Author

Tuna Okcu

Bilkent UniversityORCID 0009-0004-1294-6562Unclaimed ORCID profile · follow to get notified of new preprints

Biology Disciplines

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Signature Assays, Organisms & Methods

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Approach:statistical model· 2 Research Focus:benchmarking· 1 Assay:bulk RNA-seq· 1 Approach:deep learning· 1 Research Focus:variant calling· 1 Assay:whole-genome sequencing· 1

Frequent Co-Authors

Can AlkaniD· 2 shared Alex A. T. BuiiD· 1 shared Antoine LimassetiD· 1 shared Dhrithi DeshpandeiD· 1 shared Dumitru CiorbăiD· 1 shared Ecem İlgüniD· 1 shared Elisha MyoungiD· 1 shared Karishma ChhuganiiD· 1 shared

Activity by Year

2025-2026 · peak 1/yr

Co-Author Collaboration Network

10 top collaborators · 37 mutual co-author links

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2 shared papersBioinformatics

Can AlkanORCID

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2 papers

Recent·Most cited

BioinformaticsbioRxivPreprintNov 6, 2026

Toward space-optimal approximate colored indexes at scale

Tuna Okcu, Can Alkan, Antoine Limasset

This paper introduces Zindex, a space-efficient indexing framework for large-scale sequence repositories, achieving compact storage and fast query performance with novel interleaved filters and merging mechanisms.

DOI 10.64898/2026.11.05.764633

whole-genome sequencingdeep learning

𝕏 PostBluesky

BioinformaticsbioRxivPreprintSep 5, 2025

Robust software development practices improve citations of RNA-seq tools

S T Bahade A S Lanje and S J Sharma S T Bahade A S Lanje and S J Sharma, Ecem İlgün, Tuna Okcu…·Serghei Mangul

This study shows that better software development practices for RNA-seq tools lead to more citations, as evidenced by a strong statistical association between development quality and citation counts.

DOI 10.1101/2025.09.05.674580

bulk RNA-seqstatistical model

𝕏 PostBluesky