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Barı Ekim
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Minimizer-space de Bruijn graphs: Whole-genome assembly of long reads in minutes on a personal computer
B Ekim, B Berger, R Chikhi
Cell Systems 12 (10), 958-968. e6, 2021
792021
The thermal modeling of deep-hole drilling process under MQL condition
AT Kuzu, KR Berenji, BC Ekim, M Bakkal
Journal of Manufacturing Processes 29, 194-203, 2017
312017
A randomized parallel algorithm for efficiently finding near-optimal universal hitting sets
B Ekim, B Berger, Y Orenstein
International Conference on Research in Computational Molecular Biology, 37-53, 2020
272020
The effect of chemical treatment methods on the outdoor performance of waste textile fiber-reinforced polymer composites
M Bakkal, MS Bodur, HE Sonmez, BC Ekim
Journal of Composite Materials 51 (14), 2009-2021, 2017
102017
Efficient mapping of accurate long reads in minimizer space with mapquik
B Ekim, K Sahlin, P Medvedev, B Berger, R Chikhi
Genome Research 33 (7), 1188-1197, 2023
62023
Efficient minimizer orders for large values of k using minimum decycling sets
D Pellow, L Pu, B Ekim, L Kotlar, B Berger, R Shamir, Y Orenstein
Genome Research 33 (7), 1154-1161, 2023
52023
mapquik: Efficient low-divergence mapping of long reads in minimizer space
B Ekim, K Sahlin, P Medvedev, B Berger, R Chikhi
bioRxiv, 2022.12. 23.521809, 2022
42022
Minimizer-space de Bruijn graphs
B Ekim, B Berger, R Chikhi
bioRxiv, 2021.06. 09.447586, 2021
22021
A novel entropy-based hierarchical clustering framework for ultrafast protein structure search and alignment
B Ekim
arXiv preprint arXiv:1701.01975, 2017
12017
Designing efficient randstrobes for sequence similarity analyses
M Karami, A Soltani Mohammadi, M Martin, B Ekim, W Shen, L Guo, M Xu, ...
Bioinformatics 40 (4), btae187, 2024
2024
Memory-efficient whole genome assembly of long reads
B Ekim, BB Leighton, R Chikhi
US Patent App. 17/903,654, 2023
2023
Scalable sketching and indexing algorithms for large biological datasets
BC Ekim
Massachusetts Institute of Technology, 2022
2022
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Articles 1–12