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 | 97 | 2021 |
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 | 34 | 2020 |
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 | 32 | 2017 |
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 | 13 | 2017 |
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 | 12 | 2023 |
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 | 10 | 2023 |
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 | 4 | 2022 |
Minimizer-space de Bruijn graphs B Ekim, B Berger, R Chikhi bioRxiv, 2021.06. 09.447586, 2021 | 3 | 2021 |
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 | 2 | 2024 |
A novel entropy-based hierarchical clustering framework for ultrafast protein structure search and alignment B Ekim arXiv preprint arXiv:1701.01975, 2017 | 1 | 2017 |
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 |