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2020 – today
- 2024
[i14]Hamed Hemati, Lorenzo Pellegrini, Xiaotian Duan, Zixuan Zhao, Fangfang Xia, Marc Masana, Benedikt Tscheschner, Eduardo Veas, Yuxiang Zheng, Shiji Zhao, Shao-Yuan Li, Sheng-Jun Huang, Vincenzo Lomonaco, Gido M. van de Ven:
Continual Learning in the Presence of Repetition. CoRR abs/2405.04101 (2024)- 2023
- [j15]Fangfang Xia:
Method for education value evaluation with regional culture integration into international students' ideological education under fuzzy number intuitionistic fuzzy environment. J. Intell. Fuzzy Syst. 44(2): 1865-1880 (2023) - [j14]Chinedu Innocent Nwoye
, Deepak Alapatt, Tong Yu, Armine Vardazaryan, Fangfang Xia, Zixuan Zhao, Tong Xia, Fucang Jia, Yuxuan Yang, Hao Wang, Derong Yu, Guoyan Zheng, Xiaotian Duan, Neil Getty, Ricardo Sanchez-Matilla, Maria Robu, Li Zhang, Huabin Chen, Jiacheng Wang, Liansheng Wang, Bokai Zhang, Beerend G. A. Gerats, Sista Raviteja, Rachana Sathish, Rong Tao, Satoshi Kondo, Winnie Pang, Hongliang Ren, Julian Ronald Abbing, Mohammad Hasan Sarhan, Sebastian Bodenstedt, Nithya Bhasker, Bruno Oliveira, Helena R. Torres, Li Ling, Finn Gaida, Tobias Czempiel, João L. Vilaça, Pedro Morais, Jaime C. Fonseca, Ruby Mae Egging, Inge Nicole Wijma, Chen Qian, Guibin Bian, Zhen Li, Velmurugan Balasubramanian, Debdoot Sheet, Imanol Luengo, Yuanbo Zhu, Shuai Ding, Jakob-Anton Aschenbrenner, Nicolas Elini van der Kar, Mengya Xu, Mobarakol Islam, Lalithkumar Seenivasan, Alexander Jenke, Danail Stoyanov, Didier Mutter, Pietro Mascagni, Barbara Seeliger, Cristians Gonzalez, Nicolas Padoy:
CholecTriplet2021: A benchmark challenge for surgical action triplet recognition. Medical Image Anal. 86: 102803 (2023) - [j13]Robert D. Olson, Rida Assaf, Thomas S. Brettin, Neal Conrad, Clark Cucinell, James J. Davis, Donald M. Dempsey, Allan Dickerman, Emily M. Dietrich, Ronald W. Kenyon, Mehmet Kuscuoglu, Elliot J. Lefkowitz, Jian Lu, Dustin Machi, Catherine Macken, Chunhong Mao, Anna Maria Niewiadomska, Marcus Nguyen, Gary J. Olsen, Jamie C. Overbeek, Bruce D. Parrello, Victoria Parrello, Jacob s Porter, Gordon D. Pusch, Maulik Shukla, Indresh Singh, Lucy Stewart, Gene Tan, Chris Thomas, Margo VanOeffelen, Veronika Vonstein, Zachary S. Wallace, Andrew S. Warren, Alice R. Wattam, Fangfang Xia, Hyun Seung Yoo, Yun Zhang, Christian M. Zmasek, Richard H. Scheuermann, Rick L. Stevens:
Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR. Nucleic Acids Res. 51(D1): 678-689 (2023) - [c8]Miao Tony He, Fangfang Xia, Rick L. Stevens:
Deep Fair Partition for Hyperspectral Image Classification. WHISPERS 2023: 1-12 - [i13]Aneeq Zia, Kiran Bhattacharyya, Xi Liu, Max Berniker, Ziheng Wang, Rogerio Nespolo, Satoshi Kondo, Satoshi Kasai, Kousuke Hirasawa, Bo Liu, David Austin, Yiheng Wang, Michal Futrega, Jean-Francois Puget, Zhenqiang Li, Yoichi Sato, Ryo Fujii, Ryo Hachiuma, Mana Masuda, Hideo Saito, An Wang, Mengya Xu, Mobarakol Islam, Long Bai, Winnie Pang, Hongliang Ren, Chinedu Innocent Nwoye, Luca Sestini, Nicolas Padoy, Maximilian Nielsen, Samuel Schüttler, Thilo Sentker, Hümeyra Husseini, Ivo M. Baltruschat, Rüdiger Schmitz, René Werner, Aleksandr Matsun, Mugariya Farooq, Numan Saeed, Jose Renato Restom Viera, Mohammad Yaqub, Neil Getty, Fangfang Xia, Zixuan Zhao, Xiaotian Duan, Xing Yao, Ange Lou, Hao Yang, Jintong Han, Jack H. Noble, Jie Ying Wu, Tamer Abdulbaki Alshirbaji, Nour Aldeen Jalal, Herag Arabian, Ning Ding, Knut Moeller, Weiliang Chen, Quan He, Lena Maier-Hein, Danail Stoyanov, Stefanie Speidel, Anthony M. Jarc:
Surgical tool classification and localization: results and methods from the MICCAI 2022 SurgToolLoc challenge. CoRR abs/2305.07152 (2023) - 2022
- [j12]Fangfang Xia, Jonathan E. Allen, Prasanna Balaprakash, Thomas S. Brettin, Cristina Garcia-Cardona, Austin Clyde, Judith D. Cohn, James H. Doroshow, Xiaotian Duan, Veronika Dubinkina, Yvonne A. Evrard, Ya Ju Fan, Jason Gans, Stewart He, Pinyi Lu, Sergei Maslov, Alexander Partin, Maulik Shukla, Eric A. Stahlberg, Justin M. Wozniak, Hyun Seung Yoo, George F. Zaki, Yitan Zhu, Rick Stevens:
A cross-study analysis of drug response prediction in cancer cell lines. Briefings Bioinform. 23(1) (2022) - [i12]Chinedu Innocent Nwoye, Deepak Alapatt, Tong Yu, Armine Vardazaryan, Fangfang Xia, Zixuan Zhao, Tong Xia, Fucang Jia, Yuxuan Yang, Hao Wang, Derong Yu, Guoyan Zheng, Xiaotian Duan, Neil Getty, Ricardo Sanchez-Matilla, Maria Robu, Li Zhang, Huabin Chen, Jiacheng Wang, Liansheng Wang, Bokai Zhang, Beerend G. A. Gerats, Sista Raviteja, Rachana Sathish, Rong Tao, Satoshi Kondo, Winnie Pang, Hongliang Ren, Julian Ronald Abbing, Mohammad Hasan Sarhan, Sebastian Bodenstedt, Nithya Bhasker, Bruno Oliveira, Helena R. Torres, Li Ling, Finn Gaida, Tobias Czempiel, João L. Vilaça, Pedro Morais, Jaime C. Fonseca, Ruby Mae Egging, Inge Nicole Wijma, Chen Qian, Guibin Bian, Zhen Li, Velmurugan Balasubramanian, Debdoot Sheet, Imanol Luengo, Yuanbo Zhu, Shuai Ding, Jakob-Anton Aschenbrenner, Nicolas Elini van der Kar, Mengya Xu, Mobarakol Islam, Lalithkumar Seenivasan, Alexander Jenke, Danail Stoyanov, Didier Mutter, Pietro Mascagni, Barbara Seeliger, Cristians Gonzalez, Nicolas Padoy:
CholecTriplet2021: A benchmark challenge for surgical action triplet recognition. CoRR abs/2204.04746 (2022) - [i11]Xuefeng Liu, Fangfang Xia, Rick L. Stevens, Yuxin Chen:
Cost-Effective Online Contextual Model Selection. CoRR abs/2207.06030 (2022) - 2021
- [j11]Alexander Partin, Thomas S. Brettin, Yvonne A. Evrard, Yitan Zhu, Hyun Seung Yoo, Fangfang Xia, Songhao Jiang, Austin Clyde, Maulik Shukla, Michael Fonstein, James H. Doroshow, Rick L. Stevens:
Learning curves for drug response prediction in cancer cell lines. BMC Bioinform. 22(1): 252 (2021) - [c7]Zixuan Zhao, Nathan Wycoff, Neil Getty, Rick Stevens, Fangfang Xia:
Neko: a Library for Exploring Neuromorphic Learning Rules. ICONS 2021: 9:1-9:5 - [c6]Romain Égelé, Prasanna Balaprakash, Isabelle Guyon, Venkatram Vishwanath, Fangfang Xia, Rick Stevens, Zhengying Liu:
AgEBO-tabular: joint neural architecture and hyperparameter search with autotuned data-parallel training for tabular data. SC 2021: 30 - [i10]Agastya P. Bhati, Shunzhou Wan, Dario Alfè, Austin R. Clyde, Mathis Bode, Li Tan, Mikhail Titov, André Merzky, Matteo Turilli, Shantenu Jha, Roger R. Highfield, Walter Rocchia, Nicola Scafuri, Sauro Succi, Dieter Kranzlmüller, Gerald Mathias, David Wifling, Yann Donon, Alberto Di Meglio, Sofia Vallecorsa, Heng Ma, Anda Trifan, Arvind Ramanathan, Tom Brettin, Alexander Partin, Fangfang Xia, Xiaotan Duan, Rick Stevens, Peter V. Coveney:
Pandemic Drugs at Pandemic Speed: Accelerating COVID-19 Drug Discovery with Hybrid Machine Learning- and Physics-based Simulations on High Performance Computers. CoRR abs/2103.02843 (2021) - [i9]Zixuan Zhao, Nathan Wycoff, Neil Getty, Rick Stevens, Fangfang Xia:
Neko: a Library for Exploring Neuromorphic Learning Rules. CoRR abs/2105.00324 (2021) - 2020
- [j10]James J. Davis, Alice R. Wattam, Ramy K. Aziz, Thomas S. Brettin, Ralph Butler, Rory Butler, Philippe Chlenski, Neal Conrad, Allan Dickerman, Emily M. Dietrich, Joseph L. Gabbard, Svetlana Gerdes, Andrew Guard, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Daniel E. Murphy-Olson, Marcus Nguyen, Eric K. Nordberg, Gary J. Olsen, Robert Olson, Jamie C. Overbeek, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, Maulik Shukla, Chris Thomas, Margo VanOeffelen, Veronika Vonstein, Andrew S. Warren, Fangfang Xia, Dawen Xie, Hyun Seung Yoo, Rick Stevens:
The PATRIC Bioinformatics Resource Center: expanding data and analysis capabilities. Nucleic Acids Res. 48(Database-Issue): D606-D612 (2020) - [c5]Neil Getty, Zixuan Zhao, Stephan Gruessner, Liaohai Chen, Fangfang Xia:
Recurrent and Spiking Modeling of Sparse Surgical Kinematics. ICONS 2020: 24:1-24:5 - [i8]Austin Clyde, Tom Brettin, Alexander Partin, Maulik Shaulik, Hyun Seung Yoo, Yvonne A. Evrard, Yitan Zhu, Fangfang Xia, Rick Stevens:
A Systematic Approach to Featurization for Cancer Drug Sensitivity Predictions with Deep Learning. CoRR abs/2005.00095 (2020) - [i7]Nathan Wycoff, Prasanna Balaprakash, Fangfang Xia:
Towards On-Chip Bayesian Neuromorphic Learning. CoRR abs/2005.04165 (2020) - [i6]Neil Getty, Thomas S. Brettin, Dong Jin, Rick Stevens, Fangfang Xia:
Deep Medical Image Analysis with Representation Learning and Neuromorphic Computing. CoRR abs/2005.05431 (2020) - [i5]Neil Getty, Zixuan Zhou, Stephan Gruessner, Liaohai Chen, Fangfang Xia:
Recurrent and Spiking Modeling of Sparse Surgical Kinematics. CoRR abs/2005.05868 (2020) - [i4]Yitan Zhu, Thomas S. Brettin, Yvonne A. Evrard, Alexander Partin, Fangfang Xia, Maulik Shukla, Hyun Seung Yoo, James H. Doroshow, Rick Stevens:
Ensemble Transfer Learning for the Prediction of Anti-Cancer Drug Response. CoRR abs/2005.09572 (2020) - [i3]Alexander Partin, Thomas S. Brettin, Yvonne A. Evrard, Yitan Zhu, Hyun Seung Yoo, Fangfang Xia, Songhao Jiang, Austin Clyde, Maulik Shukla, Michael Fonstein, James H. Doroshow, Rick Stevens:
Learning Curves for Drug Response Prediction in Cancer Cell Lines. CoRR abs/2011.12466 (2020)
2010 – 2019
- 2019
- [j9]Dionysios A. Antonopoulos, Rida Assaf, Ramy Karam Aziz, Thomas S. Brettin, Christopher Bun, Neal Conrad, James J. Davis, Emily M. Dietrich, Terry Disz, Svetlana Gerdes, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Daniel E. Murphy-Olson, Eric K. Nordberg, Gary J. Olsen, Robert Olson, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, John Santerre, Maulik Shukla, Rick L. Stevens, Margo VanOeffelen, Veronika Vonstein, Andrew S. Warren, Alice R. Wattam, Fangfang Xia, Hyun Seung Yoo:
PATRIC as a unique resource for studying antimicrobial resistance. Briefings Bioinform. 20(4): 1094-1102 (2019) - [c4]Nathan Wycoff, Prasanna Balaprakash, Fangfang Xia:
Neuromorphic Acceleration for Approximate Bayesian Inference on Neural Networks via Permanent Dropout. ICONS 2019: 9:1-9:4 - [c3]Xingfu Wu, Valerie E. Taylor, Justin M. Wozniak, Rick Stevens, Thomas S. Brettin, Fangfang Xia:
Performance, Energy, and Scalability Analysis and Improvement of Parallel Cancer Deep Learning CANDLE Benchmarks. ICPP 2019: 78:1-78:11 - [c2]Prasanna Balaprakash, Romain Egele, Misha Salim, Stefan M. Wild, Venkatram Vishwanath, Fangfang Xia, Tom Brettin, Rick Stevens:
Scalable reinforcement-learning-based neural architecture search for cancer deep learning research. SC 2019: 37:1-37:33 - [i2]Nathan Wycoff, Prasanna Balaprakash, Fangfang Xia:
Neuromorphic Acceleration for Approximate Bayesian Inference on Neural Networks via Permanent Dropout. CoRR abs/1904.12904 (2019) - [i1]Prasanna Balaprakash, Romain Egele, Misha Salim, Stefan M. Wild, Venkatram Vishwanath, Fangfang Xia, Tom Brettin, Rick Stevens:
Scalable Reinforcement-Learning-Based Neural Architecture Search for Cancer Deep Learning Research. CoRR abs/1909.00311 (2019) - 2018
- [j8]Justin M. Wozniak, Rajeev Jain, Prasanna Balaprakash, Jonathan Ozik, Nicholson T. Collier, John Bauer, Fangfang Xia, Thomas S. Brettin, Rick Stevens, Jamaludin Mohd-Yusof, Cristina Garcia-Cardona, Brian Van Essen, Matthew Baughman:
CANDLE/Supervisor: a workflow framework for machine learning applied to cancer research. BMC Bioinform. 19-S(18): 59-69 (2018) - [j7]Fangfang Xia, Maulik Shukla, Thomas S. Brettin, Cristina Garcia-Cardona, Judith D. Cohn, Jonathan E. Allen, Sergei Maslov, Susan L. Holbeck, James H. Doroshow, Yvonne A. Evrard, Eric A. Stahlberg, Rick L. Stevens:
Predicting tumor cell line response to drug pairs with deep learning. BMC Bioinform. 19-S(18): 71-79 (2018) - 2017
- [j6]Alice R. Wattam, James J. Davis, Rida Assaf, Sébastien Boisvert, Thomas S. Brettin, Christopher Bun, Neal Conrad, Emily M. Dietrich, Terry Disz, Joseph L. Gabbard, Svetlana Gerdes, Christopher S. Henry, Ronald W. Kenyon, Dustin Machi, Chunhong Mao, Eric K. Nordberg, Gary J. Olsen, Daniel E. Murphy-Olson, Robert Olson, Ross A. Overbeek, Bruce D. Parrello, Gordon D. Pusch, Maulik Shukla, Veronika Vonstein, Andrew S. Warren, Fangfang Xia, Hyun Seung Yoo, Rick L. Stevens:
Improvements to PATRIC, the all-bacterial Bioinformatics Database and Analysis Resource Center. Nucleic Acids Res. 45(Database-Issue): D535-D542 (2017) - 2016
- [j5]Matthew A. Oberhardt, Raphy Zarecki, Leah Reshef, Fangfang Xia, Miquel Duran-Frigola, Rachel Schreiber, Christopher S. Henry, Nir Ben-Tal, Daniel J. Dwyer, Uri Gophna, Eytan Ruppin:
Systems-Wide Prediction of Enzyme Promiscuity Reveals a New Underground Alternative Route for Pyridoxal 5'-Phosphate Production in E. coli. PLoS Comput. Biol. 12(1) (2016) - 2014
- [j4]José P. Faria, Ross A. Overbeek, Fangfang Xia, Miguel Rocha, Isabel Rocha, Christopher S. Henry:
Genome-scale bacterial transcriptional regulatory networks: reconstruction and integrated analysis with metabolic models. Briefings Bioinform. 15(4): 592-611 (2014) - [j3]Ross A. Overbeek, Robert Olson, Gordon D. Pusch, Gary J. Olsen, James J. Davis, Terry Disz, Robert A. Edwards, Svetlana Gerdes, Bruce D. Parrello, Maulik Shukla, Veronika Vonstein, Alice R. Wattam, Fangfang Xia, Rick Stevens:
The SEED and the Rapid Annotation of microbial genomes using Subsystems Technology (RAST). Nucleic Acids Res. 42(Database-Issue): 206-214 (2014) - 2013
- [j2]Élénie Godzaridis, Sébastien Boisvert, Fangfang Xia, Mikhail Kandel, Steve Behling, Bill Long, Carlos P. Sosa, François Laviolette, Jacques Corbeil:
Human Analysts at Superhuman Scales: What Has Friendly Software To Do? Big Data 1(4): 227-236 (2013)
2000 – 2009
- 2009
- [c1]Fangfang Xia, Rick Stevens:
Inferring a Species Tree from Gene Trees in the Presence of HGT. BIOCOMP 2009: 840-847 - 2007
- [j1]Leslie Klis McNeil, Claudia Reich, Ramy K. Aziz, Daniela Bartels, Matthew Cohoon, Terry Disz, Robert A. Edwards, Svetlana Gerdes, Kaitlyn Hwang, Michael Kubal, Gohar Rem Margaryan, Folker Meyer, William Mihalo, Gary J. Olsen, Robert Olson, Andrei Osterman, Daniel Paarmann, Tobias Paczian, Bruce D. Parrello, Gordon D. Pusch, Dmitry A. Rodionov, Xinghua Shi, Olga Vassieva, Veronika Vonstein, Olga Zagnitko, Fangfang Xia, Jenifer Zinner, Ross A. Overbeek, Rick Stevens:
The National Microbial Pathogen Database Resource (NMPDR): a genomics platform based on subsystem annotation. Nucleic Acids Res. 35(Database-Issue): 347-353 (2007)
Coauthor Index
Thomas S. Brettin
aka: Tom Brettin
aka: Tom Brettin
Rick L. Stevens
aka: Rick Stevens
aka: Rick Stevens
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