Yili Zheng

Most-cited papers

UPC++: A PGAS Extension for C++
Yili Zheng, A. Kamil, Michael B. Driscoll, H. Shan +1 more
2014IEEE International Parallel and Distributed Processing Symposium193 citations Open access
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Optimization of MPI collective communication on BlueGene/L systems
G. Almási, P. Heidelberger, Charles J. Archer, X. Martorell +4 more
2005International Conference on Supercomputing179 citations
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Oversubscription on multicore processors
Costin Iancu, S. Hofmeyr, F. Blagojevic, Yili Zheng
2010IEEE International Parallel and Distributed Processing Symposium97 citations Open access
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Kosha: A Peer-to-Peer Enhancement for the Network File System
A. Butt, Troy A. Johnson, Yili Zheng, Y.Charlie Hu
2004Proceedings of the ACM/IEEE SC2004 Conference67 citations Open access
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A statistical approach to computer processing of cryo-electron microscope images: virion classification and 3-D reconstruction.
Zhye Yin, Yili Zheng, P. Doerschuk, Padmaja Natarajan +1 more
2003Journal of Structural Biology60 citations
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Designing a unified programming model for heterogeneous machines
Michael Garland, Manjunath Kudlur, Yili Zheng
2012International Conference for High Performance Computing, Networking, Storage and Analysis54 citations
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Shared memory programming for large scale machines
Christopher Barton, CĆlin Casçaval, G. Almási, Yili Zheng +3 more
2006ACM-SIGPLAN Symposium on Programming Language Design and Implementation54 citations
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HabaneroUPC++: a Compiler-free PGAS Library
Vivek Kumar, Yili Zheng, V. Cavé, Zoran Budimlic +1 more
2014International Conference on Partitioned Global Address Space Programming Models49 citations
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Dynamics in cryo EM reconstructions visualized with maximum-likelihood derived variance maps
Qiu Wang, T. Matsui, T. Domitrovic, Yili Zheng +2 more
2012Journal of Structural Biology48 citations Open access
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Communication avoiding and overlapping for numerical linear algebra
E. Georganas, J. González-Domínguez, Edgar Solomonik, Yili Zheng +2 more
2012International Conference for High Performance Computing, Networking, Storage and Analysis47 citations Open access
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Tuning collective communication for Partitioned Global Address Space programming models
Rajesh Nishtala, Yili Zheng, Paul H. Hargrove, K. Yelick
2011Parallel Computing40 citations Open access
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An ab initio algorithm for low-resolution 3-D reconstructions from cryoelectron microscopy images.
Zhye Yin, Yili Zheng, P. Doerschuk
2001Journal of Structural Biology28 citations
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Three-dimensional reconstruction of the statistics of heterogeneous objects from a collection of one projection image of each object.
Yili Zheng, Qiu Wang, P. Doerschuk
2012Journal of The Optical Society of America A-optics Image Science and Vision23 citations
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Measuring High-Performance Computing with Real Applications
M. Sayeed, H. Bae, Yili Zheng, Brian Armstrong +2 more
2008Computing in science & engineering (Print)19 citations
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Optimized Distributed Work-Stealing
Vivek Kumar, K. Murthy, Vivek Sarkar, Yili Zheng
2016Workshop on Irregular Applications: Architectures and Algorithms17 citations
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A Local-View Array Library for Partitioned Global Address Space C++ Programs
A. Kamil, Yili Zheng, K. Yelick
2014ARRAY@PLDI14 citations Open access
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An Asynchronous Task-based Fan-Both Sparse Cholesky Solver
M. Jacquelin, Yili Zheng, E. Ng, K. Yelick
2016arXiv.org11 citations
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Novel statistical models and a high-performance computing toolkit for the solution of cryo electron microscopy inverse problems in viral structural biology
J. Krogmeier, P. Doerschuk, Yili Zheng
200810 citations
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A parallel software toolkit for statistical 3-D virus reconstructions from cryo electron microscopy images using computer clusters with multi-core shared-memory nodes
Yili Zheng, P. Doerschuk
20082008 IEEE International Symposium on Parallel and Distributed Processing10 citations
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Parallel Hessian Assembly for Seismic Waveform Inversion Using Global Updates
S. French, Yili Zheng, B. Romanowicz, K. Yelick
2015IEEE International Parallel and Distributed Processing Symposium8 citations Open access
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PGAS for Distributed Numerical Python Targeting Multi-core Clusters
M. R. B. Kristensen, Yili Zheng, B. Vinter
2012IEEE International Parallel and Distributed Processing Symposium8 citations
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Optimizing UPC programs for multi-core systems
Yili Zheng
2010Scientific Programming8 citations Open access
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Implementing High-Performance Geometric Multigrid Solver with Naturally Grained Messages
H. Shan, S. Williams, Yili Zheng, A. Kamil +1 more
2015International Conference on Partitioned Global Address Space Programming Models6 citations Open access
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UPC Collectives Library 2 . 0
G. Almási, Paul H. Hargrove, Ilie Gabriel Tanase, Yili Zheng +1 more
20116 citations
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Evaluation of PGAS Communication Paradigms with Geometric Multigrid
H. Shan, A. Kamil, S. Williams, Yili Zheng +1 more
2014International Conference on Partitioned Global Address Space Programming Models5 citations Open access
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A Hartree-Fock Application Using UPC++ and the New DArray Library
David Ozog, A. Kamil, Yili Zheng, Paul H. Hargrove +4 more
2016IEEE International Parallel and Distributed Processing Symposium4 citations Open access
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Experiences of Applying One-Sided Communication to Nearest-Neighbor Communication
H. Shan, S. Williams, Yili Zheng, Weiqun Zhang +3 more
20162016 PGAS Applications Workshop (PAW)3 citations Open access
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Short-Term Blood Glucose Prediction Method Based on Signal Decomposition and Bidirectional Networks
Yili Zheng, Zhi-Fang Liao, Jia Guo, Song Yu
2024International Conference on Intelligent Computing2 citations
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Special purpose 3-D reconstruction and restoration algorithms for electron microscopy of nanoscale objects and an enabling software toolkit
Cory J. Prust, Kang Wang, Yili Zheng, P. Doerschuk
2009IEEE International Symposium on Biomedical Imaging2 citations
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No Evidence for True HTLV-I or HIV-1 Antibodies in Finnish Lapps
A. Ranki, Yili Zheng, Mikko Kirjarinta, J. Karvonen +4 more
1989AIDS Research and Human Retroviruses2 citations
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Stochastic 3-D signal reconstruction from noisy projection data for heterogeneous instances of objects in electron microscopy imagery
Yili Zheng, Qiu Wang, P. Doerschuk
2011IEEE International Symposium on Biomedical Imaging1 citations
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3D signal reconstruction from noisy projection data for stochastic objects as a generalization of Gaussian mixture parameter estimation
Yili Zheng, P. Doerschuk
2010Optical Engineering + Applications1 citations
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Image reconstruction in electron microscopy
Yili Zheng, Seunghee Lee, P. Doerschuk
2008Optical Engineering + Applications1 citations
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A fast algorithm for 3D reconstruction from unoriented projections and cryo electron microscopy of viruses
Junghoon Lee, Yili Zheng, P. Doerschuk
2006Electronic imaging1 citations
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Maximum likelihood 3D reconstruction of multiple viruses from mixtures of cryo electron microscope images
Junghoon Lee, Yili Zheng, P. Doerschuk, Jinghua Tang +1 more
2005IS&T/SPIE Electronic Imaging1 citations
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3-D maximum likelihood reconstructions of viruses from cryo electron microscope images and parallel computation
Yili Zheng, Zhye Yin, P. Doerschuk
2002Proceedings. International Conference on Image Processing1 citations
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Stochastic simulation of a T-cell signaling pathway
Yili Zheng, T. Lozito, V. Balakrishnan, A. Harrison +1 more
2002Proceedings of the Second Joint 24th Annual Conference and the Annual Fall Meeting of the Biomedical Engineering Society] [Engineering in Medicine and Biology1 citations
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3D reconstruction of root system architecture in urban forest parks based on ground penetrating radar instantaneous amplitude analysis
Guoqiu Fan, Yinghang Li, Yili Zheng, Qiao-Ling Han +2 more
2025Plant Phenomics0 citations Open access
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Lawrence Berkeley National Laboratory Recent Work Title An Asynchronous Task-based Fan-Both Sparse Cholesky Solver Permalink
Yili Zheng, E. Ng, K. Yelick
20180 citations
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Characterizing heterogeneity among virus particles by stochastic 3D signal reconstruction
Nan Xu, Yun-Ye Gong, Qiu Wang, Yili Zheng +1 more
2015SPIE Optical Engineering + Applications0 citations
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3-D statistical characterization of the heterogeneity of biological macromolecular complexes by electron microscopy
Nan Xu, Yun-Ye Gong, Yili Zheng, Qiu Wang +1 more
20140 citations
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Constructing Performance Models for Dense Linear Algebra Algorithms on Cray XE Systems
J. González-Domínguez, E. Georganas, Yili Zheng, María J. Martín
2014arXiv.org0 citations
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3D reconstruction based on single-particle cryo electron microscopy images as a random signal in noise problem
Qiu Wang, Yili Zheng, P. Doerschuk
2012Electronic imaging0 citations
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Classification of cryo electron microscopy images, noisy tomographic images recorded with unknown projection directions, by simultaneously estimating reconstructions and application to an assembly mutant of Cowpea Chlorotic Mottle Virus and portals of the bacteriophage P22
Junghoon Lee, Yili Zheng, Zhye Yin, P. Doerschuk +1 more
2010Optical Engineering + Applications0 citations
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3-D reconstruction from electron microscope images of heterogeneous particles*
Yili Zheng, P. Doerschuk
20090 citations
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Algorithms for sorting and reconstructing heterogeneous nanoscale biological objects from cryo electron microscopy images
Yili Zheng, P. Doerschuk
2009IEEE International Symposium on Biomedical Imaging0 citations
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Image reconstructions in electron microscopy
Yili Zheng, Seunghee Lee, P. Doerschuk
20080 citations
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Computing the 3-D structure of viruses from unoriented cryo electron microscope images: a fast algorithm for a statistical approach
Junghoon Lee, Yili Zheng, P. Doerschuk
2006Annual International Conference of the IEEE Engineering in Medicine and Biology Society0 citations
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Computing the 3-D structure of viruses from electron microscope images
Junghoon Lee, Yili Zheng, P. Doerschuk, Jinghua Tang +1 more
2005Proceedings. (ICASSP '05). IEEE International Conference on Acoustics, Speech, and Signal Processing, 2005.0 citations
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Computational 3-D reconstructions by optimization for cryo-electron microscopy
Zhye Yin, Yili Zheng, P. Doerschuk, John E. Johnson
20030 citations
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