Katherine A. Yelick

Publication Activity (10 Years)

Years Active: 1985-2023
Publications (10 Years): 61

Top Venues

CoRR

IPDPS

ICPP

Publications

Hunter McCoy, Steven A. Hofmeyr, Katherine A. Yelick, Prashant Pandey
High-Performance Filters for GPUs. PPoPP (2023)
Oguz Selvitopi, Saliya Ekanayake, Giulia Guidi, Muaaz G. Awan, Georgios A. Pavlopoulos, Ariful Azad, Nikos Kyrpides, Leonid Oliker, Katherine A. Yelick, Aydin Buluç
Extreme-scale many-against-many protein similarity search. CoRR (2023)
Doru-Thom Popovici, Muaaz Gul Awan, Giulia Guidi, Rob Egan, Steven A. Hofmeyr, Leonid Oliker, Katherine A. Yelick
Designing Efficient SIMD Kernels for High Performance Sequence Alignment. IPDPS Workshops (2023)
Benjamin Brock, Aydin Buluç, Katherine A. Yelick
RDMA-Based Algorithms for Sparse Matrix Multiplication on GPUs. CoRR (2023)
Hunter McCoy, Steven A. Hofmeyr, Katherine A. Yelick, Prashant Pandey
-mer Analysis. ACDA (2023)
Alok Tripathy, Katherine A. Yelick, Aydin Buluç
Distributed Matrix-Based Sampling for Graph Neural Network Training. CoRR (2023)
Yuxin Chen, Benjamin Brock, Serban D. Porumbescu, Aydin Buluç, Katherine A. Yelick, John D. Owens
Scalable Irregular Parallelism with GPUs: Getting CPUs Out of the Way. SC (2022)
Oguz Selvitopi, Saliya Ekanayake, Giulia Guidi, Muaaz G. Awan, Georgios A. Pavlopoulos, Ariful Azad, Nikos Kyrpides, Leonid Oliker, Katherine A. Yelick, Aydin Buluç
Extreme-Scale Many-against-Many Protein Similarity Search. SC (2022)
Hunter McCoy, Steven A. Hofmeyr, Katherine A. Yelick, Prashant Pandey
High-Performance Filters For GPUs. CoRR (2022)
Giulia Guidi, Gabriel Raulet, Daniel Rokhsar, Leonid Oliker, Katherine A. Yelick, Aydin Buluç
Distributed-Memory Parallel Contig Generation for De Novo Long-Read Genome Assembly. ICPP (2022)
Giulia Guidi, Gabriel Raulet, Daniel Rokhsar, Leonid Oliker, Katherine A. Yelick, Aydin Buluç
Distributed-Memory Parallel Contig Generation for De Novo Long-Read Genome Assembly. CoRR (2022)
Yuxin Chen, Benjamin Brock, Serban D. Porumbescu, Aydin Buluç, Katherine A. Yelick, John D. Owens
Atos: A Task-Parallel GPU Scheduler for Graph Analytics. ICPP (2022)
Marquita Ellis, Aydin Buluç, Katherine A. Yelick
Asynchrony versus bulk-synchrony for a generalized N-body problem from genomics. PPoPP (2021)
Israt Nisa, Prashant Pandey, Marquita Ellis, Leonid Oliker, Aydin Buluç, Katherine A. Yelick
Distributed-Memory k-mer Counting on GPUs. IPDPS (2021)
Giulia Guidi, Oguz Selvitopi, Marquita Ellis, Leonid Oliker, Katherine A. Yelick, Aydin Buluç
Parallel String Graph Construction and Transitive Reduction for De Novo Genome Assembly. IPDPS (2021)
Marquita Ellis, Aydin Buluç, Katherine A. Yelick
Scaling Generalized N-Body Problems, A Case Study from Genomics. ICPP (2021)
Guy E. Blelloch, William J. Dally, Margaret Martonosi, Uzi Vishkin, Katherine A. Yelick
SPAA'21 Panel Paper: Architecture-Friendly Algorithms versus Algorithm-Friendly Architectures. SPAA (2021)
Muaaz Gul Awan, Steven A. Hofmeyr, Rob Egan, Nan Ding, Aydin Buluç, Jack Deslippe, Leonid Oliker, Katherine A. Yelick
metagenome assembly using GPUs. SC (2021)
Michael L. Norman, Vince Kellen, Shava Smallen, Brian DeMeulle, Shawn Strande, Ed Lazowska, Naomi Alterman, Rob Fatland, Sarah Stone, Amanda Tan, Katherine A. Yelick, Eric Van Dusen, James Mitchell
CloudBank: Managed Services to Simplify Cloud Access for Computer Science Research and Education. PEARC (2021)
Giulia Guidi, Marquita Ellis, Daniel Rokhsar, Katherine A. Yelick, Aydin Buluç
BELLA: Berkeley Efficient Long-Read to Long-Read Aligner and Overlapper. ACDA (2021)
Giulia Guidi, Marquita Ellis, Aydin Buluç, Katherine A. Yelick, David E. Culler
10 Years Later: Cloud Computing is Closing the Performance Gap. ICPE (Companion) (2021)
Ed Younis, Koushik Sen, Katherine A. Yelick, Costin Iancu
QFAST: Conflating Search and Numerical Optimization for Scalable Quantum Circuit Synthesis. QCE (2021)
Oguz Selvitopi, Benjamin Brock, Israt Nisa, Alok Tripathy, Katherine A. Yelick, Aydin Buluç
Distributed-memory parallel algorithms for sparse times tall-skinny-dense matrix multiplication. ICS (2021)
Yuxin Chen, Benjamin Brock, Serban D. Porumbescu, Aydin Buluç, Katherine A. Yelick, John D. Owens
Atos: A Task-Parallel GPU Dynamic Scheduling Framework for Dynamic Irregular Computations. CoRR (2021)
Alok Tripathy, Katherine A. Yelick, Aydin Buluç
Reducing communication in graph neural network training. SC (2020)
Muaaz G. Awan, Jack Deslippe, Aydin Buluç, Oguz Selvitopi, Steven A. Hofmeyr, Leonid Oliker, Katherine A. Yelick
ADEPT: a domain independent sequence alignment strategy for gpu architectures. BMC Bioinform. 21 (1) (2020)
Alberto Zeni, Giulia Guidi, Marquita Ellis, Nan Ding, Marco D. Santambrogio, Steven A. Hofmeyr, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
LOGAN: High-Performance GPU-Based X-Drop Long-Read Alignment. CoRR (2020)
Meredith M. Lee, Alicia D. Johnson, Katherine A. Yelick, Jennifer T. Chayes
The Road for Recovery: Aligning COVID-19 efforts and building a more resilient future. IEEE Data Eng. Bull. 43 (2) (2020)
Giulia Guidi, Marquita Ellis, Aydin Buluç, Katherine A. Yelick, David E. Culler
10 Years Later: Cloud Computing is Closing the Performance Gap. CoRR (2020)
Alberto Zeni, Giulia Guidi, Marquita Ellis, Nan Ding, Marco D. Santambrogio, Steven A. Hofmeyr, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
LOGAN: High-Performance GPU-Based X-Drop Long-Read Alignment. IPDPS (2020)
Giulia Guidi, Oguz Selvitopi, Marquita Ellis, Leonid Oliker, Katherine A. Yelick, Aydin Buluç
Parallel String Graph Construction and Transitive Reduction for De Novo Genome Assembly. CoRR (2020)
Katherine A. Yelick
Computing and Data Challenges in Climate Change. HiPC (2020)
Gregory D. Hager, Mark D. Hill, Katherine A. Yelick
Opportunities and Challenges for Next Generation Computing. CoRR (2020)
Katherine A. Yelick, Aydin Buluç, Muaaz G. Awan, Ariful Azad, Benjamin Brock, Rob Egan, Saliya Ekanayake, Marquita Ellis, Evangelos Georganas, Giulia Guidi, Steven A. Hofmeyr, Oguz Selvitopi, Cristina Teodoropol, Leonid Oliker
The Parallelism Motifs of Genomic Data Analysis. CoRR (2020)
Nicolas Swenson, Aditi S. Krishnapriyan, Aydin Buluç, Dmitriy Morozov, Katherine A. Yelick
PersGNN: Applying Topological Data Analysis and Geometric Deep Learning to Structure-Based Protein Function Prediction. CoRR (2020)
Taylor Groves, Ben Brock, Yuxin Chen, Khaled Z. Ibrahim, Lenny Oliker, Nicholas J. Wright, Samuel Williams, Katherine A. Yelick
Performance Trade-offs in GPU Communication: A Study of Host and Device-initiated Approaches. PMBS@SC (2020)
Alok Tripathy, Katherine A. Yelick, Aydin Buluç
Reducing Communication in Graph Neural Network Training. CoRR (2020)
Marquita Ellis, Giulia Guidi, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
diBELLA: Distributed Long Read to Long Read Alignment. CoRR (2020)
Francesco Peverelli, Lorenzo Di Tucci, Marco D. Santambrogio, Nan Ding, Steven A. Hofmeyr, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
GPU accelerated partial order multiple sequence alignment for long reads self-correction. IPDPS Workshops (2020)
Benjamin Brock, Aydin Buluç, Katherine A. Yelick
BCL: A Cross-Platform Distributed Data Structures Library. ICPP (2019)
Benjamin Brock, Yuxin Chen, Jiakun Yan, John D. Owens, Aydin Buluç, Katherine A. Yelick
RDMA vs. RPC for Implementing Distributed Data Structures. CoRR (2019)
Benjamin A. Brock, Yuxin Chen, Jiakun Yan, John D. Owens, Aydin Buluç, Katherine A. Yelick
RDMA vs. RPC for Implementing Distributed Data Structures. IA3@SC (2019)
Marquita Ellis, Giulia Guidi, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
diBELLA: Distributed Long Read to Long Read Alignment. ICPP (2019)
Michael B. Driscoll, Benjamin Brock, Frank Ong, Jonathan I. Tamir, Hsiou-Yuan Liu, Michael Lustig, Armando Fox, Katherine A. Yelick
Indigo: A Domain-Specific Language for Fast, Portable Image Reconstruction. IPDPS (2018)
Penporn Koanantakool, Alnur Ali, Ariful Azad, Aydin Buluç, Dmitriy Morozov, Leonid Oliker, Katherine A. Yelick, Sang-Yun Oh
Communication-Avoiding Optimization Methods for Distributed Massive-Scale Sparse Inverse Covariance Estimation. AISTATS (2018)
Katherine A. Yelick
CHIUW 2018 Keynote. IPDPS Workshops (2018)
Evangelos Georganas, Rob Egan, Steven A. Hofmeyr, Eugene Goltsman, Bill Arndt, Andrew Tritt, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
Extreme scale de novo metagenome assembly. SC (2018)
Benjamin Brock, Aydin Buluç, Katherine A. Yelick
BCL: A Cross-Platform Distributed Container Library. CoRR (2018)
Evangelos Georganas, Rob Egan, Steven A. Hofmeyr, Eugene Goltsman, Bill Arndt, Andrew Tritt, Aydin Buluç, Leonid Oliker, Katherine A. Yelick
Extreme Scale De Novo Metagenome Assembly. CoRR (2018)
Marquita Ellis, Evangelos Georganas, Rob Egan, Steven A. Hofmeyr, Aydin Buluç, Brandon Cook, Leonid Oliker, Katherine A. Yelick
Performance Characterization of De Novo Genome Assembly on Leading Parallel Systems. Euro-Par (2017)
Evangelos Georganas, Steven A. Hofmeyr, Rob Egan, Aydin Buluç, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick
Extreme-Scale De Novo Genome Assembly. CoRR (2017)
Penporn Koanantakool, Alnur Ali, Ariful Azad, Aydin Buluç, Dmitriy Morozov, Sang-Yun Oh, Leonid Oliker, Katherine A. Yelick
Communication-Avoiding Optimization Methods for Massive-Scale Graphical Model Structure Learning. CoRR (2017)
Vasant G. Honavar, Katherine A. Yelick, Klara Nahrstedt, Holly E. Rushmeier, Jennifer Rexford, Mark D. Hill, Elizabeth Bradley, Elizabeth D. Mynatt
Advanced Cyberinfrastructure for Science, Engineering, and Public Policy. CoRR (2017)
Evangelos Georganas, Marquita Ellis, Rob Egan, Steven A. Hofmeyr, Aydin Buluç, Brandon Cook, Leonid Oliker, Katherine A. Yelick
MerBench: PGAS Benchmarks for High Performance Genome Assembly. PAW@SC (2017)
Penporn Koanantakool, Ariful Azad, Aydin Buluç, Dmitriy Morozov, Sang-Yun Oh, Leonid Oliker, Katherine A. Yelick
Communication-Avoiding Parallel Sparse-Dense Matrix-Matrix Multiplication. IPDPS (2016)
Mark D. Hill, Sarita V. Adve, Luis Ceze, Mary Jane Irwin, David R. Kaeli, Margaret Martonosi, Josep Torrellas, Thomas F. Wenisch, David A. Wood, Katherine A. Yelick
21st Century Computer Architecture. CoRR (2016)
Mathias Jacquelin, Yili Zheng, Esmond Ng, Katherine A. Yelick
An Asynchronous Task-based Fan-Both Sparse Cholesky Solver. CoRR (2016)
Vasant G. Honavar, Mark D. Hill, Katherine A. Yelick
Accelerating Science: A Computing Research Agenda. CoRR (2016)
Evangelos Georganas, Aydin Buluç, Jarrod Chapman, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick
merAligner: A Fully Parallel Sequence Aligner. IPDPS (2015)
Scott French, Yili Zheng, Barbara Romanowicz, Katherine A. Yelick
Parallel Hessian Assembly for Seismic Waveform Inversion Using Global Updates. IPDPS (2015)
Evangelos Georganas, Aydin Buluç, Jarrod Chapman, Steven A. Hofmeyr, Chaitanya Aluru, Rob Egan, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick
HipMer: an extreme-scale de novo genome assembler. SC (2015)
Yili Zheng, Amir Kamil, Michael B. Driscoll, Hongzhang Shan, Katherine A. Yelick
UPC++: A PGAS Extension for C++. IPDPS (2014)
Khaled Z. Ibrahim, Katherine A. Yelick
On the conditions for efficient interoperability with threads: an experience with PGAS languages using cray communication domains. ICS (2014)
Khaled Z. Ibrahim, Paul Hargrove, Costin Iancu, Katherine A. Yelick
An Evaluation of One-Sided and Two-Sided Communication Paradigms on Relaxed-Ordering Interconnect. IPDPS (2014)
Hongzhang Shan, Amir Kamil, Samuel Williams, Yili Zheng, Katherine A. Yelick
Evaluation of PGAS Communication Paradigms with Geometric Multigrid. PGAS (2014)
Amir Kamil, Yili Zheng, Katherine A. Yelick
A Local-View Array Library for Partitioned Global Address Space C++ Programs. ARRAY@PLDI (2014)
Penporn Koanantakool, Katherine A. Yelick
A Computation- and Communication-Optimal Parallel Direct 3-Body Algorithm. SC (2014)
Evangelos Georganas, Aydin Buluç, Jarrod Chapman, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick
Parallel De Bruijn Graph Construction and Traversal for De Novo Genome Assembly. SC (2014)
Michael B. Driscoll, Evangelos Georganas, Penporn Koanantakool, Edgar Solomonik, Katherine A. Yelick
A Communication-Optimal N-Body Algorithm for Direct Interactions. IPDPS (2013)
Amir Kamil, Katherine A. Yelick
Hierarchical Computation in the SPMD Programming Model. LCPC (2013)
Michael Christ, James Demmel, Nicholas Knight, Thomas Scanlon, Katherine A. Yelick
Communication lower bounds and optimal algorithms for programs that reference arrays - Part 1. CoRR (2013)
Leonid Oliker, Katherine A. Yelick
Best paper awards: 26th international parallel and distributed processing symposium (IPDPS 2012). J. Parallel Distributed Comput. 73 (7) (2013)
Katherine A. Yelick
Keynote address: Moving a science workload to exascale computing. IISWC (2012)
Evangelos Georganas, Jorge González-Domínguez, Edgar Solomonik, Yili Zheng, Juan Touriño, Katherine A. Yelick
Communication avoiding and overlapping for numerical linear algebra. SC (2012)
Hongzhang Shan, Nicholas J. Wright, John Shalf, Katherine A. Yelick, Marcus Wagner, Nathan Wichmann
A preliminary evaluation of the hardware acceleration of the Cray Gemini interconnect for PGAS languages and comparison with MPI. SIGMETRICS Perform. Evaluation Rev. 40 (2) (2012)
Kamesh Madduri, Jimmy Su, Samuel Williams, Leonid Oliker, Stéphane Ethier, Katherine A. Yelick
Optimization of Parallel Particle-to-Grid Interpolation on Leading Multicore Platforms. IEEE Trans. Parallel Distributed Syst. 23 (10) (2012)
Katherine A. Yelick
Exascale opportunities and challenges. HPDC (2011)
Rajesh Nishtala, Yili Zheng, Paul Hargrove, Katherine A. Yelick
Tuning collective communication for Partitioned Global Address Space programming models. Parallel Comput. 37 (9) (2011)
Jack J. Dongarra, Peter H. Beckman, Terry Moore, Patrick Aerts, Giovanni Aloisio, Jean-Claude Andre, David Barkai, Jean-Yves Berthou, Taisuke Boku, Bertrand Braunschweig, Franck Cappello, Barbara M. Chapman, Xuebin Chi, Alok N. Choudhary, Sudip S. Dosanjh, Thom H. Dunning, Sandro Fiore, Al Geist, Bill Gropp, Robert J. Harrison, Mark Hereld, Michael A. Heroux, Adolfy Hoisie, Koh Hotta, Zhong Jin, Yutaka Ishikawa, Fred Johnson, Sanjay Kale, Richard Kenway, David E. Keyes, Bill Kramer, Jesús Labarta, Alain Lichnewsky, Thomas Lippert, Bob Lucas, Barney Maccabe, Satoshi Matsuoka, Paul Messina, Peter Michielse, Bernd Mohr, Matthias S. Müller, Wolfgang E. Nagel, Hiroshi Nakashima, Michael E. Papka, Daniel A. Reed, Mitsuhisa Sato, Edward Seidel, John Shalf, David Skinner, Marc Snir, Thomas L. Sterling, Rick Stevens, Fred Streitz, Bob Sugar, Shinji Sumimoto, William M. Tang, John Taylor, Rajeev Thakur, Anne E. Trefethen, Mateo Valero, Aad J. van der Steen, Jeffrey S. Vetter, Peg Williams, Robert W. Wisniewski, Katherine A. Yelick
The International Exascale Software Project roadmap. Int. J. High Perform. Comput. Appl. 25 (1) (2011)
Filip Blagojevic, Paul Hargrove, Costin Iancu, Katherine A. Yelick
Hybrid PGAS runtime support for multicore nodes. PGAS (2010)
Amir Kamil, Katherine A. Yelick
Enforcing Textual Alignment of Collectives Using Dynamic Checks. LCPC (2009)
Katherine A. Yelick
Ten ways to waste a parallel computer. ISCA (2009)
Krste Asanovic, Rastislav Bodík, James Demmel, Tony M. Keaveny, Kurt Keutzer, John Kubiatowicz, Nelson Morgan, David A. Patterson, Koushik Sen, John Wawrzynek, David Wessel, Katherine A. Yelick
A view of the parallel computing landscape. Commun. ACM 52 (10) (2009)
Marghoob Mohiyuddin, Mark Hoemmen, James Demmel, Katherine A. Yelick
Minimizing communication in sparse matrix solvers. SC (2009)
Kaushik Datta, Shoaib Kamil, Samuel Williams, Leonid Oliker, John Shalf, Katherine A. Yelick
Optimization and Performance Modeling of Stencil Computations on Modern Microprocessors. SIAM Rev. 51 (1) (2009)
Kamesh Madduri, Samuel Williams, Stéphane Ethier, Leonid Oliker, John Shalf, Erich Strohmaier, Katherine A. Yelick
Memory-efficient optimization of Gyrokinetic particle-to-grid interpolation for multicore processors. SC (2009)
Katherine A. Yelick
Technical perspective - Abstraction for parallelism. Commun. ACM 52 (9) (2009)
Filip Blagojevic, Costin Iancu, Katherine A. Yelick, Matthew Curtis-Maury, Dimitrios S. Nikolopoulos, Benjamin Rose
Scheduling dynamic parallelism on accelerators. Conf. Computing Frontiers (2009)
Samuel Williams, Leonid Oliker, Richard W. Vuduc, John Shalf, Katherine A. Yelick, James Demmel
Optimization of sparse matrix-vector multiplication on emerging multicore platforms. Parallel Comput. 35 (3) (2009)
Samuel Williams, Jonathan Carter, Leonid Oliker, John Shalf, Katherine A. Yelick
Optimization of a lattice Boltzmann computation on state-of-the-art multicore platforms. J. Parallel Distributed Comput. 69 (9) (2009)
Joseph Gebis, Leonid Oliker, John Shalf, Samuel Williams, Katherine A. Yelick
Improving Memory Subsystem Performance Using ViVA: Virtual Vector Architecture. ARCS (2009)
Rajesh Nishtala, Paul Hargrove, Dan Bonachea, Katherine A. Yelick
Scaling communication-intensive applications on BlueGene/P using one-sided communication and overlap. IPDPS (2009)
James Demmel, Mark Hoemmen, Marghoob Mohiyuddin, Katherine A. Yelick
Avoiding communication in sparse matrix computations. IPDPS (2008)
Costin Iancu, Wei Chen, Katherine A. Yelick
Performance portable optimizations for loops containing communication operations. ICS (2008)
Samuel Williams, Jonathan Carter, Leonid Oliker, John Shalf, Katherine A. Yelick
Lattice Boltzmann simulation optimization on leading multicore platforms. IPDPS (2008)
Katherine A. Yelick
Programming models for petascale to exascale. IPDPS (2008)
Kaushik Datta, Mark Murphy, Vasily Volkov, Samuel Williams, Jonathan Carter, Leonid Oliker, David A. Patterson, John Shalf, Katherine A. Yelick
Stencil computation optimization and auto-tuning on state-of-the-art multicore architectures. SC (2008)
Jack J. Dongarra, Robert B. Graybill, William J. Harrod, Robert F. Lucas, Ewing L. Lusk, Piotr Luszczek, Janice McMahon, Allan Snavely, Jeffrey S. Vetter, Katherine A. Yelick, Sadaf R. Alam, Roy L. Campbell, Laura Carrington, Tzu-Yi Chen, Omid Khalili, Jeremy S. Meredith, Mustafa M. Tikir
DARPA's HPCS Program- History, Models, Tools, Languages. Adv. Comput. 72 (2008)
Wei-Yu Chen, Dan Bonachea, Costin Iancu, Katherine A. Yelick
Automatic nonblocking communication for partitioned global address space programs. ICS (2007)
Costin Iancu, Wei Chen, Katherine A. Yelick
Performance Portable Optimizations for Loops Containing Communication Operations. PACT (2007)

Katherine A. Yelick.css-eqlu8i{font-size:small;padding-left:4px;}

Publication Activity (10 Years)

Top Topics

Top Venues

Katherine A. Yelick