MAGIC-web: a platform for untargeted and targeted N-linked glycoprotein identification. - T. Mamie Lih; Wai-Kok Choong; Chen-Chun Chen; Cheng-Wei Cheng; Hsin-Nan Lin; Ching-Tai Chen; Hui-Yin Chang; Wen-Lian Hsu; Ting-Yi Sung (Nucleic Acids Res., 2016)

Using Deep Learning to Predict and Optimize Hadoop Data Analytic Service in a Cloud Platform. - Chen-Chun Chen; Yu-Tung Hasio; Chan-Yi Lin; Shihyu Lu; Hsin-Tse Lu; Jerry Chou 001 (DASC/PiCom/DataCom/CyberSciTech, 2017)

Layout-aware Hardware-assisted Designs for Derived Data Types in MPI. - Kaushik Kandadi Suresh; Bharath Ramesh 005; Chen-Chun Chen; Seyedeh Mahdieh Ghazimirsaeed; Mohammadreza Bayatpour; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (HiPC, 2021)

Designing a ROCm-Aware MPI Library for AMD GPUs: Early Experiences. - Kawthar Shafie Khorassani; Jahanzeb Maqbool Hashmi; Ching-Hsiang Chu; Chen-Chun Chen; Hari Subramoni; Dhabaleswar K. Panda 001 (ISC, 2021)

Network Assisted Non-Contiguous Transfers for GPU-Aware MPI Libraries. - Kaushik Kandadi Suresh; Kawthar Shafie Khorassani; Chen-Chun Chen; Bharath Ramesh 005; Mustafa Abduljabbar; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (HOTI, 2022)

Highly Efficient Alltoall and Alltoallv Communication Algorithms for GPU Systems. - Chen-Chun Chen; Kawthar Shafie Khorassani; Quentin G. Anthony; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (IPDPS Workshops, 2022)

High Performance MPI over the Slingshot Interconnect: Early Experiences. - Kawthar Shafie Khorassani; Chen-Chun Chen; Bharath Ramesh 005; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (PEARC, 2022)

ALBERT: An automatic learning based execution and resource management system for optimizing Hadoop workload in clouds. - Chen-Chun Chen; Kai-Siang Wang; Yu-Tung Hsiao; Jerry Chou 001 (J. Parallel Distributed Comput., 2022)

Implementing and Optimizing a GPU-aware MPI Library for Intel GPUs: Early Experiences. - Chen-Chun Chen; Kawthar Shafie Khorassani; Goutham Kalikrishna Reddy Kuncham; Rahul Vaidya; Mustafa Abduljabbar; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (CCGrid, 2023)

Designing and Optimizing GPU-aware Nonblocking MPI Neighborhood Collective Communication for PETSc*. - Kawthar Shafie Khorassani; Chen-Chun Chen; Hari Subramoni; Dhabaleswar K. Panda 001 (IPDPS, 2023)

MPI-xCCL: A Portable MPI Library over Collective Communication Libraries for Various Accelerators. - Chen-Chun Chen; Kawthar Shafie Khorassani; Pouya Kousha; Qinghua Zhou; Jinghan Yao; Hari Subramoni; Dhabaleswar K. Panda 001 (SC Workshops, 2023)

Optimizing Amber for Device-to-Device GPU Communication. - Samuel Khuvis; Karen Tomko; Scott R. Brozell; Chen-Chun Chen; Hari Subramoni; Dhabaleswar K. Panda 001 (PEARC, 2023)

PHY: A performance-driven hybrid communication compression method for distributed training. - Chen-Chun Chen; Yu-Min Chou; Jerry Chou 001 (J. Parallel Distributed Comput., 2023)

Network-Assisted Noncontiguous Transfers for GPU-Aware MPI Libraries. - Kaushik Kandadi Suresh; Kawthar Shafie Khorassani; Chen-Chun Chen; Bharath Ramesh 005; Mustafa Abduljabbar; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (IEEE Micro, 2023)

High Performance MPI over the Slingshot Interconnect. - Kawthar Shafie Khorassani; Chen-Chun Chen; Bharath Ramesh 005; Aamir Shafi; Hari Subramoni; Dhabaleswar K. Panda 001 (J. Comput. Sci. Technol., 2023)

Design and Implementation of Kernel-based MPI Reduction Operations for Intel GPU s. - Chen-Chun Chen; Goutham Kalikrishna Reddy Kuncham; Hari Subramoni; Dhabaleswar K. Panda 001 (HiPC, 2024)

Design and Implementation of an IPC-based Collective MPI Library for Intel GPUs. - Chen-Chun Chen; Goutham Kalikrishna Reddy Kuncham; Pouya Kousha; Hari Subramoni; Dhabaleswar K. Panda 001 (PEARC, 2024)

Unified Designs of Multi-Rail-Aware MPI Allreduce and Alltoall Operations Across Diverse GPU and Interconnect Systems. - Chen-Chun Chen; Jinghan Yao; Lang Xu; Hari Subramoni; Dhabaleswar K. Panda 001 (IPDPS, 2025)