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Bioinformatics (Oxford, England)|January 12, 2015
Shifted Hamming distance: a fast and accurate SIMD-friendly filter to accelerate alignment verification in read mappingHongyi Xin, John Greth, John Emmons, et al.
Nature Protocols|April 2, 2024
Packaging and containerization of computational methodsMohammed Alser, Brendan Lawlor, Richard J Abdill, et al.
Bioinformatics (Oxford, England)|August 17, 2022
FastRemap: a tool for quickly remapping reads between genome assembliesJeremie S Kim, Can Firtina, Meryem Banu Cavlak, et al.
Bioinformatics (Oxford, England)|November 17, 2015
Optimal seed solver: optimizing seed selection in read mappingHongyi Xin, Sunny Nahar, Richard Zhu, et al.
Computer Methods and Programs in Biomedicine|April 14, 2020
Accelerating B-spline interpolation on GPUs: Application to medical image registrationOrestis Zachariadis, Andrea Teatini, Nitin Satpute, et al.
Bioinformatics (Oxford, England)|June 30, 2023
RawHash: enabling fast and accurate real-time analysis of raw nanopore signals for large genomesCan Firtina, Nika Mansouri Ghiasi, Joel Lindegger, et al.
Computers in Biology and Medicine|February 1, 2023
How does hemodynamics affect rupture tissue mechanics in abdominal aortic aneurysm: Focus on wall shear stress derived parameters, time-averaged wall shear stress, oscillatory shear index, endothelial cell activation potential, and relative residence timeOnur Mutlu, Huseyin Enes Salman, Hassan Al-Thani, et al.
Bioinformatics (Oxford, England)|October 21, 2024
BIMSA: accelerating long sequence alignment using processing-in-memoryAlejandro Alonso-Marín, Ivan Fernandez, Quim Aguado-Puig, et al.
Methods and Protocols|November 24, 2025
Oscillatory Disturbed Flow Enhances Inflammatory and Oxidative Stress Markers in Endothelial CellsMaram Hasan, Onur Mutlu, Munshi Sajidul Islam, et al.
Journal of Clinical Medicine|February 13, 2025
Finite Element Analysis of Evolut Transcatheter Heart Valves: Effects of Aortic Geometries and Valve Sizes on Post-TAVI Wall Stresses and DeformationsOnur Mutlu, Noaman Mazhar, Murat Saribay, et al.
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