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ORCIDBertil Schmidt
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- affiliation: Johannes Gutenberg University Mainz, Germany
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2020 – today
- 2024
[j104]Felix Kallenborn
, Bertil Schmidt:
CAREx: context-aware read extension of paired-end sequencing data. BMC Bioinform. 25(1): 186 (2024)- [j103]Henrik Järleblad, Luke Stagner, Mirko Salewski, J. Eriksson, M. Nocente, Bertil Schmidt, M. Rud Larsen:
A framework for synthetic diagnostics using energetic-particle orbits in tokamaks. Comput. Phys. Commun. 294: 108930 (2024) - [c110]André Weißenberger, Bertil Schmidt:
Massively Parallel Inverse Block-sorting Transforms for bzip2 Decompression on GPUs. ICPP 2024: 856-865 - [c109]Mingkai Wang, Zekun Yin, Lifeng Yan, Yang Yang, Fangjin Zhu, Xiaohui Duan, Xin Li, Bertil Schmidt, Weiguo Liu:
RabbitTrim: Highly Optimized Trimming of Illumina Sequencing Data on Multi-core Platforms. ISBRA (2) 2024: 26-37 - [c108]Lifeng Yan, Zekun Yin, Jinjin Li, Yang Yang, Tong Zhang, Fangjin Zhu, Xiaohui Duan, Bertil Schmidt, Weiguo Liu:
RabbitSAlign: Accelerating Short-Read Alignment for CPU-GPU Heterogeneous Platforms. ISBRA (2) 2024: 83-94 - [c107]Stefan Niebler, Bertil Schmidt, Peter Spichtinger, Holger Tost:
Scalable GPU-Enabled Creation of Three Dimensional Weather Fronts. PASC 2024: 2:1-2:12 - 2023
- [j102]Xiaoming Xu, Zekun Yin, Lifeng Yan, Huiguang Yi, Hua Wang, Bertil Schmidt, Weiguo Liu:
RabbitKSSD: accelerating genome distance estimation on modern multi-core architectures. Bioinform. 39(10) (2023) - [j101]Thomas Kemmer, Sebastian Hack, Bertil Schmidt, Andreas Hildebrandt:
CUDA-accelerated protein electrostatics in linear space. J. Comput. Sci. 70: 102022 (2023) - [j100]Hao Zhang, Honglei Song, Xiaoming Xu, Qixin Chang, Mingkai Wang, Yanjie Wei, Zekun Yin, Bertil Schmidt, Weiguo Liu:
RabbitFX: Efficient Framework for FASTA/Q File Parsing on Modern Multi-Core Platforms. IEEE ACM Trans. Comput. Biol. Bioinform. 20(3): 2341-2348 (2023) - [j99]Xiaohui Duan, Qi Shao, Junben Weng, Bertil Schmidt, Lin Gan, Guohui Li, Haohuan Fu, Wei Xue, Weiguo Liu, Guangwen Yang:
Bio-ESMD: A Data Centric Implementation for Large-Scale Biological System Simulation on Sunway TaihuLight Supercomputer. IEEE Trans. Parallel Distributed Syst. 34(3): 881-893 (2023) - [j98]Ping Gao, Xiaohui Duan, Bertil Schmidt, Wubing Wan, Jiaxu Guo, Wusheng Zhang, Lin Gan, Haohuan Fu, Wei Xue, Weiguo Liu, Guangwen Yang:
Redesign and Accelerate the AIREBO Bond-Order Potential on the New Sunway Supercomputer. IEEE Trans. Parallel Distributed Syst. 34(12): 3117-3132 (2023) - [c106]Robin Kobus, Johannes Nelgen, Valentin Henkys, Bertil Schmidt:
Faster Segmented Sort on GPUs. Euro-Par 2023: 664-678 - [c105]Stefan Niebler, Bertil Schmidt, Holger Tost, Peter Spichtinger:
Automated Identification and Location of Three Dimensional Atmospheric Frontal Systems. ICCS (2) 2023: 3-17 - 2022
- [j97]Hao Zhang, Qixin Chang, Zekun Yin, Xiaoming Xu, Yanjie Wei, Bertil Schmidt, Weiguo Liu:
RabbitV: fast detection of viruses and microorganisms in sequencing data on multi-core architectures. Bioinform. 38(10): 2932-2933 (2022) - [j96]Felix Kallenborn, Julian Cascitti, Bertil Schmidt:
CARE 2.0: reducing false-positive sequencing error corrections using machine learning. BMC Bioinform. 23(1): 227 (2022) - [j95]Konstantin Bob, David Teschner, Thomas Kemmer, David Gomez-Zepeda, Stefan Tenzer, Bertil Schmidt, Andreas Hildebrandt:
Locality-sensitive hashing enables efficient and scalable signal classification in high-throughput mass spectrometry raw data. BMC Bioinform. 23(1): 287 (2022) - [j94]Julian Cascitti, Stefan Niebler, André Müller, Bertil Schmidt:
RNACache: A scalable approach to rapid transcriptomic read mapping using locality sensitive hashing. J. Comput. Sci. 60: 101572 (2022) - [j93]Kai Xu, Xiaohui Duan, André Müller, Robin Kobus, Bertil Schmidt, Weiguo Liu:
FMapper: Scalable read mapper based on succinct hash index on SunWay TaihuLight. J. Parallel Distributed Comput. 161: 72-82 (2022) - [j92]Daniel Jünger, Robin Kobus, André Müller, Christian Hundt, Kai Xu, Weiguo Liu, Bertil Schmidt:
General-purpose GPU hashing data structures and their application in accelerated genomics. J. Parallel Distributed Comput. 163: 256-268 (2022) - [j91]Ping Gao, Xiaohui Duan, Bertil Schmidt, Wusheng Zhang, Lin Gan, Haohuan Fu, Wei Xue, Weiguo Liu, Guangwen Yang:
Optimization of Reactive Force Field Simulation: Refactor, Parallelization, and Vectorization for Interactions. IEEE Trans. Parallel Distributed Syst. 33(2): 359-373 (2022) - [j90]Kai Xu, Jinxiao Zhang, Xiaohui Duan, Xiaobo Wan, Niu Huang, Bertil Schmidt, Weiguo Liu, Guangwen Yang:
Redesigning and Optimizing UCSF DOCK3.7 on Sunway TaihuLight. IEEE Trans. Parallel Distributed Syst. 33(10): 4458-4471 (2022) - [j89]Jintao Meng, Chen Zhuang, Peng Chen, Mohamed Wahib, Bertil Schmidt, Xiao Wang, Haidong Lan, Dou Wu, Minwen Deng, Yanjie Wei, Shengzhong Feng:
Automatic Generation of High-Performance Convolution Kernels on ARM CPUs for Deep Learning. IEEE Trans. Parallel Distributed Syst. 33(11): 2885-2899 (2022) - [c104]Lifeng Yan, Zekun Yin, Hao Zhang, Zhan Zhao, Mingkai Wang, André Müller, Robin Kobus, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu:
RabbitQCPlus: More Efficient Quality Control for Sequencing Data. BIBM 2022: 619-626 - [c103]André Müller, Bertil Schmidt, Richard Membarth, Roland Leißa, Sebastian Hack:
AnySeq/GPU: a novel approach for faster sequence alignment on GPUs. ICS 2022: 20:1-20:11 - [c102]Valentin Henkys, Bertil Schmidt, Niklaus Berger:
Online Event Selection for Mu3e using GPUs. ISPDC 2022: 17-24 - [i8]André Müller, Bertil Schmidt, Richard Membarth, Roland Leißa, Sebastian Hack:
AnySeq/GPU: A Novel Approach for Faster Sequence Alignment on GPUs. CoRR abs/2205.07610 (2022) - [i7]Valentin Henkys, Bertil Schmidt, Niklaus Berger:
Online Event Selection for Mu3e using GPUs. CoRR abs/2206.11535 (2022) - 2021
- [j88]Zekun Yin, Hao Zhang, Meiyang Liu, Wen Zhang, Honglei Song, Haidong Lan, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu:
RabbitQC: high-speed scalable quality control for sequencing data. Bioinform. 37(4): 573-574 (2021) - [j87]Zekun Yin, Xiaoming Xu, Jinxiao Zhang, Yanjie Wei, Bertil Schmidt, Weiguo Liu:
RabbitMash: accelerating hash-based genome analysis on modern multi-core architectures. Bioinform. 37(6): 873-875 (2021) - [j86]Felix Kallenborn, Andreas Hildebrandt, Bertil Schmidt:
CARE: context-aware sequencing read error correction. Bioinform. 37(7): 889-895 (2021) - [c101]André Weißenberger, Bertil Schmidt:
Accelerating JPEG Decompression on GPUs. HiPC 2021: 121-130 - [c100]Julian Cascitti, Stefan Niebler, André Müller, Bertil Schmidt:
RNACache: Fast Mapping of RNA-Seq Reads to Transcriptomes Using MinHashing. ICCS (1) 2021: 367-381 - [c99]Robin Kobus, André Müller, Daniel Jünger, Christian Hundt, Bertil Schmidt:
MetaCache-GPU: Ultra-Fast Metagenomic Classification. ICPP 2021: 25:1-25:11 - [i6]Robin Kobus, André Müller, Daniel Jünger, Christian Hundt, Bertil Schmidt:
MetaCache-GPU: Ultra-Fast Metagenomic Classification. CoRR abs/2106.08150 (2021) - [i5]André Weißenberger, Bertil Schmidt:
Accelerating JPEG Decompression on GPUs. CoRR abs/2111.09219 (2021) - 2020
- [j85]Robin Kobus, José Manuel Abuín, André Müller, Sören Lukas Hellmann, Juan Carlos Pichel, Tomás F. Pena, Andreas Hildebrandt, Thomas Hankeln, Bertil Schmidt:
A big data approach to metagenomics for all-food-sequencing. BMC Bioinform. 21(1): 102 (2020) - [j84]Stefan Niebler, André Müller, Thomas Hankeln, Bertil Schmidt:
RainDrop: Rapid activation matrix computation for droplet-based single-cell RNA-seq reads. BMC Bioinform. 21(1): 274 (2020) - [j83]Haidong Lan, Jintao Meng, Christian Hundt, Bertil Schmidt, Minwen Deng, Xiaoning Wang, Weiguo Liu, Yu Qiao, Shengzhong Feng:
FeatherCNN: Fast Inference Computation with TensorGEMM on ARM Architectures. IEEE Trans. Parallel Distributed Syst. 31(3): 580-594 (2020) - [j82]Ping Gao, Xiaohui Duan, Tingjian Zhang, Meng Zhang, Bertil Schmidt, Xun Zhang, Hongliang Sun, Wusheng Zhang, Lin Gan, Wei Xue, Haohuan Fu, Weiguo Liu, Guangwen Yang:
Millimeter-Scale and Billion-Atom Reactive Force Field Simulation on Sunway Taihulight. IEEE Trans. Parallel Distributed Syst. 31(12): 2954-2967 (2020) - [c98]Bertil Schmidt, Christian Hundt:
cuDTW++: Ultra-Fast Dynamic Time Warping on CUDA-Enabled GPUs. Euro-Par 2020: 597-612 - [c97]Daniel Jünger, Robin Kobus, André Müller, Christian Hundt, Kai Xu, Weiguo Liu, Bertil Schmidt:
WarpCore: A Library for fast Hash Tables on GPUs. HiPC 2020: 11-20 - [c96]Maicon Hieronymus, Bertil Schmidt, Sebastian Böser:
Reconstruction of Low Energy Neutrino Events with GPUs at IceCube. ICCS (1) 2020: 118-131 - [c95]Kai Xu, Xiaohui Duan, Xiangxu Meng, Xin Li, Bertil Schmidt, Weiguo Liu:
SWMapper: Scalable Read Mapper on SunWay TaihuLight. ICPP 2020: 28:1-28:10 - [c94]André Müller, Bertil Schmidt, Andreas Hildebrandt, Richard Membarth, Roland Leißa, Matthis Kruse, Sebastian Hack:
AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation. IPDPS 2020: 1030-1040 - [c93]Xiaohui Duan, Ping Gao, Meng Zhang, Tingjian Zhang, Hongsong Meng, Yuxuan Li, Bertil Schmidt, Haohuan Fu, Lin Gan, Wei Xue, Guangwen Yang, Weiguo Liu:
Neighbor-list-free molecular dynamics on sunway TaihuLight supercomputer. PPoPP 2020: 413-414 - [c92]Xiaohui Duan, Ping Gao, Meng Zhang, Tingjian Zhang, Hongsong Meng, Yuxuan Li, Bertil Schmidt, Haohuan Fu, Lin Gan, Wei Xue, Weiguo Liu, Guangwen Yang:
Cell-list based molecular dynamics on many-core processors: a case study on sunway TaihuLight supercomputer. SC 2020: 22 - [i4]André Müller, Bertil Schmidt, Andreas Hildebrandt, Richard Membarth, Roland Leißa, Matthis Kruse, Sebastian Hack:
AnySeq: A High Performance Sequence Alignment Library based on Partial Evaluation. CoRR abs/2002.04561 (2020) - [i3]Daniel Jünger, Robin Kobus, André Müller, Christian Hundt, Kai Xu, Weiguo Liu, Bertil Schmidt:
WarpCore: A Library for fast Hash Tables on GPUs. CoRR abs/2009.07914 (2020)
2010 – 2019
- 2019
- [j81]Jikai Zhang, Haidong Lan, Yuandong Chan, Yuan Shang, Bertil Schmidt, Weiguo Liu:
BGSA: a bit-parallel global sequence alignment toolkit for multi-core and many-core architectures. Bioinform. 35(13): 2306-2308 (2019) - [j80]Peng Jiang, Jie Luo, Yiqi Wang, Pingji Deng, Bertil Schmidt, Xiangjun Tang, Ningjiang Chen, Limsoon Wong, Liang Zhao:
kmcEx: memory-frugal and retrieval-efficient encoding of counted k-mers. Bioinform. 35(23): 4871-4878 (2019) - [j79]Felix Kallenborn, Christian Hundt, Sebastian Böser, Bertil Schmidt:
Massively parallel computation of atmospheric neutrino oscillations on CUDA-enabled accelerators. Comput. Phys. Commun. 234: 235-244 (2019) - [c91]Zekun Yin, Tianyu Zhang, André Müller, Hui Liu, Yanjie Wei, Bertil Schmidt, Weiguo Liu:
Efficient Parallel Sort on AVX-512-Based Multi-Core and Many-Core Architectures. HPCC/SmartCity/DSS 2019: 168-176 - [c90]Zekun Yin, Hao Zhang, Kai Xu, Yuandong Chan, Shaoliang Peng, Xiaoning Wang, Bertil Schmidt, Weiguo Liu:
XLCS: A New Bit-Parallel Longest Common Subsequence Algorithm on Xeon Phi Clusters. HPCC/SmartCity/DSS 2019: 1477-1483 - [c89]Florian Büren, Daniel Jünger, Robin Kobus, Christian Hundt, Bertil Schmidt:
Suffix Array Construction on Multi-GPU Systems. HPDC 2019: 183-194 - [c88]Robin Kobus, Daniel Jünger, Christian Hundt, Bertil Schmidt:
Gossip: Efficient Communication Primitives for Multi-GPU Systems. ICPP 2019: 63:1-63:10 - [c87]André Weißenberger, Bertil Schmidt:
Massively Parallel ANS Decoding on GPUs. ICPP 2019: 100:1-100:10 - [r1]Bertil Schmidt, Andreas Hildebrandt:
Dedicated Bioinformatics Analysis Hardware. Encyclopedia of Bioinformatics and Computational Biology (2) 2019: 1142-1150 - 2018
- [j78]Haowen Zhang, Yuandong Chan, Kaichao Fan, Bertil Schmidt, Weiguo Liu:
Fast and efficient short read mapping based on a succinct hash index. BMC Bioinform. 19(1): 92:1-92:14 (2018) - [j77]Jorge González-Domínguez, Christian Hundt, Bertil Schmidt:
parSRA: A framework for the parallel execution of short read aligners on compute clusters. J. Comput. Sci. 25: 134-139 (2018) - [j76]Roland Leißa, Klaas Boesche, Sebastian Hack, Arsène Pérard-Gayot, Richard Membarth, Philipp Slusallek, André Müller, Bertil Schmidt:
AnyDSL: a partial evaluation framework for programming high-performance libraries. Proc. ACM Program. Lang. 2(OOPSLA): 119:1-119:30 (2018) - [j75]Yongchao Liu, Bertil Schmidt:
LightSpMV: Faster CUDA-Compatible Sparse Matrix-Vector Multiplication Using Compressed Sparse Rows. J. Signal Process. Syst. 90(1): 69-86 (2018) - [c86]Robin Kobus, Adrian Lamoth, André Müller, Christian Hundt, Stefan Kramer, Bertil Schmidt:
cuBool: Bit-Parallel Boolean Matrix Factorization on CUDA-Enabled Accelerators. ICPADS 2018: 465-472 - [c85]André Weißenberger, Bertil Schmidt:
Massively Parallel Huffman Decoding on GPUs. ICPP 2018: 27:1-27:10 - [c84]Kai Xu, Robin Kobus, Yuandong Chan, Ping Gao, Xiangxu Meng, Yanjie Wei, Bertil Schmidt, Weiguo Liu:
SPECTR: Scalable Parallel Short Read Error Correction on Multi-core and Many-core Architectures. ICPP 2018: 39:1-39:10 - [c83]Daniel Jünger, Christian Hundt, Bertil Schmidt:
WarpDrive: Massively Parallel Hashing on Multi-GPU Nodes. IPDPS 2018: 441-450 - 2017
- [j74]Yongchao Liu, Fabian Ripp, Rene Koeppel, Hanno Schmidt, Sören Lukas Hellmann, Mathias Weber, Christopher Felix Krombholz, Bertil Schmidt, Thomas Hankeln:
AFS: identification and quantification of species composition by metagenomic sequencing. Bioinform. 33(9): 1396-1398 (2017) - [j73]André Müller, Christian Hundt, Andreas Hildebrandt, Thomas Hankeln, Bertil Schmidt:
MetaCache: context-aware classification of metagenomic reads using minhashing. Bioinform. 33(23): 3740-3748 (2017) - [j72]Robin Kobus, Christian Hundt, André Müller, Bertil Schmidt:
Accelerating metagenomic read classification on CUDA-enabled GPUs. BMC Bioinform. 18(1): 11:1-11:10 (2017) - [j71]Jan Schröder, Adrianto Wirawan, Bertil Schmidt, Anthony T. Papenfuss:
CLOVE: classification of genomic fusions into structural variation events. BMC Bioinform. 18(1): 346 (2017) - [j70]Daniel Jünger, Christian Hundt, Jorge González-Domínguez, Bertil Schmidt:
Speed and accuracy improvement of higher-order epistasis detection on CUDA-enabled GPUs. Clust. Comput. 20(3): 1899-1908 (2017) - [j69]Christian Hundt, Moritz Schlarb, Bertil Schmidt:
SAUCE: A web application for interactive teaching and learning of parallel programming. J. Parallel Distributed Comput. 105: 163-173 (2017) - [j68]Shuai Zhang, Zhao Wang, Ying Peng, Bertil Schmidt, Weiguo Liu:
Mapping of option pricing algorithms onto heterogeneous many-core architectures. J. Supercomput. 73(9): 3715-3737 (2017) - [c82]Shaoliang Peng, Xiaoyu Zhang, Shunyun Yang, Wenhe Su, Zhiqiang Zhang, Dong Dong, Kai Lu, Yutong Lu, Xiangke Liao, Bertil Schmidt, Weiliang Zhu, Kuan-Ching Li:
mD3DOCKxb: An Ultra-Scalable CPU-MIC Coordinated Virtual Screening Framework. CCGrid 2017: 671-676 - [c81]Xiaohui Duan, Kai Xu, Yuandong Chan, Christian Hundt, Bertil Schmidt, Pavan Balaji, Weiguo Liu:
S-Aligner: Ultrascalable Read Mapping on Sunway Taihu Light. CLUSTER 2017: 36-46 - [c80]Haidong Lan, Weiguo Liu, Yongchao Liu, Bertil Schmidt:
SWhybrid: A Hybrid-Parallel Framework for Large-Scale Protein Sequence Database Search. IPDPS 2017: 42-51 - [c79]Yuandong Chan, Kai Xu, Haidong Lan, Weiguo Liu, Yongchao Liu, Bertil Schmidt:
PUNAS: A Parallel Ungapped-Alignment-Featured Seed Verification Algorithm for Next-Generation Sequencing Read Alignment. IPDPS 2017: 52-61 - [p2]Yongchao Liu, Bertil Schmidt:
CUSHAW Suite: Parallel and Efficient Algorithms for NGS Read Alignment. Algorithms for Next-Generation Sequencing Data 2017: 203-233 - [i2]Hinrich B. Winther, Christian Hundt, Bertil Schmidt, Christoph Czerner, Johann Bauersachs, Frank K. Wacker, Jens Vogel-Claussen:
$ν$-net: Deep Learning for Generalized Biventricular Cardiac Mass and Function Parameters. CoRR abs/1706.04397 (2017) - 2016
- [j67]Jorge González-Domínguez, Bertil Schmidt:
ParDRe: faster parallel duplicated reads removal tool for sequencing studies. Bioinform. 32(10): 1562-1564 (2016) - [j66]Jorge González-Domínguez, Yongchao Liu, Juan Touriño, Bertil Schmidt:
MSAProbs-MPI: parallel multiple sequence aligner for distributed-memory systems. Bioinform. 32(24): 3826-3828 (2016) - [j65]Haidong Lan, Yuandong Chan, Kai Xu, Bertil Schmidt, Shaoliang Peng, Weiguo Liu:
Parallel algorithms for large-scale biological sequence alignment on Xeon-Phi based clusters. BMC Bioinform. 17(S-9): 267 (2016) - [j64]Christian Hundt, Andreas Hildebrandt, Bertil Schmidt:
rapidGSEA: Speeding up gene set enrichment analysis on multi-core CPUs and CUDA-enabled GPUs. BMC Bioinform. 17: 394 (2016) - [j63]Yongchao Liu, Martin Loewer, Srinivas Aluru, Bertil Schmidt:
SNVSniffer: an integrated caller for germline and somatic single-nucleotide and indel mutations. BMC Syst. Biol. 10(S-2): 47 (2016) - [j62]Hoang-Vu Dang, Bertil Schmidt, Andreas Hildebrandt, Tuan Tu Tran, Anna Katharina Hildebrandt:
CUDA-enabled hierarchical ward clustering of protein structures based on the nearest neighbour chain algorithm. Int. J. High Perform. Comput. Appl. 30(2): 200-211 (2016) - [j61]Tuan Tu Tran, Yongchao Liu, Bertil Schmidt:
Bit-parallel approximate pattern matching: Kepler GPU versus Xeon Phi. Parallel Comput. 54: 128-138 (2016) - [j60]Yongchao Liu, Thomas Hankeln, Bertil Schmidt:
Parallel and Space-Efficient Construction of Burrows-Wheeler Transform and Suffix Array for Big Genome Data. IEEE ACM Trans. Comput. Biol. Bioinform. 13(3): 592-598 (2016) - [j59]Junming Shao, Qinli Yang, Hoang-Vu Dang, Bertil Schmidt, Stefan Kramer:
Scalable Clustering by Iterative Partitioning and Point Attractor Representation. ACM Trans. Knowl. Discov. Data 11(1): 5:1-5:23 (2016) - [j58]Jorge González-Domínguez, Sabela Ramos, Juan Touriño, Bertil Schmidt:
Parallel Pairwise Epistasis Detection on Heterogeneous Computing Architectures. IEEE Trans. Parallel Distributed Syst. 27(8): 2329-2340 (2016) - [c78]Jan Christian Kässens, Lars Wienbrandt, Manfred Schimmler, Jorge González-Domínguez, Bertil Schmidt:
Combining GPU and FPGA technology for efficient exhaustive interaction analysis in GWAS. ASAP 2016: 170-175 - [c77]Daniel Jünger, Christian Hundt, Jorge González-Domínguez, Bertil Schmidt:
Ultra-Fast Detection of Higher-Order Epistatic Interactions on GPUs. Euro-Par Workshops 2016: 421-432 - 2015
- [j57]Yongchao Liu, Bertil Schmidt:
GSWABE: faster GPU-accelerated sequence alignment with optimal alignment retrieval for short DNA sequences. Concurr. Comput. Pract. Exp. 27(4): 958-972 (2015) - [j56]Jorge González-Domínguez, Jan Christian Kässens, Lars Wienbrandt, Bertil Schmidt:
Large-scale genome-wide association studies on a GPU cluster using a CUDA-accelerated PGAS programming model. Int. J. High Perform. Comput. Appl. 29(4): 506-510 (2015) - [j55]Jorge González-Domínguez, Bertil Schmidt:
GPU-accelerated exhaustive search for third-order epistatic interactions in case-control studies. J. Comput. Sci. 8: 93-100 (2015) - [j54]Jan Christian Kässens, Lars Wienbrandt, Jorge González-Domínguez, Bertil Schmidt, Manfred Schimmler:
High-speed exhaustive 3-locus interaction epistasis analysis on FPGAs. J. Comput. Sci. 9: 131-136 (2015) - [j53]Juan Antonio Gómez Pulido, Bertil Schmidt, Wu-chun Feng:
Accelerating Bioinformatics Applications via Emerging Parallel Computing Systems. IEEE ACM Trans. Comput. Biol. Bioinform. 12(5): 971-972 (2015) - [j52]Jorge González-Domínguez, Lars Wienbrandt, Jan Christian Kässens, David Ellinghaus, Manfred Schimmler, Bertil Schmidt:
Parallelizing Epistasis Detection in GWAS on FPGA and GPU-Accelerated Computing Systems. IEEE ACM Trans. Comput. Biol. Bioinform. 12(5): 982-994 (2015) - [j51]Thuy-Diem Nguyen, Bertil Schmidt, Zejun Zheng, Chee-Keong Kwoh:
Efficient and Accurate OTU Clustering with GPU-Based Sequence Alignment and Dynamic Dendrogram Cutting. IEEE ACM Trans. Comput. Biol. Bioinform. 12(5): 1060-1073 (2015) - [c76]Yongchao Liu, Bertil Schmidt:
LightSpMV: Faster CSR-based sparse matrix-vector multiplication on CUDA-enabled GPUs. ASAP 2015: 82-89 - [c75]Yongchao Liu, Martin Loewer, Srinivas Aluru, Bertil Schmidt:
SNVSniffer: An integrated caller for germline and somatic SNVs based on Bayesian models. BIBM 2015: 83-90 - [c74]Haidong Lan, Weiguo Liu, Bertil Schmidt, Bingqiang Wang:
Accelerating large-scale biological database search on Xeon Phi-based neo-heterogeneous architectures. BIBM 2015: 503-510 - [c73]Moritz Schlarb, Christian Hundt, Bertil Schmidt:
SAUCE: A Web-Based Automated Assessment Tool for Teaching Parallel Programming. Euro-Par Workshops 2015: 54-65 - 2014
- [j50]Adrianto Wirawan, Robert S. Harris, Yongchao Liu, Bertil Schmidt, Jan Schröder:
HECTOR: a parallel multistage homopolymer spectrum based error corrector for 454 sequencing data. BMC Bioinform. 15: 131 (2014) - [j49]Yongchao Liu, Bertil Schmidt:
CUSHAW2-GPU: Empowering Faster Gapped Short-Read Alignment Using GPU Computing. IEEE Des. Test 31(1): 31-39 (2014) - [c72]Yongchao Liu, Bertil Schmidt:
SWAPHI: Smith-waterman protein database search on Xeon Phi coprocessors. ASAP 2014: 184-185 - [c71]Thuy-Diem Nguyen, Bertil Schmidt, Chee-Keong Kwoh:
Fast dendrogram-based OTU clustering using sequence embedding. BCB 2014: 63-72 - [c70]