13 citations · 15 across the 6 of their papers we have counts for
6 papers
Unlocking Noisy Real-World Corpora for Foundation Model Pre-Training via Quality-Aware Tokenization
Arvid E. Gollwitzer, Paridhi Latawa, David de Gruijl +2
Current tokenization methods process sequential data without accounting for signal quality, limiting their effectiveness on noisy real-world corpora. We present QA-Token (Quality-A…
MegIS: High-Performance, Energy-Efficient, and Low-Cost Metagenomic Analysis with In-Storage Processing
Nika Mansouri Ghiasi, Mohammad Sadrosadati, Harun Mustafa +9
Metagenomics has led to significant advances in many fields. Metagenomic analysis commonly involves the key tasks of determining the species present in a sample and their relative…
MetaStore: High-Performance Metagenomic Analysis via In-Storage Computing
Nika Mansouri Ghiasi, Mohammad Sadrosadati, Harun Mustafa +9
Metagenomics has led to significant advancements in many fields. Metagenomic analysis commonly involves the key tasks of determining the species present in a sample and their relat…
MetaTrinity: Enabling Fast Metagenomic Classification via Seed Counting and Edit Distance Approximation
Arvid E. Gollwitzer, Mohammed Alser, Joel Bergtholdt +5
Metagenomics, the study of genome sequences of diverse organisms cohabiting in a shared environment, has experienced significant advancements across various medical and biological…
SequenceLab: A Comprehensive Benchmark of Computational Methods for Comparing Genomic Sequences
Maximilian-David Rumpf, Mohammed Alser, Arvid E. Gollwitzer +5
Computational complexity is a key limitation of genomic analyses. Thus, over the last 30 years, researchers have proposed numerous fast heuristic methods that provide computational…
GenStore: A High-Performance and Energy-Efficient In-Storage Computing System for Genome Sequence Analysis
Nika Mansouri Ghiasi, Jisung Park, Harun Mustafa +11
Read mapping is a fundamental, yet computationally-expensive step in many genomics applications. It is used to identify potential matches and differences between fragments (called…