2021 publications from our faculty and fellows during their time at WID are listed below. Please see each publication for additional information.
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Year | Title | Author(s) | Type |
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2021 | k-median: exact recovery in the extended stochastic ball model | Alberto Del Pia, Mingchen Ma | Article |
2021 | A biomimetic basement membrane consisted of hybrid aligned nanofibers and microfibers with immobilized collagen IV and laminin for rapid endothelialization | Chenglong Yu, Guoping Guan, Stefanie Glas, Lu Wang, Zhutong Li, Lih-Sheng Turng | Article |
2021 | A comparative mixed methods study on health information seeking among US-born/US-dwelling, Korean-born/US-dwelling, and Korean-born/Korean-dwelling mothers | Hanseul Stephanie Lee, Catherine Arnott-Smith | Article |
2021 | A dual-responsive antibiotic-loaded nanoparticle specifically binds pathogens and overcomes antimicrobial-resistant infections | Mingzhou Ye, Yi Zhao, Yuyuan Wang, Miao Zhao, Nisakorn Yodsanit, Ruosen Xie, David Andes, Shaoqin Gong | Article |
2021 | A phylogeny-based test of mediation effect in microbiome | Qilin Hong, Guanhua Chen, Zheng-Zheng Tang | Preprint |
2021 | A review of thermoplastic polymer foams for functional applications | Gaojian Wu, Pengcheng Xie, Huaguang Yang, Kaifang Dang, Yuxuan Xu, Mohini Sain, Lih-Sheng Turng, Weimin Yang | Article |
2021 | A roadmap to robust science for high-throughput applications: The developers' perspective | M. Taufer, E. Deelman, R. Ferreira da Silva, T. Estrada, M. Hall, M. Livny | Proceeding |
2021 | Acetyl-CoA flux from the cytosol to the ER regulates engagement and quality of the secretory pathway | IA Dieterich, Y Cui, MM Braun, AJ Lawton, NH Robinson, JL Peotter, Q Yu, JC Casler, BS Glick, A Audhya, JM Denu, L Li, L Puglielli | Article |
2021 | An adventitial painting modality of local drug delivery to abate intimal hyperplasia | Takuro Shirasu, Nisakorn Yodsanit, Xiujie Xie, Yi Zhao, Yuyuan Wang, Ruosen Xie, Yitao Huang, Bowen Wang, Go Urabe, Shaoqin Gong, Lian-Wang Guo, K. Craig Kent | Article |
2021 | An Approximation algorithm for indefinite mixed integer quadratic programming | Alberto Del Pia | Preprint |
2021 | Application of quantum machine learning using the quantum kernel algorithm on high energy physics analysis at the LHC | Sau Lan Wu, Shaojun Sun, Wen Guan, Chen Zhou, Jay Chan, Chi Lung Cheng, Tuan Pham, Yan Qian, Alex Zeng Wang, Rui Zhang, Miron Livny, Jennifer Glick, Panagiotis Kl. Barkoutsos, Stefan Woerner, Ivano Tavernelli, Federico Carminati, Alberto Di Meglio, Andy C. Y. Li, Joseph Lykken, Panagiotis Spentzouris, Samuel Yen-Chi Chen, Shinjae Yoo, Tzu-Chieh Wei | Preprint |
2021 | BAF155 methylation drives metastasis by hijacking super-enhancers and subverting anti-tumor immunity | Eui-Jun Kim, Peng Liu, Shengjie Zhang, Kristine Donahue, Yidan Wang, Jennifer L Schehr, Serena K Wolfe, Amber Dickerson, Li Lu, Lixin Rui, Xuehua Zhong, Kari B Wisinski, Min Yu, Aussie Suzuki, Joshua M Lang, Irene M Ong, Wei Xu | Article |
2021 | BedsideNotes: Sharing physicians' notes with parents during hospitalization | Benjamin M. Zellmer, Carrie L. Nacht, Ryan J. Coller, Peter L.T. Hoonakker, Catherine Arnott-Smith, Daniel J. Sklansky, Shannon M. Dean, Windy Smith, Carley M. Sprackling, Brad D. Ehlenfeld, Michelle M. Kelly | Article |
2021 | Benchmarking quantitative performance in label-free proteomics | James A. Dowell, Logan J. Wright, Eric A. Armsrong, John M. Denu | Article |
2021 | Biological role and mechanism of chromatin readers in plants | Ray Scheid, Jiani Chen, Xuehua Zhong | Article |
2021 | Biomimetic, ROS-detonable nanoclusters - A multimodal nanoplatform for anti-restenotic therapy | Yi Zhao, Takuro Shirasu, Nisakorn Yodsanit, Eric Kent, Mingzhou Ye, Yuyuan Wang, Ruosen Xie, Alexander C. Gregg, Yitao Huang, K. Craig Kent, Lian-Wang Guo, Shaoqin Gong, Bowen Wang | Article |
2021 | Classification of animal sounds in a hyperdiverse rainforest using Convolutional Neural Networks | Yuren Sun, Tatiana Midori Maeda, Claudia Solís-Lemus, Daniel Pimentel-Alarcón, Zuzana Burivalova | Preprint |
2021 | Climate policies after Paris: Pledge, trade, and recycle. Insights from the 36th Energy Modeling Forum study (EMF36) | Christoph Böhringer, Sonja Peterson, Thomas F. Rutherford, Jan Schneider, Malte Winkler | Proceeding |
2021 | Complexity of projected Newton methods for bound-constrained optimization | Yue Xie, Stephen J. Wright | Preprint |
2021 | Context matters: A theory of semantic discriminability for receptual encoding systems | Kushin Mukherjee, Brian Yin, Brianne E. Sherman, Laurent Lessard, Karen B. Schloss | Preprint |
2021 | Controlling CRISPR with small molecule regulation for somatic cell genome editing | Namita Khajanchi, Krishanu Saha | Article |
2021 | CRISPR base editing as a potential therapeutic approach for Kir7.1 channelopathy | Meha Kabra, Pawan K Shahi, Allison Spillane, Yuyuan Wang, Divya Sinha, Gregory A Newby, Sivani Saxena, Krishanu Saha, Mariya Moosajee, David Gamm, David R Liu, Shaoqin Gong, Bikash R Pattnaik | Article |
2021 | Current state of magnetic levitation and its applications in polymers: A review | Jun Xie, Peng Zhao, Chengqian Zhang, Jianzhong Fu, Lih-Sheng Turng | Preprint |
2021 | DNA methyltransferanse CHROMOMETHYLASE3 prevents ONSEN transposon silencing under heat stress | Xuehua Zhong, Kosuke Nozawa, Jiani Chen, Jianjun Jiang, Sarah M. Leichter, Masataka Yamada, Takamasa Suzuki, Fengquan Liu, Hidetaka Ito | Article |
2021 | DOT1L inhibition enhances pluripotency beyond acquisition of epithelial identity and without immediate suppression of the somatic transcriptome | Coral K.Wille, Rupa Sridharan | Article |
2021 | Economic and environmental impacts of a proposed 'Carbon adder' on New York's energy market | Gökçe Akin-Olçum, Christoph Böhringer, Thomas Rutherford, Andrew Schreiber | Article |
2021 | Eggshell membrane and expanded polytetrafluoroethylene piezoelectric-enhanced triboelectric bio-nanogenerators for energy harvesting | Shujie Yan, Zhi Zhang, Xingxing Shi, Yiyang Xu, Yuan Li, Xiaofeng Wang, Qian Li, Lih-Sheng Turng | Article |
2021 | Endoplasmic reticulum acetyltransferases Atase1 and Atase2 differentially regulate reticulophagy, macroautophagy and cellular acetyl-CoA metabolism | Michael J. Rigby, Alexis J. Lawton, Gulpreet Kaur, Varuna C. Banduseela, William E. Kamm, Aparna Lakkaraju, John M. Denu, Luigi Puglielli | Article |
2021 | Erratum for: Multiplex CRISPR-Cas9 editing of DNA methyltransferases in rice uncovers a class of non-CG methylation specific for GC-rich regions | Daoheng Hu, Yiming Yu, Chun Wang, Yanping Long, Yue Liu, Li Feng, Dongdong Lu, Bo Liu, Jinbu Jia, Rui Xia, Jiamu Du, Xuehua Zhong, Lei Gong, Kejian Wang, Jixian Zhai | Other |
2021 | Evaluating the gas-laden ability of polymer melt under atmospheric conditions using a modified torque rheometer | Xing-Yu Mei, Ying-Guo Zhou, Hong-Long Sun, Bin-Bin Dong, Chun-Tai Liu, Li-Sheng Turng | Article |
2021 | Evidence for distinct facial signals of reward, affiliation, and dominance from both perception and production tasks | Jared D. Martin, Adrienne Wood, William T. L. Cox, Scott Sievert, Robert Nowak, Eva Gilboa-Schechtman, Fangyun Zhao, Zachary Witkower, Andrew T. Langbehn, Paula M. Niedenthal | Article |
2021 | Expanded polytetrafluoroethylene/silk fibroin/salicin vascular graft fabrication for improved endothelialization and anticoagulation | Shujie Yan, Yuan Lie Yong, Chao Jiang, Yiyang Xu, Dongfang Wang, Xiang Zhang, Qian Li, Lih-Sheng Turng | Article |
2021 | Factors influencing willingness to share health misinformation videos on the internet: Web-based survey | Alla Keselman, Catherine Arnott-Smith, Gondy Leroy, David R Kaufman | Article |
2021 | Fasting drives the metabolic, molecular and geroprotective effects of a calorie-restricted diet in mice | Heidi H. Pak, Spencer A. Haws, Cara L. Green, Mikaela Koller, Mitchell T. Lavarias, Nicole E. Richardson, Shany E. Yang, Sabrina N. Dumas, Michelle Sonsalla, Lindsey Bray, Michelle Johnson, Stephen Barnes, Victor Darley-Usmar, Jianhua Zhang, Chi-Liang Eric Yen, John M. Denu, Dudley W. Lamming | Article |
2021 | From metagenomes to molecules: innovations in functinoal metagenomics unlock hidden chemistry in the human microbiome | Marc G. Chevrette, Jo Handelsman | Article |
2021 | Gender can influence student experiences in MD-PhD training | Anna S. Heffron, Katarina M. Braun, Cora Allen-Savietta, Amarette Filut, Chelsea Hanewall, Anna Huttenlocher, Jo Handelsman, Molly Carnes | Article |
2021 | GNPS Dashboard: collaborative exploration of mass spectrometry data in the web browser | Daniel Petras, Vanessa V. Phelan, Deepa Acharya, Andrew E. Allen, Allegra T. Aron, Nuno Bandeira, Benjamin P. Bowen, Deirdre Belle-Oudry, Simon Boecker, Dale A. Cummings Jr., Jessica M. Deutsch, Eoin Fahy, Neha Garg, Rachel Gregor, Jo Handelsman, Mirtha Navarro-Hoyos, Alan K. Jarmusch, Scott A. Jarmusch, Katherine Louie, Katherine N. Maloney, Michael T. Marty, Michael M. Meijler, Itzhak Mizrahi, Rachel L. Neve, Trent R. Northen, Carlos Molina-Santiago, Morgan Panitchpakdi, Benjamin Pullman, Aaron W. Puri, Robin Schmid, Shankar Subramaniam, Monica Thukral, Felipe Vasquez-Castro, Pieter C. Dorrestein & Mingxun Wang | Other |
2021 | Heteroscedasticity-aware residuals-basedcontextual stochastic optimization | Rohit Kannan, Güzin Bayraksan, James R. Luedtke | Preprint |
2021 | High-rank matrix completion by integer programming | Jeff Linderoth, Akhilesh Soni, Jim Luedtke, Daniel Pimentel-Alarcón | Preprint |
2021 | Hybrid liquid-metal heat dissipation structure enabled by phase transition for flexible electronics | Haicheng Li, Huilong Zhang, Seunghwan Min, Tao Zhou, Shaoqin Gong, Xue Feng, Zhenqiang Ma | Preprint |
2021 | Hydrogen peroxide-responsive platelet membrane-coated nanoparticles for thrombus therapy | Yi Zhao, Ruosen Xie, Nisakorn Yodsanit, Mingzhou Ye, Yuyuan Wang, Bowen Wang, Lian-Wang Guo, K Craig Kent, Shaoqin Gong | Article |
2021 | Improving polylactide toughness by plasticizing with low molecular weight polylactide-poly(butylene succinate) copolymer | Yottha Srithep1, Onpreeya Veang-in, Dutchanee Pholharn, Lih-Sheng Turng, John Morris | Article |
2021 | Industrial, large-scale model predictive control with structured neural networks | Pratyush Kuman, James B. Rawlings, Stephen J. Wright | Article |
2021 | Injectable hydrogel capable of in situ covalent crosslinking for permanent embolization | Ruosen Xie, Yu-Chung Chen, Yi Zhao, Nisakorn Yodsanit, Yuyuan Wang, Naoaki Yamamoto, Dai Yamanouchi, Shaoqin Gong | Article |
2021 | Integer programming approaches to subspace clustering with missing data | Akhilesh Soni, Jeff Linderoth, Jim Luedtke, Daniel Pimentel-Alarcón | Proceeding |
2021 | Integrating biomaterials and genome editing approaches to advance biomedical science | Amr A. Abdeen, Brian D. Cosgrove, Charles A. Gersbach, Krishanu Saha | Article |
2021 | Integrating United States biomanufacturing across vaccines and therapeutics | Krishanu Saha, Krishnendu Roy | Article |
2021 | Investigating coloration as an emotion expressive cue for social robots | Karen B. Schloss, Christopher Thornstenson | Article |
2021 | Kinetics and potency of T cell and CAR-T cell mediated cytolysis of glioma stem cells | Heather Brant Hayes, Meghan T. Logun, Stacie A. Chvatal, Katie Mueller, Nicole Piscopo, Amritava Das, Krishanu Saha, Daniel C. Millard, Lohitash Karumbaiah | Proceeding |
2021 | Label-free imaging to track reprogramming of human somatic cells | K Molugu, GA Battistini, TM Heaster, J Rouw, EC Guzman, MC Skala, K Saha | Preprint |
2021 | Label-free metabolic imaging of tumor-induced T cell exhaustion | Dan L. Pham, Katherine Mueller, Krishanu Saha, Melissa C. Skala | Proceeding |
2021 | Machine learning approach to measurement of criticism: The core dimension of ecpressed emotion | Arezoo Movaghar, David Page, Krishanu Saha, Moira Rynn, Jan Greenberg | Article |
2021 | Mapping a low-dimensional space of color-concept associations | Karen B. Schloss, Kushin Mukherjee, Timothy T. Rogers, Laurent Lessard, Michael Gleicher | Article |
2021 | Metabolism in the Midwest: research from the Midwest Aging Consortium at the 49th Annual Meeting of the American Aging Association | Michaela E. Murphy, Akilavalli Narasimhan, Alexis Adrian, Ankur Kumar, Cara L. Green, Carolina Soto-Christina Camell, Christopher S. Morrow, Chung-Yang Yeh, Claire E. Richardson, Cristal M. Hill, Darcie L. Moore, Dudley W. Lamming, Eric R. McGregor, Heather A. Simmons, Heidi H. Pak, Hua Bai, John M. Denu, Josef Clark, Judith Simcox, Kishore Chittimalli, Korbyn Dahlquist, Kyoo-a Lee, Mariah Calubag, Mark Bouska, Matthew J. Yousefzadeh, Michelle Sonsalla, Reji Babygirija, Rong Yuan, Tadataka Tsuji, Timothy Rhoads, Vinal Menon, Yagna PR. Jarajapu, Yun Zhu | Proceeding |
2021 | Microbe-diet interactions influence the effects of fiber on host metabolism | Sofia M. Murga-Garrido, Qilin Hong, Tzu-Wen L. Cross, Evan R. Hutchison, Jessica Han, Sydney P. Thomas, Eugenio I. Vivas, John Denu, Danilo G. Ceschin, Zheng-Zheng Tang, Federico E. Rey | Preprint |
2021 | Micropattern platform promotes extracellular matrix remodeling by human PSC-derived cardiac fibroblasts and enhances contractility of co-cultured cardiomyocytes | B.N. Napiwocki, A. Stempien, D. Lang, R.A. Kruepke, G. Kim, J. Zhang, L.L. Eckhardt, A.V. Glukhov, T.J. Kamp, W.C. Crone | Article |
2021 | More of what: Does the dark-is-more bias for colormap data visualizations operate on numeric or conceptual magnitude? | Karen B. Schloss, Melissa A. Schoenlein, Alexis V. Soto | Article |
2021 | Multiphoton autofluorescence imaging of immune cells in cancer | Melissa C. Skala, Tiffany M. Heaster, Kelsey Tweed, Alexa Heaton, Dan Pham, Katherine Mueller, Dave Beebe, Paul Sondel, Krishanu Saha | Proceeding |
2021 | Multi-stable bacterial communities exhibit extreme sensitivity to initial conditions | Erik S Wrignt, Raveena Gupta, Kalin H Vetsigian | Article |
2021 | Nearest Neighbor Search Under Uncertainty | Blake Mason, Ardhendu Tripathy, Robert Nowak | Preprint |
2021 | Needles in haystacks: reevaluating old paradigms for the discovery of bacterial secondary metabolites | Marc G. Chevrette, Jo Handelsman | Article |
2021 | Non-viral nanocarriers for CRISPR-based genome editing tool delivery | Yuyuan Wang, Shaoqin Gong | Other |
2021 | On generating Lagrangian cuts for two-stage stochastic integer programs | Rui Chen, James Luedtke | Preprint |
2021 | On the complexity of separation from the knapsack polytope | Alberto Del Pia, Jeff Linderoth, Haoran Zhu | Preprint |
2021 | On the hole, interpretations of Venn diagrams are influenced by perceptual organization | Karen B. Schloss, Anna Bartel, Kevin Lande, Joris Roos | Article |
2021 | Overparameterization of deep ResNet: zero loss and mean-field analysis | Zhiyan Ding, Shi Chen, Qin Li, Stephen J. Wright | Preprint |
2021 | Pareto optimal model selection in linear bandits | Yinglun Zhu, Robert Nowak | Preprint |
2021 | Patterns of virus growth across the diversity of life | Tianyi Jin, John Yin | Article |
2021 | Quality control and evaluation of plant epigenomics data | Robert J. Schmitz, Alexandre P. Marand, Xuan Zhang, Rebecca A. Mosher, Franziska Turck, Xuemei Chen, Michael J. Axtell, Xuehua Zhong, Siobhan M. Brady, Molly Megraw, Blake C. Meyers | Article |
2021 | Randomized algorithms for scientific computing (RASC) | Aydın Buluç, Tamara G. Kolda, Stefan M. Wild, Mihai Anitescu, Anthony DeGennaro, John Jakeman, Chandrika Kamath, Ramakrishnan (Ramki) Kannan, Miles, E. Lopes, Per-Gunnar Martinsson, Kary Myers, Jelani Nelson, Juan M. Restrepo, C. Seshadhri, Draguna Vrabie, Brendt Wohlberg, Stephen J. Wright, Chao Yang, Peter Zwart | Proceeding |
2021 | Red state, blue state: The polarizing influence of color in political maps | Rémy A. Furrer, Karen Schloss, Gary Lupyan, Paula M. Niedenthal, Adrienne Wood | Preprint |
2021 | S- to X-band stretchable inductors and filters for gigahertz soft and epidermal electronics | Yu Lan, Huilong Zhang, Seunghwan Min, Donghyeok Kim, Shaoqin Gong, Linda Katehi, Yuehang Xu, Zhenqiang Ma | Article |
2021 | Science education as a barrier against "Fake Health News"" | Alla Keselman, Catherine Arnott-Smith, Gondy Leroy, David R. Kaufman | Article |
2021 | Short-chain fatty acids activate acetyltransferase p300 | Sydney P. Thomas, John M. Denu | Preprint |
2021 | Simple odd β-cycle inequalities for binary polynomial optimization | Alberto Del Pia, Matthias Walter | Preprint |
2021 | Single cell technologies to dissect heterogenous immune cell therapy products | Katherine Mueller, Krishanu Saha | Article |
2021 | Sirt6 regulates lifespan in Drosophila melanogaster | Jackson R. Taylor Jason G. Wood, Evan Mizerak, Samuel Hinthorn, Julianna Liu, Matthew Finn, Sarah Gordon, Louis Zingas, Chengyi Chang, Mark A. Klein, John M. Denu, Vera Gorbunova,Andrei Seluanov, Jef D. Boeke, John M. Sedivy, and Stephen L. Helfand | Article |
2021 | Social motility of biofilm-like microcolonies in a gliding bacterium | Chao Li, Amanda Hurley, Wei Hu, Jay W. Warrick, Gabriel L. Lozano, Jose M. Ayuso, Wenxiao Pan, Jo Handelsman, David J. Beebe | Article |
2021 | Sparse multi-term disjunctive cuts for the epigraph of a function of binary variables | Rui Chen, James Luedtke | Preprint |
2021 | Sparsity of integral points on moduli spaces of varieties | Jordan S. Ellenberg, Brian Lawrence, Akshay Venkatesh | Article |
2021 | The incidence of CO2 emissions pricing under alternative international market responses a computable general equilibrium analysis for Germany | Christoph Böhringer, Thomas F. Rutherford, Jan Schneider | Preprint |
2021 | The mathematical foundations of epistemic network analysis | Dale Bowman, Zachari Swiecki, Zhiqiang Cai, Yeyu Wang, Brendan Eagan, Jeff Linderoth, David Williamson Shaffer | Proceeding |
2021 | The NIH somatic cell genome editing program | Krishanu Saha, Erik J. Sontheimer, et al | Article |
2021 | The UW virtual brain project: An immersive approach to teaching functional neuroanatomy | Karen B. Schloss, Melissa A. Schoenlein, Ross Tredinnick, Simon Smith, Nathaniel Miller, Chris Racey, Christian Castro, Bas Rokers | Article |
2021 | Tiny Earth: A big idea for STEM education and antibiotic discovery | Amanda Hurley, Marc G. Chevrette, Deepa D. Acharya, Gabriel L. Lozano, Manuel Garavito, Jen Heinritz, Luis Balderrama, Mara Beebe, Martel L. DenHartog, Kamiyah Corinaldi, Renee Engels, Alyssa Gutierrez, Orli Jona, Josephine H. I. Putnam, Brody Rhodes, Tiffany Tsang, Simon Hernandez, Carol Bascom-Slack, Jessamina E. Blum, Paul A. Price, Debra Davis, Joanna Klein, Joshua Pultorak, Nora L. Sullivan, Nigel J. Mouncey, Pieter C. Dorrestein, Sarah Miller, Nichole A. Broderick, Jo Handelsman | Article |
2021 | Toward molecular cooperation by de novo peptides | Izabela K. Sibilska-Kaminski, John Yin | Article |
2021 | Toward understanding everyday lives of older adults: A methodological exploration | Jung-hye Shin, Youhung Her-Xiong, Ross Tredinnick, Kevin Ponto | Article |
2021 | Ultrasound-activable piezoelectric membranes for accelerating wound healing | Xingxing Shiab, Yingxin Chen, Yi Zhaoad, Mingzhou Ye, Shuidong Zhang, Shaoqin Gong | Article |
2021 | Ultrathin micromolded 3D scaffolds for high-density photoreceptor layer reconstruction | In-Kyu Lee, Allison L. Ludwig, M. Joseph Phillips, Juhwan Lee, Ruosen Xie, Benjamin S. Sajdak, Lindsey D. Jager, Shaoqin Gong, David M. Gamm, Zhenqiang Ma | Article |
2021 | Upper respiratory tract bacterial-immune interactions during respiratory syncytial virus infection in infancy | Christian Rosas-Salazar, Zheng-Zheng Tang, Meghan H. Shilts, Kedir N. Turi, Qilin Hong, Derek A. Wiggins, Christian E. Lynch, Tebeb Gebretsadik, James D. Chappell, R. Stokes Peebles, Jr, Larry J. Anderson, Suman R. Das, Tina V. Hartert | Article |
2021 | UVR8 interacts with de novo DNA methyltransferase and suppresses DNA methylation in arabidopsis | Jianjun Jiang, Jie Liu, Dean Sanders, Shuiming Qian, Wendan Ren, Jikui Song, Fengquan Liu, Xuehua Zhong | Article |
2021 | Variance reduction via primal-dual accelerated dual averaging for nonsmooth convex finite-sums | Chaobing Song, Stephen J. Wright, Jelena Diakonikolas | Preprint |
2021 | Viscosity characterization and flow simulation and visualization of polytetrafluoroethylene paste extrusion using a green and biofriendly lubricant | George A. Schmidt II, Yu-Jyun Lin, Yiyang Xu, Dongfang Wang, Galip Yilmaz, Lih-Sheng Turng | Article |
2021 | What kinds of functions do deep neural networks learn? Insights from variational spline theory | Rahul Parhi, Robert D. Nowak | Article |