster, "Rapid tomographic image reconstruction via large-scale parallelization." In the European Conference on Parallel Processing, 2015.

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

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.

Tekin Bicer, Ph.D.

CV

Education

Work experience

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Publications

Talks

Teaching

Service and leadership