Yun William Yu

31 papers A* 1B 4Misc 1Journal 25
YearRankTypeTitle / Venue / Authors
2025 B conf
Devider: Long-Read Reconstruction of Many Diverse Haplotypes.
RECOMB
Jim Shaw, Christina Boucher, Yun William Yu, Noelle R. Noyes, Heng Li
2025 J jnl
Incorporating indel channels into average-case analysis of seed-chain-extend.
CoRR
Spencer Gibson, Yun William Yu
2024 J jnl
Floria: fast and accurate strain haplotyping in metagenomes.
Bioinform.
Jim Shaw, Jean-Sébastien Gounot, Hanrong Chen, Niranjan Nagarajan, Yun William Yu
2024 J jnl
Mora: abundance aware metagenomic read re-assignment for disentangling similar strains.
BMC Bioinform.
Andrew Zheng, Jim Shaw, Yun William Yu
2024 J jnl
On Minimizers and Convolutional Filters: Theoretical Connections and Applications to Genome Analysis.
J. Comput. Biol.
Yun William Yu
2024 B conf
Secure Federated Boolean Count Queries Using Fully-Homomorphic Cryptography.
RECOMB
Alexander T. Leighton, Yun William Yu
2024 J jnl
skandiver: a divergence-based analysis tool for identifying intercellular mobile genetic elements.
Bioinform.
Xiaolei Brian Zhang, Grace Oualline, Jim Shaw, Yun William Yu
2023 A* conf
HyperMinHash: MinHash in LogLog Space (Extended Abstract).
ICDE
Yun William Yu, Griffin M. Weber
2023 J jnl
Image-centric compression of protein structures improves space savings.
BMC Bioinform.
Luke Staniscia, Yun William Yu
2023 B conf
Reverse-Engineering Decoding Strategies Given Blackbox Access to a Language Generation System.
INLG
Daphne Ippolito, Nicholas Carlini, Katherine Lee, Milad Nasr, Yun William Yu
2023 J jnl
Reverse-Engineering Decoding Strategies Given Blackbox Access to a Language Generation System.
CoRR
Daphne Ippolito, Nicholas Carlini, Katherine Lee, Milad Nasr, Yun William Yu
2022 J jnl
HyperMinHash: MinHash in LogLog Space.
IEEE Trans. Knowl. Data Eng.
Yun William Yu, Griffin M. Weber
2022 Misc conf
Skiing Is Easy, Gymnastics Is Hard: Complexity of Routine Construction in Olympic Sports.
FUN
James Koppel, Yun William Yu
2022 J jnl
Theory of local k-mer selection with applications to long-read alignment.
Bioinform.
Jim Shaw, Yun William Yu
2022 J jnl
flopp: Extremely Fast Long-Read Polyploid Haplotype Phasing by Uniform Tree Partitioning.
J. Comput. Biol.
Jim Shaw, Yun William Yu
2021 J jnl
Expected 10-anonymity of HyperLogLog sketches for federated queries of clinical data repositories.
Bioinform.
Ziye Tao, Griffin M. Weber, Yun William Yu
2021 J jnl
Inherent privacy limitations of decentralized contact tracing apps.
J. Am. Medical Informatics Assoc.
Yoshua Bengio, Daphne Ippolito, Richard Janda, Max Jarvie, Benjamin Prud'homme, Jean-Franois Rousseau, Abhinav Sharma, Yun William Yu
2021 J jnl
Levenshtein Distance, Sequence Comparison and Biological Database Search.
IEEE Trans. Inf. Theory
Bonnie Berger, Michael S. Waterman, Yun William Yu
2021 J jnl
On minimizers and convolutional filters: a partial justification for the unreasonable effectiveness of CNNs in categorical sequence analysis.
CoRR
Yun William Yu
2020 J jnl
COVI White Paper.
CoRR
Hannah Alsdurf, Yoshua Bengio, Tristan Deleu, Prateek Gupta, Daphne Ippolito, Richard Janda, Max Jarvie, Tyler Kolody, Sekoul Krastev, Tegan Maharaj, Robert Obryk, Dan Pilat, Valerie Pisano, Benjamin Prud'homme, Meng Qu, Nasim Rahaman, Irina Rish, Jean-Franois Rousseau, Abhinav Sharma, Brooke Struck, Jian Tang, Martin Weiss, Yun William Yu
2020 J jnl
Contact Tracing Mobile Apps for COVID-19: Privacy Considerations and Related Trade-offs.
CoRR
Hyunghoon Cho, Daphne Ippolito, Yun William Yu
2020 J jnl
Privacy-accuracy trade-offs in noisy digital exposure notifications.
CoRR
Abbas Hammoud, Yun William Yu
2020 J jnl
Severability of mesoscale components and local time scales in dynamical networks.
CoRR
Yun William Yu, Jean-Charles Delvenne, Sophia N. Yaliraki, Mauricio Barahona
2019 J jnl
Metagenomic binning through low-density hashing.
Bioinform.
Yunan Luo, Yun William Yu, Jianyang Zeng, Bonnie Berger, Jian Peng
2018 J jnl
Joker de Bruijn: Covering
J. Comput. Biol.
Yaron Orenstein, Yun William Yu, Bonnie Berger
2017 J jnl
HyperMinHash: Jaccard index sketching in LogLog space.
CoRR
Yun William Yu, Griffin M. Weber
2017 J jnl
Total Tetris: Tetris with Monominoes, Dominoes, Trominoes, Pentominoes, ...
J. Inf. Process.
Erik D. Demaine, Martin L. Demaine, Sarah Eisenstat, Adam Hesterberg, Andrea Lincoln, Jayson Lynch, Yun William Yu
2016 J jnl
Approximation hardness of Shortest Common Superstring variants.
CoRR
Yun William Yu
2016 J jnl
Fast genotyping of known SNPs through approximate
Bioinform.
Ariya Shajii, Deniz Yörükoglu, Yun William Yu, Bonnie Berger
2015 J jnl
Entropy-scaling search of massive biological data.
CoRR
Yun William Yu, Noah M. Daniels, David Christian Danko, Bonnie Berger
2014 B conf
Traversing the k-mer Landscape of NGS Read Datasets for Quality Score Sparsification.
RECOMB
Yun William Yu, Deniz Yörükoglu, Bonnie Berger