Harun Mustafa

SIB Swiss Institute of Bioinformatics — Switzerland

Biochemistry, Genetics and Molecular Biology · Life Sciences

13h-index1.3kcitations46works1.82yr avg
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Research Topics

Genomics and Phylogenetic Studies(28), Algorithms and Data Compression(22), Gene expression and cancer classification(13), RNA and protein synthesis mechanisms(6), Bacteriophages and microbial interactions(4)

Publications46 total

Rawsamble: Overlapping Raw Nanopore Signals using a Hash-based Seeding Mechanism
Bioinformatics·2026Open Access
Efficient and accurate search in petabase-scale sequence repositories
Nature·2025· 4 citedOpen Access
Prevalence and molecular characterization of methicillin-resistant Staphylococcus aureus (MRSA) in acute and chronic sinusitis
Molecular Biology Reports·2025
SAGe: A Lightweight Algorithm-Architecture Co-Design for Mitigating the Data Preparation Bottleneck in Large-Scale Genome Sequence Analysis
arXiv (Cornell University)·2025Open Access
Rawsamble: Overlapping and Assembling Raw Nanopore Signals using a Hash-based Seeding Mechanism
ArXiv.org·2024Open Access
MegIS: High-Performance, Energy-Efficient, and Low-Cost Metagenomic Analysis with In-Storage Processing
2024· 6 cited
Label-guided seed-chain-extend alignment on annotated De Bruijn graphs
Bioinformatics·2024· 3 citedOpen Access
MegIS: High-Performance, Energy-Efficient, and Low-Cost Metagenomic Analysis with In-Storage Processing
arXiv (Cornell University)·2024· 1 citedOpen Access
MetaStore: High-Performance Metagenomic Analysis via In-Storage Computing
arXiv (Cornell University)·2023Open Access
Aligning distant sequences to graphs using long seed sketches
Genome Research·2023· 10 citedOpen Access
Synthetic data for Aligning Distant Sequences to Graphs using Long Seed Sketches
Zenodo (CERN European Organization for Nuclear Research)·2023Open Access
Synthetic data for Aligning Distant Sequences to Graphs using Long Seed Sketches
Zenodo (CERN European Organization for Nuclear Research)·2023Open Access
Label-guided seed-chain-extend alignment on annotated De Bruijn graphs
2022Open Access
Aligning Distant Sequences to Graphs using Long Seed Sketches
2022· 2 citedOpen Access
GenStore: In-Storage Filtering of Genomic Data for High-Performance and Energy-Efficient Genome Analysis
2022· 2 cited
Biosynthetic potential of the global ocean microbiome
Nature·2022· 378 citedOpen Access
Lossless indexing with counting de Bruijn graphs
Genome Research·2022· 26 citedOpen Access
GenStore: a high-performance in-storage processing system for genome sequence analysis
2022· 62 cited
GenStore: A High-Performance and Energy-Efficient In-Storage Computing System for Genome Sequence Analysis
arXiv (Cornell University)·2022· 13 citedOpen Access
Lossless Indexing with Counting de Bruijn Graphs
Lecture notes in computer science·2022· 1 cited
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Frequent Co-authors

Gunnar Rätsch(29), André Kahles(28), Mikhail Karasikov(21), Nika Mansouri Ghiasi(10), Can Fırtına(8), Onur Mutlu(7), Amir Joudaki(7), Jisung Park(6), Arvid Gollwitzer(6), Haiyu Mao(6), Mohammed Alser(6), Joël Lindegger(5), Amanda Hui Qi Ng(4), Daniel Danciu(4), Alexandru Meterez(4), Ragnar Groot Koerkamp(4), Mohammad Sadrosadati(4), David Danko(3), Daniela Bezdan(3), Sofia Ahsanuddin(3)