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04/30/2023
Accelerating Genome Analysis via Algorithm-Architecture Co-Design
High-throughput sequencing (HTS) technologies have revolutionized the fi...
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12/09/2022
TargetCall: Eliminating the Wasted Computation in Basecalling via Pre-Basecalling Filtering
Basecalling is an essential step in nanopore sequencing analysis where t...
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11/22/2022
Utopia: Efficient Address Translation using Hybrid Virtual-to-Physical Address Mapping
The conventional virtual-to-physical address mapping scheme enables a vi...
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11/06/2022
A Framework for Designing Efficient Deep Learning-Based Genomic Basecallers
Nanopore sequencing generates noisy electrical signals that need to be c...
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09/18/2022
GenPIP: In-Memory Acceleration of Genome Analysis via Tight Integration of Basecalling and Read Mapping
Nanopore sequencing is a widely-used high-throughput genome sequencing t...
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07/20/2022
ApHMM: Accelerating Profile Hidden Markov Models for Fast and Energy-Efficient Genome Analysis
Profile hidden Markov models (pHMMs) are widely used in many bioinformat...
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06/04/2022
Demeter: A Fast and Energy-Efficient Food Profiler using Hyperdimensional Computing in Memory
Food profiling is an essential step in any food monitoring system needed...
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05/16/2022
Going From Molecules to Genomic Variations to Scientific Discovery: Intelligent Algorithms and Architectures for Intelligent Genome Analysis
We now need more than ever to make genome analysis more intelligent. We ...
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05/12/2022
SeGraM: A Universal Hardware Accelerator for Genomic Sequence-to-Graph and Sequence-to-Sequence Mapping
A critical step of genome sequence analysis is the mapping of sequenced ...
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03/30/2022
Packaging, containerization, and virtualization of computational omics methods: Advances, challenges, and opportunities
Omics software tools have reshaped the landscape of modern biology and b...
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02/21/2022
GenStore: A High-Performance and Energy-Efficient In-Storage Computing System for Genome Sequence Analysis
Read mapping is a fundamental, yet computationally-expensive step in man...
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09/16/2020
GenASM: A High-Performance, Low-Power Approximate String Matching Acceleration Framework for Genome Sequence Analysis
Genome sequence analysis has enabled significant advancements in medical...
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12/18/2019
AirLift: A Fast and Comprehensive Technique for Translating Alignments between Reference Genomes
As genome sequencing tools and techniques improve, researchers are able ...
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02/12/2019