Nikolaos Alachiotis

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Alexandros StamatakisHeidelberg Institute for Theoretical Studies and Karlsruhe Institute of TechnologyVerified email at h-its.org
Pavlos PavlidisFoundation of Research and Technology - Hellas (ICS)Verified email at ics.forth.gr
Simon A BergerHeidelberg Institute for Theoretical Studies (HITS gGmbH)Verified email at h-its.org
Dionisios PnevmatikatosProfessor of ECE, National Technical University of AthensVerified email at cslab.ece.ntua.gr
Tze Meng LowCarnegie Mellon UniversityVerified email at andrew.cmu.edu
Dimitris TheodoropoulosAffiliated post-doc researcher, Telecommunication Systems Institute, Technical University of CreteVerified email at isc.tuc.gr
Apostolos DollasProfessor of ECE, Technical University of Crete, Research Associate, ICS-FORTHVerified email at isc.tuc.gr
Berkin AkinGoogleVerified email at google.com
James C. HoeProfessor of Electrical and Computer Engineering, Carnegie Mellon UniversityVerified email at cmu.edu
Lawrence PileggiTanoto Professor and Head of ECE, Carnegie Mellon UniversityVerified email at andrew.cmu.edu
Franz FranchettiCarnegie Mellon UniversityVerified email at ece.cmu.edu
Euripides SotiriadesTechnical University of CreteVerified email at mhl.tuc.gr
Dimitris SyrivelisSenior Engineer at NvidiaVerified email at nvidia.com
Andrea Reale, Ph.D.Amazon Web ServicesVerified email at amazon.com
Tomas FlouriUniversity College LondonVerified email at ucl.ac.uk
Fazle SadiIntel FederalVerified email at alumni.cmu.edu
Duo Xu (Erica)Research associate, Weill Cornell Medical CollegeVerified email at med.cornell.edu
Ran BlekhmanAssociate Professor, University of MinnesotaVerified email at umn.edu
Stefan RuhlProfessor of Oral Biology, SUNY BuffaloVerified email at buffalo.edu
Michael DeGiorgioAssociate Professor, Florida Atlantic UniversityVerified email at fau.edu

Nikolaos Alachiotis

University of Twente

Verified email at utwente.nl

High Performance Computing FPGAs GPUs Bioinformatics


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SweeD: Likelihood-based detection of selective sweeps in thousands of genomes P Pavlidis, D Živković, A Stamatakis, N Alachiotis Molecular Biology and Evolution, 2013	246	2013
Time and memory efficient likelihood-based tree searches on phylogenomic alignments with missing data A Stamatakis, N Alachiotis Bioinformatics 26 (12), i132-i139, 2010	123	2010
3D-Stacked Memory-Side Acceleration: Accelerator and System Design Q Guo, N Alachiotis, B Akin, F Sadi, G Xu, TM Low, L Pileggi, JC Hoe, ... 2nd Workshop on Near Data Processing (WONDP) in conjunction with the 47th …, 2014	99*	2014
Efficient PC-FPGA Communication over Gigabit Ethernet N Alachiotis, SA Berger, A Stamatakis Computer and Information Technology (CIT), 2010 IEEE 10th International …, 2010	99	2010
OmegaPlus: a scalable tool for rapid detection of selective sweeps in whole-genome datasets N Alachiotis, A Stamatakis, P Pavlidis Bioinformatics 28 (17), 2274-2275, 2012	90	2012
A survey of methods and tools to detect recent and strong positive selection P Pavlidis, N Alachiotis Journal of Biological Research-Thessaloniki 24 (1), 7, 2017	70	2017
Archaic Hominin Introgression in Africa Contributes to Functional Salivary MUC7 Genetic Variation D Xu, P Pavlidis, RO Taskent, N Alachiotis, C Flanagan, M DeGiorgio, ... Molecular Biology and Evolution 34 (10), 2704-2715, 2017	54	2017
Exploring FPGAs for accelerating the phylogenetic likelihood function N Alachiotis, E Sotiriades, A Dollas, A Stamatakis 2009 IEEE International Symposium on Parallel & Distributed Processing, 1-8, 2009	54	2009
RAiSD detects positive selection based on multiple signatures of a selective sweep and SNP vectors N Alachiotis, P Pavlidis Communications Biology 1 (1), 79, 2018	40	2018
Efficient floating-point logarithm unit for FPGAs N Alachiotis, A Stamatakis 2010 IEEE International Symposium on Parallel & Distributed Processing …, 2010	29	2010
A reconfigurable architecture for the phylogenetic likelihood function N Alachiotis, A Stamatakis, E Sotiriades, A Dollas Field Programmable Logic and Applications, 2009. FPL 2009. International …, 2009	27	2009
A versatile UDP/IP based PC↔ FPGA communication platform N Alachiotis, SA Berger, A Stamatakis 2012 International Conference on Reconfigurable Computing and FPGAs, 1-6, 2012	25	2012
FPGA acceleration of the phylogenetic parsimony kernel? N Alachiotis, A Stamatakis 2011 21st International Conference on Field Programmable Logic and …, 2011	23	2011
dReDBox: Materializing a full-stack rack-scale system prototype of a next-generation disaggregated datacenter M Bielski, I Syrigos, K Katrinis, D Syrivelis, A Reale, D Theodoropoulos, ... 2018 Design, Automation & Test in Europe Conference & Exhibition (DATE …, 2018	20	2018
Coupling SIMD and SIMT Architectures to Boost Performance of a Phylogeny-aware Alignment Kernel N Alachiotis, SA Berger, A Stamatakis BMC Bioinformatics, 2012	20	2012
Accelerating phylogeny-aware short DNA read alignment with FPGAs N Alachiotis, SA Berger, A Stamatakis 2011 IEEE 19th Annual International Symposium on Field-Programmable Custom …, 2011	17	2011
A generic vectorization scheme and a gpu kernel for the phylogenetic likelihood library F Izquierdo-Carrasco, N Alachiotis, S Berger, T Flouri, SP Pissis, ... 2013 IEEE International Symposium on Parallel & Distributed Processing …, 2013	16	2013
Scalable linkage-disequilibrium-based selective sweep detection: a performance guide N Alachiotis, P Pavlidis GigaScience 5 (1), s13742-016-0114-9, 2016	14	2016
Exploiting multi-grain parallelism for efficient selective sweep detection N Alachiotis, P Pavlidis, A Stamatakis International Conference on Algorithms and Architectures for Parallel …, 2012	11	2012
An optimized reconfigurable system for computing the phylogenetic likelihood function on dna data SA Berger, N Alachiotis, A Stamatakis 2012 IEEE 26th International Parallel and Distributed Processing Symposium …, 2012	10*	2012

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