Ernst Houtgast

PhD student at the Computer Engineering Group of the Faculty of Engineering, Mathematics and Computer Science (EEMCS/EWI), Delft University of Technology.



Publications Ernst Houtgast

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  1. E.J. Houtgast, V.M. Sima, K.L.M. Bertels, Z. Al-Ars, Hardware Acceleration of BWA-MEM Genomic Short Read Mapping for Longer Read Lengths1701_hardware_acceleration_of_bwamem_genomic_short_read_mapping.pdf (August 2018), Computational Biology and Chemistry (Comput. Biol. Chem) , volume 75 [Journal Paper]
  2. 2017

  3. E.J. Houtgast, V.M. Sima, Z. Al-Ars, High Performance Streaming Smith-Waterman Implementation with Implicit Synchronization on Intel FPGA using OpenCL1644_high_performance_streaming_smithwaterman_implementation_wi.pdf (October 2017), 17th annual IEEE International Conference on BioInformatics and BioEngineering (BIBE 2017), 23-25 October 2017, Washington DC, USA, full paper [Conference Paper]
  4. 2016

  5. E.J. Houtgast, V.M. Sima, G. Marchiori, K.L.M. Bertels, Z. Al-Ars, Power-Efficiency Analysis of Accelerated BWA-MEM Implementations on Heterogeneous Computing Platforms1549_powerefficiency_analysis_of_accelerated_bwamem_implementa.pdf (December 2016), International Conference on Reconfigurable Computing and FPGAs (ReConFig 2016), 30 November - 2 December 2016, Cancun, Mexico, full paper [Conference Paper]
  6. E.J. Houtgast, V.M. Sima, K.L.M. Bertels, Z. Al-Ars, An Efficient GPU-Accelerated Implementation of Genomic Short Read Mapping with BWA-MEM1536_an_efficient_gpuaccelerated_implementation_of_genomic_shor.pdf (July 2016), International Symposium on Highly-Efficient Accelerators and Reconfigurable Technologies (HEART 2016), 25-27 July 2016, Hong Kong, China, full paper [Conference Paper]
  7. E.J. Houtgast, V.M. Sima, K.L.M. Bertels, Z. Al-Ars, Computational Challenges of Next Generation Sequencing Pipelines Using Heterogeneous Systems1535_computational_challenges_of_next_generation_sequencing_pipe.pdf (July 2016), 12th International Summer School on Advanced Computer Architecture and Compilation for High-Performance and Embedded Systems (ACACES 2016), 10-16 July 2016, Fiuggi, Italy, abstract only [Conference Proceedings]
  8. E.J. Houtgast, V.M. Sima, G. Marchiori, K.L.M. Bertels, Z. Al-Ars, Power-Efficient Accelerated Genomic Short Read Mapping on Heterogeneous Computing Platforms1531_powerefficient_accelerated_genomic_short_read_mapping_on_h.pdf (May 2016), 24th IEEE International Symposium on Field-Programmable Custom Computing Machines (FCCM 2016), 1-3 May 2016, Washington DC, USA, abstract only [Conference Paper]
  9. E.J. Houtgast, V.M. Sima, K.L.M. Bertels, Z. Al-Ars, GPU-Accelerated BWA-MEM Genomic Mapping Algorithm Using Adaptive Load Balancing1520_gpuaccelerated_bwamem_genomic_mapping_algorithm_using_ada.pdf (April 2016), 29th International Conference on Architecture of Computing Systems (ARCS 2016), 4-7 April 2016, Nuremberg, Germany [Conference Paper]
  10. 2015

  11. N. Ahmed, V.M. Sima, E.J. Houtgast, K.L.M. Bertels, Z. Al-Ars, Heterogeneous Hardware/Software Acceleration of the BWA-MEM DNA Alignment Algorithm1500_heterogeneous_hardwaresoftware_acceleration_of_the_bwamem.pdf (November 2015), International Conference On Computer Aided Design (ICCAD 2015), 2-6 November 2015, Austin, USA [Conference Paper]
  12. E.J. Houtgast, V.M. Sima, K.L.M. Bertels, Z. Al-Ars, An FPGA-Based Systolic Array to Accelerate the BWA-MEM Genomic Mapping Algorithm1499_an_fpgabased_systolic_array_to_accelerate_the_bwamem_geno.pdf (September 2015), International Conference On Embedded Computer Systems: Architectures, Modeling, And Simulation (SAMOS XV (2015)), 20-23 July 2015, Samos, Greece [Conference Paper]
  13. 2011

  14. S. Isaza Ramirez, E.J. Houtgast, G.N. Gaydadjiev, HMMER Performance Model for Multicore Architectures17_hmmer_performance_model_for_multicore_architectures.pdf (September 2011), 14th Euromicro Conference On Digital System Design (DSD 2011), 31 August - 2 September 2011, Oulu, Finland [Conference Paper]
  15. S. Isaza Ramirez, E.J. Houtgast, G.N. Gaydadjiev, Sequence Alignment Application Model for Multi- and Manycore Architectures6_sequence_alignment_application_model_for_multi_and_manycore_a.pdf (September 2011), International Journal of Information and Computer Security (IJICS) , volume 4, issue 3 [Journal Paper]
  16. S. Isaza Ramirez, E.J. Houtgast, F. Sanchez, A. Ramirez, G.N. Gaydadjiev, Scaling HMMER Performance on Multicore Architectures51_scaling_hmmer_performance_on_multicore_architectures.pdf (July 2011), IEEE International Workshop on Multicore Computing Systems (MuCoCoS 2011), 1 July 2011, Seoul, Korea [Conference Paper]
  17. 2009

  18. E.J. Houtgast, Scalability of Bioinformatics Applications for Multicore Architectures388_scalability_of_bioinformatics_applications_for_multicore_arc.pdf (November 2009), [Msc Thesis]