@inproceedings{metahipmergpu,
title = {Accelerating large scale de novo metagenome assembly using {GPUs}},
author = {Awan, Muaaz and Hofmeyr, Steven and Egan, Rob and Ding, Nan and Bulu{\c{c}}, Aydin and Deslippe, Jack and Oliker, Leonid and Yelick, Katherine},
booktitle = {International Conference for High Performance Computing, Networking, Storage and Analysis},
series = {SC'21},
year = {2021}
}
@article{azad2021combinatorial,
title = {{Combinatorial BLAS 2.0}: Scaling combinatorial algorithms on distributed-memory systems},
author = {Azad, Ariful and Selvitopi, Oguz and Hussain, Md Taufique and Gilbert, John and Bulu{\c{c}}, Ayd{\i}n},
journal = {IEEE Transactions on Parallel and Distributed Systems},
doi = {https://doi.ieeecomputersociety.org/10.1109/TPDS.2021.3094091},
arxiv = {https://arxiv.org/abs/2106.14402},
year = {2021},
publisher = {IEEE}
}
@inproceedings{selvitopi2021distributed,
title = {Distributed-memory parallel algorithms for sparse times tall-skinny-dense matrix multiplication},
author = {Selvitopi, Oguz and Brock, Benjamin and Nisa, Israt and Tripathy, Alok and Yelick, Katherine and Bulu{\c{c}}, Ayd{\i}n},
booktitle = {Proceedings of the ACM International Conference on Supercomputing (ICS)},
url = {https://people.eecs.berkeley.edu/~aydin/SpMMICS2021.pdf},
pages = {431--442},
year = {2021}
}
@inproceedings{pandey2021terrace,
title = {Terrace: A Hierarchical Graph Container for Skewed Dynamic Graphs},
author = {Pandey, Prashant and Wheatman, Brian and Xu, Helen and Bulu{\c{c}}, Aydin},
booktitle = {Proceedings of the 2021 International Conference on Management of Data (SIGMOD)},
url = {https://people.eecs.berkeley.edu/~aydin/terrace.pdf},
code = {https://github.com/PASSIONLab/terrace},
pages = {1372--1385},
year = {2021}
}
@inproceedings{guidi2021bella,
title = {{BELLA}: {Berkeley} efficient long-read to long-read aligner and overlapper},
author = {Guidi, Giulia and Ellis, Marquita and Rokhsar, Daniel and Yelick, Katherine and Bulu{\c{c}}, Ayd{\i}n},
booktitle = {SIAM Conference on Applied and Computational Discrete Algorithms (ACDA21)},
pages = {123--134},
year = {2021},
biorxiv = {https://www.biorxiv.org/content/10.1101/464420v5},
url = {https://people.eecs.berkeley.edu/~aydin/bellasiamacda2021.pdf},
doi = {https://doi.org/10.1137/1.9781611976830.12},
code = {https://github.com/PASSIONLab/BELLA},
organization = {SIAM}
}
@article{buluc2021randomized,
title = {Randomized algorithms for scientific computing {(RASC)}},
author = {Bulu{\c{c}}, Aydin and Kolda, Tamara G and Wild, Stefan M and Anitescu, Mihai and DeGennaro, Anthony and Jakeman, John and Kamath, Chandrika and Lopes, Miles E and Martinsson, Per-Gunnar and Myers, Kary and others},
journal = {arXiv preprint arXiv:2104.11079},
note = {DOE Report (in progress)},
arxiv = {https://arxiv.org/abs/2104.11079},
year = {2021}
}
@article{yang2019graphblast,
title = {{GraphBLAST}: A high-performance linear algebra-based graph framework on the {GPU}},
author = {Yang, Carl and Bulu{\c{c}}, Ayd{\i}n and Owens, John D},
journal = {ACM Transactions on Mathematical Software (to appear)},
year = {2021},
arxiv = {https://arxiv.org/abs/1908.01407}
}
@inproceedings{hussain2021communication,
title = {Communication-Avoiding and Memory-Constrained Sparse Matrix-Matrix Multiplication at Extreme Scale},
author = {Hussain, Md Taufique and Selvitopi, Oguz and Bulu{\c{c}}, Aydin and Azad, Ariful},
booktitle = {International Parallel and Distributed Processing Symposium (IPDPS)},
pages = {90--100},
arxiv = {https://arxiv.org/abs/2010.08526},
year = {2021},
organization = {IEEE}
}
@inproceedings{nisa2021distributed,
title = {Distributed-Memory k-mer Counting on {GPUs}},
author = {Nisa, Israt and Pandey, Prashant and Ellis, Marquita and Oliker, Leonid and Bulu{\c{c}}, Ayd{\i}n and Yelick, Katherine},
booktitle = {International Parallel and Distributed Processing Symposium (IPDPS)},
pages = {527--536},
url = {https://prashantpandey.github.io/files/gpu_kmer.pdf},
doi = {https://doi.org/10.1109/IPDPS49936.2021.00061},
code = {https://github.com/PASSIONLab/DEDUKT},
year = {2021},
organization = {IEEE}
}
@inproceedings{guidi2021parallel,
title = {Parallel String Graph Construction and Transitive Reduction for De Novo Genome Assembly},
author = {Guidi, Giulia and Selvitopi, Oguz and Ellis, Marquita and Oliker, Leonid and Yelick, Katherine and Bulu{\c{c}}, Ayd{\i}n},
booktitle = {International Parallel and Distributed Processing Symposium (IPDPS)},
pages = {517--526},
arxiv = {https://arxiv.org/abs/2010.10055},
code = {https://github.com/PASSIONLab/diBELLA.2D},
year = {2021},
organization = {IEEE}
}
@inproceedings{ellisicpp21,
author = {Ellis, Marquita and Bulu{\c{c}}, Ayd{\i}n and Yelick, Katherine},
title = {Scaling Generalized N-Body Problems, A Case Study from Genomics},
url = {https://people.eecs.berkeley.edu/~aydin/ScalingNbody_ICPP21.pdf},
booktitle = {50th International Conference on Parallel Processing (ICPP)},
year = {2021}
}
@inproceedings{ellis2021asynchrony,
title = {Asynchrony versus bulk-synchrony for a generalized N-body problem from genomics},
author = {Ellis, Marquita and Bulu{\c{c}}, Ayd{\i}n and Yelick, Katherine},
booktitle = {Proceedings of the 26th ACM SIGPLAN Symposium on Principles and Practice of Parallel Programming (PPOPP)},
pages = {465--466},
year = {2021}
}
@article{exagraph21,
author = {Acer, Seher and Azad, Ariful and Boman, Erik and Bulu{\c{c}}, Ayd{\i}n and Devine, Karen and Gawande, Nitin and Ghosh, Sayan and Halappanavar, Mahantesh and Khan, Arif and Kalyanaraman, Ananth and Minutoli, Marco and Pothen, Alex and Rajamanickam, Sivasankaran and Selvitopi, Oguz and Tallent, Nathan and Tumeo, Antonino},
title = {{ExaGraph}: Graph and Combinatorial Methods for Enabling Exascale Applications},
journal = {International Journal of High Performance Computing Applications (IJHPCA)},
year = {2021 (to appear)}
}
@inproceedings{guidi202110,
title = {10 years later: Cloud computing is closing the performance gap},
author = {Guidi, Giulia and Ellis, Marquita and Bulu{\c{c}}, Ayd{\i}n and Yelick, Katherine and Culler, David},
booktitle = {Companion of the ACM/SPEC International Conference on Performance Engineering},
arxiv = {https://arxiv.org/abs/2011.00656},
doi = {https://doi.org/10.1145/3447545.3451183},
pages = {41--48},
year = {2021}
}
@inproceedings{brock2021introduction,
title = {Introduction to {GraphBLAS 2.0}},
author = {Brock, Benjamin and Bulu{\c{c}}, Ayd{\i}n and Mattson, Timothy G and McMillan, Scott and Moreira, Jos{\'e} E},
booktitle = {International Parallel and Distributed Processing Symposium Workshops (IPDPSW)},
pages = {253--262},
doi = {https://doi.ieeecomputersociety.org/10.1109/IPDPSW52791.2021.00047},
year = {2021},
organization = {IEEE}
}
@inproceedings{tripathy2020reducing,
title = {Reducing Communication in Graph Neural Network Training},
author = {Tripathy, Alok and Yelick, Katherine and Bulu{\c{c}}, Ayd{\i}n},
booktitle = {International Conference for High Performance Computing, Networking, Storage and Analysis},
series = {SC'20},
arxiv = {https://arxiv.org/abs/2005.03300},
code = {https://github.com/PASSIONLab/CAGNET},
year = {2020}
}
@inproceedings{sc20pastis,
author = {Selvitopi, Oguz and Ekanayake, Saliya and Guidi, Giulia and Pavlopoulos, Georgios and Azad, Ariful and Bulu{\c{c}}, Ayd{\i}n},
title = {Distributed Many-to-Many Protein Sequence Alignment Using Sparse Matrices},
booktitle = {International Conference for High Performance Computing, Networking, Storage and Analysis},
series = {SC'20},
code = {https://github.com/PASSIONLab/PASTIS},
url = {https://people.eecs.berkeley.edu/~aydin/PASTIS-SC20.pdf},
year = {2020}
}
@inproceedings{swenson2020persgnn,
title = {{PersGNN}: Applying topological data analysis and geometric deep learning to structure-based protein function prediction},
author = {Swenson, Nicolas and Krishnapriyan, Aditi S and Bulu{\c{c}}, Ayd{\i}n and Morozov, Dmitriy and Yelick, Katherine},
booktitle = {Learning Meaningful Representations of Life (LMRL) workshop at NeurIPS},
journal = {arXiv preprint arXiv:2010.16027},
arxiv = {http://arxiv.org/abs/2010.16027},
year = {2020}
}
@article{awan2020adept,
title = {{ADEPT}: a domain independent sequence alignment strategy for gpu architectures},
author = {Awan, Muaaz G and Deslippe, Jack and Bulu{\c{c}}, Aydin and Selvitopi, Oguz and Hofmeyr, Steven and Oliker, Leonid and Yelick, Katherine},
journal = {BMC bioinformatics},
volume = {21},
number = {1},
pages = {1--29},
year = {2020},
publisher = {BioMed Central}
}
@article{azad2020distributed,
title = {A Distributed-Memory Algorithm for Computing a Heavy-Weight Perfect Matching on Bipartite Graphs},
author = {Azad, Ariful and Bulu{\c{c}}, Aydin and Li, Xiaoye S and Wang, Xinliang and Langguth, Johannes},
journal = {SIAM Journal on Scientific Computing},
volume = {42},
number = {4},
pages = {C143--C168},
year = {2020},
publisher = {SIAM},
doi = {https://doi.org/10.1137/18M1189348},
arxiv = {http://arxiv.org/abs/1801.09809},
url = {https://people.eecs.berkeley.edu/~aydin/HWPM_SISC2020_combined.pdf}
}
@article{hofmeyr2020terabase-scale,
title = {Terabase-scale metagenome coassembly with {MetaHipMer}},
author = {Hofmeyr, Steven and Egan, Rob and Georganas, Evangelos and Copeland, C Alex and Riley, Robert and Clum, Alicia and Eloe-Fadrosh, Emiley and Roux, Simon and Goltsman, Eugene and Bulu{\c{c}}, Aydin and Rokhsar, Daniel and Oliker, Leonid and Yelick, Katherine},
journal = {Scientific reports},
doi = {https://doi.org/10.1038/s41598-020-67416-5},
year = {2020}
}
@article{jpdclacc20,
title = {Parallel algorithms for finding connected components using linear algebra},
author = {Zhang, Yongzhe and Azad, Ariful and Bulu{\c{c}}, Ayd{\i}n},
journal = {Journal of Parallel and Distributed Computing},
year = {2020},
doi = {https://doi.org/10.1016/j.jpdc.2020.04.009},
url = {http://eecs.berkeley.edu/~aydin/LACC-JPDC.pdf}
}
@inproceedings{tang2019high,
booktitle = {Proceedings of the IPDPS},
year = {2020},
title = {A High-Throughput Solver for Marginalized Graph Kernels on {GPU}},
author = {Tang, Yu-Hang and Selvitopi, Oguz and Popovici, Doru and Bulu{\c{c}}, Ayd{\i}n},
url = {http://eecs.berkeley.edu/~aydin/GraphKernels_IPDPS20.pdf},
arxiv = {https://arxiv.org/abs/1910.06310}
}
@inproceedings{selvitopi2020optimizing,
booktitle = {Proceedings of the IPDPS},
author = {Oguz Selvitopi and Md Taufique Hussain and Ariful Azad and Ayd{\i}n Bulu{\c{c}}},
year = {2020},
url = {http://eecs.berkeley.edu/~aydin/HipMCL_PreExascale-IPDPS20.pdf},
title = {Optimizing High Performance {Markov} Clustering for Pre-Exascale Architectures},
code = {https://bitbucket.org/azadcse/hipmcl/wiki},
arxiv = {https://arxiv.org/abs/2002.10083}
}
@inproceedings{zeni2020logan,
author = {Alberto Zeni and Giulia Guidi and Marquita Ellis and Nan Ding and Marco D. Santambrogio and Steven Hofmeyr and Ayd{\i}n Bulu{\c{c}} and Leonid Oliker and Katherine Yelick},
booktitle = {Proceedings of the IPDPS},
year = {2020},
url = {http://eecs.berkeley.edu/~aydin/ipdps_logan_2020.pdf},
title = {{LOGAN}: High-Performance {GPU}-Based X-Drop Long-Read Alignment},
code = {https://github.com/albertozeni/LOGAN},
arxiv = {https://arxiv.org/abs/2002.05200}
}
@article{yelick2020parallelism,
title = {The parallelism motifs of genomic data analysis},
author = {Yelick, Katherine and Bulu{\c{c}}, Ayd{\i}n and Awan, Muaaz and Azad, Ariful and Brock, Benjamin and Egan, Rob and Ekanayake, Saliya and Ellis, Marquita and Georganas, Evangelos and Guidi, Giulia and others},
journal = {Philosophical Transactions of the Royal Society A},
volume = {378},
number = {2166},
pages = {20190394},
year = {2020},
publisher = {The Royal Society Publishing},
doi = {https://doi.org/10.1098/rsta.2019.0394},
arxiv = {https://arxiv.org/abs/2001.06989}
}
@inproceedings{Peverelli2020.02.14.946939,
author = {Peverelli, Francesco and Tucci, Lorenzo Di and Santambrogio, Marco D. and Ding, Nan and Hofmeyr, Steven and Bulu{\c c}, Ayd{\i}n and Oliker, Leonid and Yelick, Katherine},
title = {{GPU} accelerated partial order multiple sequence alignment for long reads self-correction},
booktitle = {IEEE International Workshop on High Performance Computational Biology (HiCOMB)},
year = {2020},
biorxiv = {https://www.biorxiv.org/content/early/2020/03/05/2020.02.14.946939},
code = {https://github.com/francesco-peverelli/CONSENT-GPU},
url = {https://www.biorxiv.org/content/early/2020/03/05/2020.02.14.946939.full.pdf}
}
@inproceedings{distributedGB20,
author = {Brock, Benjamin and Bulu\c{c}, Ayd{\i}n and Mattson, Timothy and McMillan, Scott and Moreira, Jos{\'e} and Pearce, Roger and Selvitopi, Oguz and Steil, Trevor},
title = {Considerations for a Distributed {GraphBLAS} {API}},
url = {http://eecs.berkeley.edu/~aydin/GraphBLASDisAPI20.pdf},
year = {2020},
booktitle = {GrAPL: Workshop on Graphs, Architectures, Programming, and Learning (IPDPSW)}
}
@inproceedings{cppGB20,
author = {Brock, Benjamin and Bulu\c{c}, Ayd{\i}n and Mattson, Timothy and McMillan, Scott and Moreira, Jos{\'e}},
title = {A Roadmap for the {GraphBLAS C++ API}},
url = {http://eecs.berkeley.edu/~aydin/GraphBLASCppAPI20.pdf},
year = {2020},
booktitle = {GrAPL: Workshop on Graphs, Architectures, Programming, and Learning (IPDPSW)}
}
@article{nagasaka2019performance,
title = {Performance optimization, modeling and analysis of sparse matrix-matrix products on multi-core and many-core processors},
author = {Nagasaka, Yusuke and Matsuoka, Satoshi and Azad, Ariful and Bulu{\c{c}}, Ayd{\i}n},
journal = {Parallel Computing},
volume = {90},
pages = {102545},
year = {2019},
publisher = {Elsevier},
doi = {https://doi.org/10.1016/j.parco.2019.102545},
url = {https://people.eecs.berkeley.edu/~aydin/spgemm_parco2019.pdf}
}
@inproceedings{brock2019rdma,
title = {{RDMA} vs. {RPC} for Implementing Distributed Data Structures},
author = {Benjamin Brock and Yuxin Chen and Jiakun Yan and John D. Owens and Ayd{\i}n Bulu{\c{c}} and Katherine Yelick},
year = {2019},
booktitle = {IEEE/ACM 9th Workshop on Irregular Applications: Architectures and Algorithms (IA3)},
arxiv = {https://arxiv.org/abs/1910.02158}
}
@inproceedings{bclicpp19,
author = {Brock, Ben and Bulu\c{c}, Ayd{\i}n and Yelick, Katherine},
url = {http://eecs.berkeley.edu/~aydin/BCLBrockICPP19.pdf},
title = {{BCL}: A Cross-Platform Distributed Data Structures Library},
booktitle = {48th International Conference on Parallel Processing (ICPP)},
year = {2019},
address = {Kyoto, Japan},
code = {https://github.com/berkeley-container-library/bcl},
arxiv = {https://arxiv.org/abs/1810.13029}
}
@inproceedings{dibellaicpp19,
title = {{diBELLA}: Distributed Long Read to Long Read Alignment},
author = {Ellis, Marquita and Guidi, Giulia and Bulu\c{c}, Ayd{\i}n and Oliker, Leonid and Yelick, Katherine},
url = {http://eecs.berkeley.edu/~aydin/diBELLA_ICPP19.pdf},
booktitle = {48th International Conference on Parallel Processing (ICPP)},
arxiv = {https://arxiv.org/abs/2001.10049},
year = {2019},
address = {Kyoto, Japan}
}
@inproceedings{pandey2019h,
title = {{H-INDEX}: Hash-Indexing for Parallel Triangle Counting on {GPUs}},
author = {Pandey, Santosh and Li, Xiaoye Sherry and Bulu\c{c}, Ayd{\i}n and Xu, Jiejun and Liu, Hang},
booktitle = {IEEE High Performance Extreme Computing Conference (HPEC)},
pages = {1--7},
url = {http://eecs.berkeley.edu/~aydin/graphchallenge19.pdf},
year = {2019},
organization = {IEEE}
}
@inproceedings{lagraph2019,
author = {Mattson, Timothy and Davis, Timothy A. and Kumar, Manoj and Bulu\c{c}, Ayd{\i}n and McMillan, Scott and Moreira, Jos{\'e} and Yang, Carl},
title = {{LAGraph}: A Community Effort to Collect Graph Algorithms Built on Top of the {GraphBLAS}},
url = {http://eecs.berkeley.edu/~aydin/LAGraph19.pdf},
year = {2019},
booktitle = {GrAPL: Workshop on Graphs, Architectures, Programming, and Learning (IPDPSW)}
}
@inproceedings{coloringgrapl2019,
author = {Osama, Muhammad and Truong, Minh and Yang, Carl and Bulu\c{c}, Ayd{\i}n and Owens, John D},
title = {Graph Coloring on the {GPU}},
url = {http://eecs.berkeley.edu/~aydin/coloring.pdf},
year = {2019},
booktitle = {GrAPL: Workshop on Graphs, Architectures, Programming, and Learning (IPDPSW)}
}
@inproceedings{lacc2019,
author = {Ariful Azad and Ayd{\i}n Bulu\c{c}},
booktitle = {Proceedings of the IPDPS},
year = {2019},
url = {http://eecs.berkeley.edu/~aydin/LACC.pdf},
title = {{LACC:} A Linear-Algebraic Algorithm for Finding Connected Components in Distributed Memory},
code = {https://github.com/PASSIONLab/CombBLAS}
}
@inproceedings{georganas2018extreme,
title = {Extreme scale de novo metagenome assembly},
author = {Georganas, Evangelos and Egan, Rob and Hofmeyr, Steven and Goltsman, Eugene and Arndt, Bill and Tritt, Andrew and Bulu{\c{c}}, Aydin and Oliker, Leonid and Yelick, Katherine},
booktitle = {Proceedings of the International Conference for High Performance Computing, Networking, Storage, and Analysis (SC)},
pages = {10},
year = {2018},
arxiv = {https://arxiv.org/abs/1809.07014},
url = {http://eecs.berkeley.edu/~aydin/a10-georganas.pdf},
code = {https://sourceforge.net/projects/hipmer/},
note = {Best Paper Nominee},
organization = {IEEE Press}
}
@inproceedings{gholami2017integrated,
title = {Integrated Model, Batch, and Domain Parallelism in Training Neural Networks},
author = {Gholami, Amir and Azad, Ariful and Jin, Peter and Keutzer, Kurt and Bulu\c{c}, Ayd{\i}n},
booktitle = {SPAA'18: 30th ACM Symposium on Parallelism in Algorithms and Architectures},
arxiv = {http://arxiv.org/abs/1712.04432},
url = {http://eecs.berkeley.edu/~aydin/integrateddnn_spaa2018.pdf},
year = {2018}
}
@inproceedings{yang2018pushpull,
title = {Implementing Push-Pull Efficiently in {GraphBLAS}},
author = {Yang, Carl and Bulu\c{c}, Ayd{\i}n and Owens, John D},
booktitle = {47th International Conference on Parallel Processing (ICPP)},
arxiv = {https://arxiv.org/abs/1804.03327},
code = {https://github.com/owensgroup/push-pull},
url = {http://eecs.berkeley.edu/~aydin/pushpull_icpp2018.pdf},
year = {2018}
}
@inproceedings{yang2018spmm,
title = {Design Principles for Sparse Matrix Multiplication on the {GPU}},
author = {Yang, Carl and Bulu\c{c}, Ayd{\i}n and Owens, John D},
booktitle = {24th International European Conference on Parallel and Distributed Computing (Euro-Par)},
year = {2018},
arxiv = {https://arxiv.org/abs/1803.08601},
url = {http://eecs.berkeley.edu/~aydin/Yang2018EuroPar.pdf},
code = {https://github.com/owensgroup/merge-spmm},
note = {Distinguished Paper and Best Artifact Award}
}
@inproceedings{nagasaka2018high,
title = {High-performance sparse matrix-matrix products on {Intel} {KNL} and multicore architectures},
author = {Nagasaka, Yusuke and Matsuoka, Satoshi and Azad, Ariful and Buluc, Ayd{\i}n},
booktitle = {47th International Conference on Parallel Processing Workshops (ICPPW)},
arxiv = {https://arxiv.org/abs/1804.01698},
url = {http://eecs.berkeley.edu/~aydin/spgemm_p2s218.pdf},
code = {https://bitbucket.org/YusukeNagasaka/mtspgemmlib},
year = {2018}
}
@article{hipmcl,
title = {{HipMCL}: A high-performance parallel implementation
of the {Markov} clustering algorithm for large-scale
networks},
author = {Ariful Azad and Georgios A. Pavlopoulos and Christos
A. Ouzounis and Nikos C. Kyrpides and Ayd{\i}n Bulu\c{c}},
journal = {Nucleic Acids Research (NAR)},
doi = {https://doi.org/10.1093/nar/gkx1313},
year = 2018,
code = {https://bitbucket.org/azadcse/hipmcl/wiki/Home}
}
@inproceedings{aistats18,
author = {Penporn Koanantakool and
Alnur Ali and
Ariful Azad and
Ayd{\i}n Bulu\c{c} and
Dmitriy Morozov and
Sang{-}Yun Oh and
Leonid Oliker and
Katherine Yelick},
title = {Communication-Avoiding Optimization Methods for
Distributed Massive-Scale Sparse Inverse Covariance Estimation},
booktitle = {The 21st International Conference on Artificial Intelligence and Statistics (AISTATS)},
url = {http://eecs.berkeley.edu/~aydin/koanantakool18.pdf},
supplementary = {http://eecs.berkeley.edu/~aydin/koanantakool18-supp.pdf},
year = 2018,
code = {https://bitbucket.org/penpornk/spdm3-hpconcord}
}
@inproceedings{sc17,
author = {Yang You and Ayd{\i}n Bulu\c{c} and James Demmel},
title = {Scaling Deep Learning on {GPU} and {K}nights {L}anding Clusters},
booktitle = {Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis (SC'17)},
year = {2017},
url = {http://eecs.berkeley.edu/~aydin/sc2017_deep_learning.pdf},
doi = {https://doi.org/10.1145/3126908.3126912},
code = {https://www.cs.berkeley.edu/~youyang/sc17code.zip}
}
@inproceedings{azad2016work,
title = {A work-efficient parallel sparse matrix-sparse vector multiplication algorithm},
author = {Ariful Azad and Ayd{\i}n Bulu\c{c}},
booktitle = {Proceedings of the IPDPS},
url = {http://eecs.berkeley.edu/~aydin/SpMSpV-ipdps17.pdf},
year = {2017},
code = {https://github.com/PASSIONLab/CombBLAS}
}
@inproceedings{graphblasapiC,
title = {Design of the {GraphBLAS} {API} for {C}},
author = {Bulu\c{c}, Ayd{\i}n and Mattson,Timothy and McMillan, Scott and Moreira, Jose and Yang, Carl},
booktitle = {IEEE Workshop on Graph Algorithm Building Blocks, IPDPSW},
url = {http://eecs.berkeley.edu/~aydin/GABB17.pdf},
year = {2017}
}
@inproceedings{azad2016reverse,
title = {The Reverse {Cuthill-McKee} Algorithm in Distributed-Memory},
author = {Ariful Azad and Mathias Jacquelin and Ayd{\i}n Bulu\c{c} and Esmond G. Ng},
booktitle = {Proceedings of the IPDPS},
url = {http://eecs.berkeley.edu/~aydin/RCM-ipdps17.pdf},
code = {https://github.com/PASSIONLab/CombBLAS},
year = {2017}
}
@inproceedings{hipmereuropar,
author = {Marquita Ellis and Evangelos Georganas and Rob Egan and Steven Hofmeyr and Ayd{\i}n Bulu\c{c} and Brandon Cook and Leonid Oliker and Katherine Yelick},
title = {Performance Characterization of De Novo Genome Assembly on Leading Parallel Systems},
booktitle = {Europar - International European Conference on Parallel and Distributed Computing},
year = {2017},
url = {http://gauss.cs.ucsb.edu/~aydin/HipMer-EuroPar17.pdf}
}
@inproceedings{chiuw17,
author = {Ariful Azad and Ayd{\i}n Bulu\c{c}},
title = {Towards a {GraphBLAS} Library in {C}hapel},
booktitle = {Intl.\ Parallel \& Distributed Processing Symposium Workshops (IPDPSW)},
url = {http://eecs.berkeley.edu/~aydin/GraphBLAS-Chapel.pdf},
year = {2017}
}
@article{tpds16,
title = {Computing Maximum Cardinality Matchings in Parallel on Bipartite Graphs via Tree-Grafting},
author = {Ariful Azad and Ayd{\i}n Bulu\c{c} and Alex Pothen},
journal = {IEEE Transactions on Parallel and Distributed Systems (TPDS))},
year = {2017},
volume = {28},
number = {1},
pages = {44--59},
publisher = {IEEE},
doi = {http://dx.doi.org/10.1109/TPDS.2016.2546258},
url = {https://crd.lbl.gov/assets/Uploads/matchingGraft-TPDS.pdf},
code = {https://bitbucket.org/azadcse/ms-bfs-graft}
}
@inproceedings{mattson2017graphblas,
title = {{GraphBLAS C API}: Ideas for future versions of the specification},
author = {Mattson, Timothy G and Yang, Carl and McMillan, Scott and Bulu{\c{c}}, Aydin and Moreira, Jos{\'e} E},
booktitle = {IEEE High Performance Extreme Computing Conference (HPEC)},
year = {2017},
url = {http://eecs.berkeley.edu/~aydin/GrB_futures_hpec17.pdf}
}
@article{tpds17,
title = {A High Performance Block Eigensolver for Nuclear Configuration Interaction Calculations},
author = {Hasan Metin Aktulga and Md. Afibuzzaman and Samuel Williams and Ayd{\i}n Bulu\c{c} and Meiyue Shao and Chao Yang and Esmond G. Ng and Pieter Maris and James P. Vary},
journal = {IEEE Transactions on Parallel and Distributed Systems (TPDS))},
doi = {http://dx.doi.org/10.1109/TPDS.2016.2630699},
url = {http://eecs.berkeley.edu/~aydin/ieeetpds_mfdn_lobpcg_rev.pdf},
year = {2017}
}
@inproceedings{georganas2017merbench,
title = {{MerBench}: {PGAS} Benchmarks for High Performance Genome Assembly},
author = {Georganas, Evangelos and Ellis, Marquita and Egan, Rob and Hofmeyr, Steven and Bulu{\c{c}}, Aydin and Cook, Brandon and Oliker, Leonid and Yelick, Katherine},
booktitle = {Proceedings of the Second Annual PGAS Applications Workshop},
pages = {5},
year = {2017},
url = {http://eecs.berkeley.edu/~aydin/a5-Georganas.pdf},
organization = {ACM}
}
@article{georganas2017extreme,
title = {Extreme-Scale De Novo Genome Assembly},
author = {Georganas, Evangelos and Hofmeyr, Steven and Egan, Rob and Buluc, Aydin and Oliker, Leonid and Rokhsar, Daniel and Yelick, Katherine},
arxiv = {https://arxiv.org/abs/1705.11147},
year = {2017},
note = {To appear as a chapter in Exascale Scientific Applications: Programming Approaches for Scalability, Performance, and Portability (CRC Press)}
}
@article{sisc3dspgemm,
title = {Exploiting Multiple Levels of Parallelism in Sparse Matrix-Matrix Multiplication},
author = {Ariful Azad and Grey Ballard and Ayd{\i}n Bulu\c{c} and James Demmel and Laura Grigori and Oded Schwartz and Sivan Toledo and Samuel Williams},
journal = {SIAM Journal on Scientific Computing (SISC)},
year = {2016},
volume = {38},
number = {6},
pages = {C624-C651},
doi = {http://dx.doi.org/10.1137/15M104253X},
arxiv = {http://arxiv.org/abs/1510.00844},
url = {http://eecs.berkeley.edu/~aydin/M104253.pdf},
code = {https://github.com/PASSIONLab/CombBLAS}
}
@article{parco16,
title = {A matrix-algebraic formulation of distributed-memory maximal cardinality matching algorithms in bipartite graphs},
author = {Ariful Azad and Ayd{\i}n Bulu\c{c}},
journal = {Parallel Computing},
year = {2016},
doi = {http://dx.doi.org/10.1016/j.parco.2016.05.007},
code = {https://github.com/PASSIONLab/CombBLAS}
}
@inproceedings{matchingipdps16,
author = {Ariful Azad and Ayd{\i}n Bulu\c{c}},
title = {Distributed-Memory Algorithms for Maximum Cardinality Matching in Bipartite Graphs},
booktitle = {Proceedings of the IPDPS},
year = {2016},
url = {http://eecs.berkeley.edu/~aydin/MCM_IPDPS16_Azad.pdf},
code = {https://github.com/PASSIONLab/CombBLAS},
publisher = {IEEE}
}
@inproceedings{spdmmm16,
author = {Penporn Koanantakool and Ariful Azad and Ayd{\i}n Bulu\c{c} and Dmitriy Morozov and Sang-Yun Oh and Leonid Oliker and Katherine Yelick},
title = {Communication-Avoiding Parallel Sparse-Dense Matrix-Matrix Multiplication},
booktitle = {Proceedings of the IPDPS},
year = {2016},
url = {http://eecs.berkeley.edu/~aydin/spdm3_ipdps16.pdf}
}
@article{strnadova2016lira,
title = {{LiRa}: A New Likelihood-Based Similarity Score for Collaborative Filtering},
author = {Strnadova-Neeley, Veronika and Buluc, Aydin and Gilbert, John R and Oliker, Leonid and Ouyang, Weimin},
journal = {arXiv preprint arXiv:1608.08646},
arxiv = {http://arxiv.org/abs/1608.08646},
year = {2016}
}
@inproceedings{mathgraphblas16,
author = {Jeremy Kepner and Peter Aaltonen and David Bader and Ayd{\i}n Bulu\c{c} and Franz Franchetti and John Gilbert and Dylan Hutchison and Manoj Kumar and Andrew Lumsdaine and Henning Meyerhenke and Scott McMillan and Jos{\'e} Moreira and John Owens and Carl Yang and Marcin Zalewski and Timothy Mattson},
title = {Mathematical Foundations of the {GraphBLAS}},
booktitle = {IEEE High Performance Extreme Computing (HPEC)},
url = {http://eecs.berkeley.edu/~aydin/GraphBLAS-Math.pdf},
year = {2016}
}
@incollection{gpsurvey,
author = {Ayd{\i}n Bulu\c{c} and Henning Meyerhenke and Ilya Safro and Peter Sanders and Christian Schulz},
title = {Recent Advances in Graph Partitioning},
doi = {10.1007/978-3-319-49487-6_4},
booktitle = {Algorithm Engineering - Selected Results and Surveys},
publisher = {Lecture Notes in Computer Science},
volume = {9220},
year = {2016},
arxiv = {http://arxiv.org/abs/1311.3144}
}
@inproceedings{matchingcluster15,
author = {Ariful Azad and Ayd{\i}n Bulu\c{c}},
title = {Distributed-Memory Algorithms for Maximal Cardinality Matching using Matrix Algebra},
booktitle = {IEEE International Conference on Cluster Computing (CLUSTER)},
year = {2015},
note = {(full paper)},
url = {http://eecs.berkeley.edu/~aydin/maximalMatching.pdf}
}
@inproceedings{sc15,
author = {Evangelos Georganas and Ayd{\i}n Bulu\c{c} and Jarrod Chapman and Steven Hofmeyr and Chaitanya Aluru and Rob Egan and Leonid Oliker and Daniel Rokhsar and Katherine Yelick},
title = {{HipMer}: An Extreme-Scale De Novo Genome Assembler},
booktitle = {International Conference for High Performance Computing, Networking, Storage and Analysis (SC'15)},
year = {2015},
url = {http://eecs.berkeley.edu/~aydin/sc15_genome.pdf}
}
@inproceedings{bcb15,
author = {Veronika Strnadova-Neeley and Ayd{\i}n Bulu\c{c} and Joseph Gonzalez and Jarrod Chapman and John Gilbert and Leonid Oliker},
title = {Efficient Data Reduction for Large-Scale Genetic Mapping},
booktitle = {ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (ACM BCB)},
year = {2015},
url = {http://eecs.berkeley.edu/~aydin/bcb15.pdf}
}
@incollection{BaderGraph,
author = {Ayd{\i}n Bulu\c{c} and Scott Beamer and Kamesh Madduri and Krste Asanovi\'{c} and David Patterson},
title = {Distributed-Memory Breadth-First Search on Massive Graphs},
booktitle = {Parallel Graph Algorithms},
editor = {D. Bader},
publisher = {CRC Press, Taylor-Francis},
year = {2016 (in press)},
url = {http://eecs.berkeley.edu/~aydin/ChapterBFS2015.pdf}
}
@inproceedings{matchingipdps15,
author = {Ariful Azad and Ayd{\i}n Bulu\c{c} and Alex Pothen},
title = {A Parallel Tree Grafting Algorithm for Maximum Cardinality Matching in Bipartite Graphs},
booktitle = {Proceedings of the IPDPS},
year = {2015},
url = {http://eecs.berkeley.edu/~aydin/matchingGraft.pdf},
doi = {10.1109/IPDPS.2015.68}
}
@inproceedings{meralign15,
author = {Evangelos Georganas and Ayd{\i}n Bulu\c{c} and Jarrod Chapman and Leonid Oliker and Daniel Rokhsar and Katherine Yelick},
title = {merAligner: A Fully Parallel Sequence Aligner},
booktitle = {Proceedings of the IPDPS},
year = {2015},
url = {http://eecs.berkeley.edu/~aydin/ipdps_genome.pdf}
}
@inproceedings{trianglegabb15,
author = {Ariful Azad and Ayd{\i}n Bulu\c{c} and John R Gilbert},
title = {Parallel Triangle Counting and Enumeration using Matrix Algebra},
booktitle = {Proceedings of the IPDPSW, Workshop on Graph Algorithm Building Blocks (GABB)},
year = {2015},
pages = {804 - 811},
url = {http://eecs.berkeley.edu/~aydin/triangles-gabb.pdf},
doi = {10.1109/IPDPSW.2015.75}
}
@article{genomebiology15,
title = {A whole-genome shotgun approach for assembling and anchoring the
hexaploid bread wheat genome},
author = {Chapman, Jarrod and Mascher, Martin and Bulu\c{c}, Ayd{\i}n and Barry, Kerrie and Georganas, Evangelos and Session, Adam and Strnadova, Veronika and Jenkins, Jerry and Sehgal, Sunish and Oliker, Leonid and Schmutz, Jeremy and Yelick, Katherine and Scholz, Uwe and Waugh, Robbie and Poland, Jesse and Muehlbauer, Gary and Stein, Nils and Rokhsar, Daniel},
year = {2015},
journal = {Genome Biology},
doi = {doi:10.1186/s13059-015-0582-8},
volume = {16},
number = {26},
url = {http://genomebiology.com/content/pdf/s13059-015-0582-8.pdf}
}
@article{jpdc15,
title = {Parallel Processing of Filtered Queries in Attributed Semantic Graphs},
author = {Lugowski, Adam and Kamil, Shoaib and Ayd{\i}n Bulu\c{c} and Williams, Samuel and Duriakova, Erika and Oliker, Leonid and Fox, Armando and Gilbert, John},
journal = {Journal of Parallel and Distributed Computing (JPDC))},
year = {2015},
volume = {79-80},
pages = {115-131},
url = {http://eecs.berkeley.edu/~aydin/jpdc14-kdtsejits.pdf},
doi = {10.1016/j.jpdc.2014.08.010}
}
@inproceedings{iccs15,
author = {J. Kepner and D. Bader and A. Bulu\c{c} and J. Gilbert and J. Kepner and T. Mattson and H. Meyerhenke},
title = {Graphs, Matrices, and the {GraphBLAS}: Seven Good Reasons},
booktitle = {The International Conference on Computational Science (ICCS)},
doi = {doi:10.1016/j.procs.2015.05.353},
arxiv = {http://arxiv.org/pdf/1504.01039v1.pdf},
year = 2015
}
@inproceedings{sc14,
author = {Evangelos Georganas and Ayd{\i}n Bulu\c{c} and Jarrod Chapman and Leonid Oliker and Daniel Rokhsar and Katherine Yelick},
title = {Parallel De Bruijn Graph Construction and Traversal for De Novo Genome Assembly},
booktitle = {Proceedings of the International Conference for High Performance Computing, Networking, Storage and Analysis (SC'14)},
url = {http://eecs.berkeley.edu/~aydin/sc14_genome.pdf},
year = {2014}
}
@inproceedings{bibm14,
author = {V. Strnadova and A. Bulu\c{c} and J. Gonzalez and S. Jegelka and J. Chapman and J. Gilbert and D. Rokhsar and L. Oliker},
title = {Efficient and Accurate Clustering for Large-Scale Genetic Mapping},
booktitle = {The IEEE International Conference on Bioinformatics and Biomedicine (BIBM'14)},
year = 2014,
note = {Regular paper},
url = {http://eecs.berkeley.edu/~aydin/bibm14.pdf}
}
@inproceedings{ns14,
author = {Ayd{\i}n Bulu\c{c} and John Gilbert and Sivan Toledo},
title = {Computing Shortest Paths Using Sparse {G}aussian Elimination},
booktitle = {SIAM Workshop on Network Science (NS14)},
year = 2014,
url = {http://siam.org/meetings/ns14/abstract_14.pdf},
note = {(extended abstract)}
}
@inproceedings{ex14,
author = {D. Bader and A. Bulu\c{c} and J. Gilbert and J. Gonzalez and J. Kepner and T. Mattson},
title = {The {Graph} {BLAS} effort and its implications for {E}xascale},
booktitle = {SIAM Workshop on Exascale Applied Mathematics Challenges and Opportunities (EX14)},
url = {http://www.siam.org/meetings/ex14/15-buluc-abstract.pdf},
note = {(extended abstract)},
year = 2014
}
@inproceedings{ipdps14,
author = {H. Metin Aktulga and Ayd{\i}n Bulu\c{c} and Samuel Williams and Chao Yang},
title = {Optimizing Sparse Matrix-Multiple Vectors Multiplication for Nuclear Configuration Interaction Calculations},
booktitle = {Proceedings of the IPDPS},
year = 2014,
url = {http://eecs.berkeley.edu/~aydin/ipdps14aktulga.pdf},
organization = {IEEE Computer Society}
}
@inproceedings{hpec13,
author = {T. Mattson and D. Bader and J. Berry and A. Bulu\c{c} and J. Dongarra and C. Faloutsos and J. Feo and J. Gilbert and J. Gonzalez and B. Hendrickson and J. Kepner and C. Leiserson and A. Lumsdaine and D. Padua and S. Poole and S. Reinhardt and M. Stonebraker and S. Wallach and A. Yoo},
title = {Standards for Graph Algorithm Primitives},
booktitle = {High Performance Extreme Computing Conference (HPEC '13)},
year = 2013,
organization = {IEEE},
url = {http://www.netlib.org/utk/people/JackDongarra/PAPERS/GraphPrimitives-HPEC.pdf},
note = {(position paper)}
}
@inproceedings{spaa13,
author = {Grey Ballard and Ayd{\i}n Bulu\c{c} and James Demmel and Laura Grigori and Benjamin Lipshitz and Oded Schwartz and Sivan Toledo},
title = {Communication Optimal Parallel Multiplication of Sparse Random Matrices},
booktitle = {SPAA 2013: The 25th ACM Symposium on Parallelism in Algorithms and Architectures},
year = {2013},
address = {Montreal, Canada},
url = {http://eecs.berkeley.edu/~aydin/spaa134-ballard.pdf},
doi = {10.1145/2486159.2486196}
}
@inproceedings{kdtsejits2013,
author = {Bulu\c{c}, Ayd{\i}n and Duriakova, Erika and Fox, Armando and Gilbert, John and Kamil, Shoaib and Lugowski, Adam and Oliker, Leonid and Williams, Samuel},
title = {High-Productivity and High-Performance Analysis of Filtered Semantic Graphs},
booktitle = {Proceedings of the IPDPS},
year = {2013},
publisher = {IEEE Computer Society},
url = {http://eecs.berkeley.edu/~aydin/ipdps13-kdtsejits.pdf},
doi = {10.1109/IPDPS.2013.52}
}
@inproceedings{ca_apsp,
author = {Solomonik, Edgar and Bulu\c{c}, Ayd{\i}n and Demmel, James},
title = {Minimizing communication in all-pairs shortest paths},
booktitle = {Proceedings of the IPDPS},
year = {2013},
publisher = {IEEE Computer Society},
url = {http://eecs.berkeley.edu/~aydin/25dapsp_ipdps13.pdf},
doi = {10.1109/IPDPS.2013.111}
}
@inproceedings{beamerbfs13,
author = {Beamer, Scott and Bulu\c{c}, Ayd{\i}n and Asanovi\'{c}, Krste and Patterson, David},
title = {Distributed Memory Breadth-First Search Revisited: Enabling Bottom-Up Search},
booktitle = {Workshop on Multithreaded Architectures and Applications (MTAAP), in conjunction with IPDPS},
year = {2013},
publisher = {IEEE Computer Society},
doi = {10.1109/IPDPSW.2013.159},
url = {http://crd.lbl.gov/assets/pubs_presos/mtaapbottomup2D.pdf}
}
@inproceedings{dimacs12,
title = {Graph Partitioning for Scalable Distributed Graph Computations},
author = {Ayd{\i}n Bulu\c{c} and Kamesh Madduri},
booktitle = {Graph Partitioning and Graph Clustering (Proc. 10th DIMACS Implementation Challenge) },
publisher = {AMS},
series = {Contemporary Mathematics},
volume = {588},
pages = {83-101},
year = {2013},
url = {http://eecs.berkeley.edu/~aydin/DIMACSprocfinal.pdf}
}
@inproceedings{sdm12,
author = {Adam Lugowski and David Alber and Ayd{\i}n Bulu\c{c} and John Gilbert and Steve Reinhardt and Yun Teng and Andrew Waranis},
title = {A Flexible Open-Source Toolbox for Scalable Complex Graph Analysis},
booktitle = {SIAM Conference on Data Mining (SDM)},
year = {2012},
url = {https://crd.lbl.gov/assets/pubs_presos/kdt-final.pdf}
}
@article{gemmexp,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert},
title = {Parallel Sparse Matrix-Matrix Multiplication and Indexing: Implementation and Experiments},
journal = {SIAM Journal of Scientific Computing (SISC)},
year = {2012},
volume = {34},
pages = {170 - 191},
number = {4},
arxiv = {http://arxiv.org/abs/1109.3739},
doi = {10.1137/110848244},
url = {http://eecs.berkeley.edu/~aydin/spgemm_sisc12.pdf}
}
@inproceedings{icassp12,
title = {Scalable Complex Graph Analysis with the Knowledge Discovery Toolbox},
author = {Adam Lugowski and Ayd{\i}n Bulu\c{c} and John R. Gilbert and Steve Reinhardt},
booktitle = {ICASSP, Special session on ``Big Data''},
url = {http://eecs.berkeley.edu/~aydin/ICASSP_12.pdf},
year = {2012}
}
@inproceedings{kandalla2012can,
title = {Can Network-Offload based Non-Blocking Neighborhood {MPI} Collectives Improve Communication Overheads of Irregular Graph Algorithms?},
author = {Kandalla, K and Buluc, A and Subramoni, H and Tomko, K and Vienne, J and Oliker, L and Panda, DK},
booktitle = {IEEE International Conference on Cluster Computing Workshops},
pages = {222--230},
year = {2012},
organization = {IEEE},
url = {http://eecs.berkeley.edu/~aydin/BFSOverlap2012.pdf},
doi = {10.1109/ClusterW.2012.40}
}
@inproceedings{bfs:11,
author = {Ayd{\i}n Bulu\c{c} and Kamesh Madduri},
title = {Parallel Breadth-First Search on Distributed Memory Systems},
arxiv = {http://arxiv.org/abs/1104.4518},
booktitle = { International Conference for High Performance Computing, Networking, Storage and Analysis (SC'11)},
year = {2011},
doi = {10.1145/2063384.2063471},
url = {http://eecs.berkeley.edu/~aydin/sc11_bfs.pdf}
}
@inproceedings{ipdps11,
author = {Ayd{\i}n Bulu\c{c} and Samuel Williams and Leonid Oliker and James Demmel},
title = {Reduced-Bandwidth Multithreaded Algorithms for Sparse Matrix-Vector Multiplication},
booktitle = {Proc. {IPDPS}},
year = {2011},
url = {http://eecs.berkeley.edu/~aydin/ipdps2011.pdf}
}
@article{cblas:10,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert},
title = {The {C}ombinatorial {BLAS}: Design, Implementation, and Applications},
journal = {The International Journal of High Performance Computing Applications},
year = {2011},
volume = {25},
number = {4},
pages = {496 - 509},
url = {http://eecs.berkeley.edu/~aydin/combblas-r2.pdf},
doi = {10.1177/1094342011403516}
}
@incollection{sparsechapter,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert and Viral B. Shah},
title = {{Implementing Sparse Matrices for Graph Algorithms}},
editor = {Jeremy Kepner and John R. Gilbert},
year = {2011},
booktitle = { Graph Algorithms in the Language of Linear Algebra },
publisher = { SIAM Press},
doi = {10.1137/1.9780898719918.ch13}
}
@incollection{gemmchapter,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert},
title = {{New Ideas in Sparse Matrix-Matrix Multiplication}},
editor = {Jeremy Kepner and John R. Gilbert},
year = {2011},
booktitle = { Graph Algorithms in the Language of Linear Algebra },
publisher = { SIAM Press},
doi = {10.1137/1.9780898719918.ch14}
}
@article{gpuapsp:2008-15,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert and Ceren Budak},
title = {Solving path problems on the {GPU}},
journal = {Parallel Computing},
volume = {36},
number = {5-6},
pages = {241 - 253},
year = {2010},
url = {http://eecs.berkeley.edu/~aydin/parco_apsp.pdf},
doi = {10.1016/j.parco.2009.12.002}
}
@techreport{spgemm:10,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert},
institution = {UCSB CS Department},
title = {Highly Parallel Sparse Matrix-Matrix Multiplication},
number = {UCSB-CS-2010-10},
month = {June},
year = {2010},
url = {http://eecs.berkeley.edu/~aydin/ParallelSpGEMMTR2010.pdf}
}
@phdthesis{dissertation,
author = {Ayd{\i}n Bulu\c{c}},
title = {Linear Algebraic Primitives for Parallel Computing on Large Graphs},
school = {University of California},
year = {2010},
address = {Santa Barbara, CA},
month = {March},
url = {http://eecs.berkeley.edu/~aydin/Buluc_Dissertation.pdf}
}
@inproceedings{csb:spaa09,
author = {Ayd{\i}n Bulu\c{c} and Jeremy T. Fineman and Matteo Frigo and John R. Gilbert and Charles E. Leiserson},
title = {Parallel Sparse Matrix-Vector and Matrix-Transpose-Vector Multiplication Using Compressed Sparse Blocks},
booktitle = {Proc. {SPAA}},
year = {2009},
month = {August},
url = {http://eecs.berkeley.edu/~aydin/csb2009.pdf},
address = {Calgary, Canada}
}
@inproceedings{icpp08,
title = {Challenges and Advances in Parallel Sparse Matrix-Matrix Multiplication},
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert},
booktitle = {{The 37th International Conference on Parallel Processing (ICPP'08)}},
year = {2008},
month = {September},
pages = {503-510},
doi = {10.1109/ICPP.2008.45},
address = {Portland, Oregon, USA},
url = {http://eecs.berkeley.edu/~aydin/Buluc-ParallelMatMat.pdf},
slides = {ICPP-092008-Aydin.pdf}
}
@inproceedings{hypersparse08,
author = {Ayd{\i}n Bulu\c{c} and John R. Gilbert},
title = {{On the Representation and Multiplication of Hypersparse Matrices}},
booktitle = {Proc. {IPDPS}},
month = {April},
year = {2008 },
doi = {10.1109/IPDPS.2008.4536313},
location = {Miami, FL},
url = {http://eecs.berkeley.edu/~aydin/hypersparse-ipdps08.pdf},
slides = {IPDPS-042008-Aydin.pdf}
}
@inproceedings{hgraphsandia,
author = {Ayd{\i}n Bulu\c{c} and Erik G. Boman},
title = {Towards Scalable Parallel Hypergraph Partitioning},
institution = {Sandia National Laboratories},
year = {2008},
booktitle = {CSRI Summer Proceedings},
address = {Albuquerque, NM and Livermore, CA},
url = {http://csri.sandia.gov/Proceedings/CSRI2008_final.pdf}
}
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