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Publication years (Num. hits)
1996-2006 (21) 2007-2009 (15) 2010-2014 (15) 2015-2023 (6)
Publication types (Num. hits)
article(16) incollection(1) inproceedings(40)
Venues (Conferences, Journals, ...)
Bioinform.(4) IPDPS(4) BMC Bioinform.(3) Nucleic Acids Res.(3) BIBE(2) IPDPS Workshops(2) SAC(2) SC(2) AINA (1)(1) AINA (2)(1) ASAP(1) BCB(1) BSB(1) CISIS(1) DATE(1) DSD(1) More (+10 of total 43)
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The graphs summarize 42 occurrences of 33 keywords

Results
Found 57 publication records. Showing 57 according to the selection in the facets
Hits ? Authors Title Venue Year Link Author keywords
162John Paul Walters, Rohan Darole, Vipin Chaudhary Improving MPI-HMMER's scalability with parallel I/O. Search on Bibsonomy IPDPS The full citation details ... 2009 DBLP  DOI  BibTeX  RDF
112Yanteng Sun, Peng Li 0031, Guochang Gu, Yuan Wen, Yuan Liu, Dong Liu HMMer acceleration using systolic array based reconfigurable architecture. Search on Bibsonomy FPGA The full citation details ... 2009 DBLP  DOI  BibTeX  RDF reconfigurable., systolic array, acceleration, hmmer
104Bhanu Rekapalli, Christian Halloy, Igor B. Zhulin HSP-HMMER: a tool for protein domain identification on a large scale. Search on Bibsonomy SAC The full citation details ... 2009 DBLP  DOI  BibTeX  RDF
104Jizhu Lu, Michael Perrone, Kursad Albayraktaroglu, Manoj Franklin HMMer-Cell: High Performance Protein Profile Searching on the Cell/B.E. Processor. Search on Bibsonomy ISPASS The full citation details ... 2008 DBLP  DOI  BibTeX  RDF
92John Paul Walters, Xiandong Meng, Vipin Chaudhary, Timothy F. Oliver, Leow Yuan Yeow, Bertil Schmidt, Darran Nathan, Joseph I. Landman MPI-HMMER-Boost: Distributed FPGA Acceleration. Search on Bibsonomy J. VLSI Signal Process. The full citation details ... 2007 DBLP  DOI  BibTeX  RDF FPGA, VLSI, MPI, database searching, profile hidden markov models, HMMER
85Yanteng Sun, Peng Li, Guochang Gu, Yuan Wen, Yuan Liu, Dong Liu Accelerating HMMer on FPGAs using systolic array based architecture. Search on Bibsonomy IPDPS The full citation details ... 2009 DBLP  DOI  BibTeX  RDF
85Timothy F. Oliver, Leow Yuan Yeow, Bertil Schmidt High Performance Database Searching with HMMer on FPGAs. Search on Bibsonomy IPDPS The full citation details ... 2007 DBLP  DOI  BibTeX  RDF
85John Paul Walters, Bashar Qudah, Vipin Chaudhary Accelerating the HMMER Sequence Analysis Suite Using Conventional Processors. Search on Bibsonomy AINA (1) The full citation details ... 2006 DBLP  DOI  BibTeX  RDF
84Karl Jiang, Oystein Thorsen, Amanda E. Peters, Brian E. Smith, Carlos P. Sosa An Efficient Parallel Implementation of the Hidden Markov Methods for Genomic Sequence-Search on a Massively Parallel System. Search on Bibsonomy IEEE Trans. Parallel Distributed Syst. The full citation details ... 2008 DBLP  DOI  BibTeX  RDF multiple master parallelization, genomic sequence-search, Hidden Markov models, bioinformatics, parallel implementation, massively parallel systems, HMMER
66Joseph I. Landman, Joydeep Ray, John Paul Walters Accelerating HMMer searches on Opteron processors with minimally invasive recoding. Search on Bibsonomy AINA (2) The full citation details ... 2006 DBLP  DOI  BibTeX  RDF
58Ben Wun, Jeremy Buhler, Patrick Crowley Exploiting Coarse-Grained Parallelism to Accelerate Protein Motif Finding with a Network Processor. Search on Bibsonomy IEEE PACT The full citation details ... 2005 DBLP  DOI  BibTeX  RDF
46John Paul Walters, Vidyananth Balu, Suryaprakash Kompalli, Vipin Chaudhary Evaluating the use of GPUs in liver image segmentation and HMMER database searches. Search on Bibsonomy IPDPS The full citation details ... 2009 DBLP  DOI  BibTeX  RDF
46Avery Ching, Wu-chun Feng, Heshan Lin, Xiaosong Ma, Alok N. Choudhary Exploring I/O Strategies for Parallel Sequence-Search Tools with S3aSim. Search on Bibsonomy HPDC The full citation details ... 2006 DBLP  DOI  BibTeX  RDF parallel HMMer tool, parallel I/O strategy, parallel sequence-search tool, S3aSim framework, computational biologist, sequence database segmentation, master-writing strategy, worker-writing strategy, mpiBLAST tool, pioBLAST tool, search algorithm, parallel file system
27Martin Larralde, Georg Zeller PyHMMER: a Python library binding to HMMER for efficient sequence analysis. Search on Bibsonomy Bioinform. The full citation details ... 2023 DBLP  DOI  BibTeX  RDF
27Simon C. Potter, Aurelien Luciani, Sean R. Eddy, Young Mi Park, Rodrigo Lopez, Robert D. Finn HMMER web server: 2018 update. Search on Bibsonomy Nucleic Acids Res. The full citation details ... 2018 DBLP  DOI  BibTeX  RDF
27Hanyu Jiang, Narayan Ganesan CUDAMPF: a multi-tiered parallel framework for accelerating protein sequence search in HMMER on CUDA-enabled GPU. Search on Bibsonomy BMC Bioinform. The full citation details ... 2016 DBLP  DOI  BibTeX  RDF
27Naeem Abbas, Steven Derrien, Sanjay V. Rajopadhye, Patrice Quinton, Alexandre Cornu, Dominique Lavenier Combining execution pipelines to improve parallel implementation of HMMER on FPGA. Search on Bibsonomy Microprocess. Microsystems The full citation details ... 2015 DBLP  DOI  BibTeX  RDF
27Robert D. Finn, Jody Clements, William Arndt, Benjamin L. Miller, Travis J. Wheeler, Fabian Schreiber, Alex Bateman, Sean R. Eddy HMMER web server: 2015 update. Search on Bibsonomy Nucleic Acids Res. The full citation details ... 2015 DBLP  DOI  BibTeX  RDF
27Hanyu Jiang, Narayan Ganesan Fine-Grained Acceleration of HMMER 3.0 via Architecture-Aware Optimization on Massively Parallel Processors. Search on Bibsonomy IPDPS Workshops The full citation details ... 2015 DBLP  DOI  BibTeX  RDF
27Miguel Ferreira, Nuno Roma, Luís M. S. Russo Cache-Oblivious parallel SIMD Viterbi decoding for sequence search in HMMER. Search on Bibsonomy BMC Bioinform. The full citation details ... 2014 DBLP  DOI  BibTeX  RDF
27Samuel Ferraz, Nahri Moreano Evaluating Optimization Strategies for HMMer Acceleration on GPU. Search on Bibsonomy ICPADS The full citation details ... 2013 DBLP  DOI  BibTeX  RDF
27Mohd Nazrin Md. Isa, Khaled Benkrid, Thomas Clayton A novel efficient FPGA architecture for HMMER acceleration. Search on Bibsonomy ReConFig The full citation details ... 2012 DBLP  DOI  BibTeX  RDF
27Xiaoqiang Li, Wenting Han, Gu Liu, Hong An, Mu Xu, Wei Zhou, Qi Li 0034 A Speculative HMMER Search Implementation on GPU. Search on Bibsonomy IPDPS Workshops The full citation details ... 2012 DBLP  DOI  BibTeX  RDF
27Robert D. Finn, Jody Clements, Sean R. Eddy HMMER web server: interactive sequence similarity searching. Search on Bibsonomy Nucleic Acids Res. The full citation details ... 2011 DBLP  DOI  BibTeX  RDF
27Sebastián Isaza, Ernst Houtgast, Georgi Gaydadjiev HMMER Performance Model for Multicore Architectures. Search on Bibsonomy DSD The full citation details ... 2011 DBLP  DOI  BibTeX  RDF
27Saddam Quirem, Fahian Ahmed, Byeong Kil Lee CUDA acceleration of P7Viterbi algorithm in HMMER 3.0. Search on Bibsonomy IPCCC The full citation details ... 2011 DBLP  DOI  BibTeX  RDF
27Toyokazu Takagi, Tsutomu Maruyama Accelerating HMMER search using FPGA Grid. Search on Bibsonomy PARCO The full citation details ... 2011 DBLP  DOI  BibTeX  RDF
27Sebastián Isaza, Ernst Houtgast, Friman Sánchez, Alex Ramírez, Georgi Gaydadjiev Scaling HMMER Performance on Multicore Architectures. Search on Bibsonomy CISIS The full citation details ... 2011 DBLP  DOI  BibTeX  RDF
27Enric Tejedor, Rosa M. Badia, Romina Royo, Josep Lluis Gelpí Enabling HMMER for the Grid with COMP Superscalar. Search on Bibsonomy ICCS The full citation details ... 2010 DBLP  DOI  BibTeX  RDF
27Steven Derrien, Patrice Quinton Hardware Acceleration of HMMER on FPGAs. Search on Bibsonomy J. Signal Process. Syst. The full citation details ... 2010 DBLP  DOI  BibTeX  RDF
27Juan Fernando Eusse Giraldo, Nahri Moreano, Ricardo Pezzuol Jacobi, Alba Cristina Magalhaes Alves de Melo A HMMER hardware accelerator using divergences. Search on Bibsonomy DATE The full citation details ... 2010 DBLP  DOI  BibTeX  RDF
27Naeem Abbas, Steven Derrien, Sanjay V. Rajopadhye, Patrice Quinton Accelerating HMMER on FPGA using parallel prefixes and reductions. Search on Bibsonomy FPT The full citation details ... 2010 DBLP  DOI  BibTeX  RDF
27Narayan Ganesan, Roger D. Chamberlain, Jeremy Buhler, Michela Taufer Accelerating HMMER on GPUs by implementing hybrid data and task parallelism. Search on Bibsonomy BCB The full citation details ... 2010 DBLP  DOI  BibTeX  RDF
27Toyokazu Takagi, Tsutomu Maruyama Accelerating HMMER search using FPGA. Search on Bibsonomy FPL The full citation details ... 2009 DBLP  DOI  BibTeX  RDF
27Timothy F. Oliver, Leow Yuan Yeow, Bertil Schmidt Integrating FPGA acceleration into HMMer. Search on Bibsonomy Parallel Comput. The full citation details ... 2008 DBLP  DOI  BibTeX  RDF
27John Paul Walters, Joseph I. Landman, Vipin Chaudhary Optimized Cluster-Enabled HMMER Searches. Search on Bibsonomy Grid Computing for Bioinformatics and Computational Biology The full citation details ... 2007 DBLP  DOI  BibTeX  RDF
27Steven Derrien, Patrice Quinton Parallelizing HMMER for Hardware Acceleration on FPGAs. Search on Bibsonomy ASAP The full citation details ... 2007 DBLP  DOI  BibTeX  RDF
27Markus Wistrand, Erik L. L. Sonnhammer Improved profile HMM performance by assessment of critical algorithmic features in SAM and HMMER. Search on Bibsonomy BMC Bioinform. The full citation details ... 2005 DBLP  DOI  BibTeX  RDF
27Madelaine Marchin, Paul T. Kelly, Jianwen Fang Tracker: continuous HMMER and BLAST searching. Search on Bibsonomy Bioinform. The full citation details ... 2005 DBLP  DOI  BibTeX  RDF
27Daniel Reiter Horn, Mike Houston, Pat Hanrahan ClawHMMER: A Streaming HMMer-Search Implementation. Search on Bibsonomy SC The full citation details ... 2005 DBLP  DOI  BibTeX  RDF Bio Science, Brook, Programmable Graphics Hardware, GPU Computing, Stream Computing, Data Parallel Computing
27Yasuyo Kofune, Takahiro Koita, Akira Fukuda Performance Evaluation of MPI-HMMER on the OBIGrid. Search on Bibsonomy PDPTA The full citation details ... 2004 DBLP  BibTeX  RDF
27Zemin Zhang, William I. Wood A profile hidden Markov model for signal peptides generated by HMMER. Search on Bibsonomy Bioinform. The full citation details ... 2003 DBLP  DOI  BibTeX  RDF
27Luis Sánchez-Pulido, Yan P. Yuan, Miguel A. Andrade, Peer Bork NAIL-Network Analysis Interface for Linking HMMER results. Search on Bibsonomy Bioinform. The full citation details ... 2000 DBLP  DOI  BibTeX  RDF
27Marcella A. McClure, Chris Smith, Pete Elton Parameterization Studies for the SAM and HMMER Methods of Hidden Markov Model Generation. Search on Bibsonomy ISMB The full citation details ... 1996 DBLP  BibTeX  RDF
27Stuart King, Yanni Sun, James R. Cole, Sakti Pramanik BLAST Tree: Fast Filtering for Genomic Sequence Classification. Search on Bibsonomy BIBE The full citation details ... 2010 DBLP  DOI  BibTeX  RDF component, Bioinformatics, Blast, Homology, Metagenomic, Trie, Hmmer
27Rahul P. Maddimsetty, Jeremy Buhler, Roger D. Chamberlain, Mark A. Franklin, Brandon Harris Accelerator design for protein sequence HMM search. Search on Bibsonomy ICS The full citation details ... 2006 DBLP  DOI  BibTeX  RDF protein motif, hidden Markov model, HMMER
27Mark McCallister, Michael Kutyna, Daniel B. Delgado Implementing high-performance grid computing in student computer labs. Search on Bibsonomy SIGUCCS The full citation details ... 2004 DBLP  DOI  BibTeX  RDF cluster, parallel, grid, BLAST, computer lab, HMMER
19Fabiana F. Araújo, Ângela M. A. Pinheiro, Kaio M. Farias, Bernadette Farias Lóscio, Diana M. Oliveira FlagelLink: a decision support system for distributed flagellar data using data warehouse. Search on Bibsonomy SAC The full citation details ... 2008 DBLP  DOI  BibTeX  RDF flagellar ontology, data integration, bioinformatics, decision support system, data warehouse
19Robert Henschel, Matthias S. Müller I/O Induced Scalability Limits of Bioinformatics Applications. Search on Bibsonomy BIBE The full citation details ... 2007 DBLP  DOI  BibTeX  RDF
19Denise Fukumi Tsunoda, Heitor Silvério Lopes Automatic motif discovery in an enzyme database using a genetic algorithm-based approach. Search on Bibsonomy Soft Comput. The full citation details ... 2006 DBLP  DOI  BibTeX  RDF
19Bouchra Bouqata, Christopher D. Carothers, Boleslaw K. Szymanski, Mohammed Javeed Zaki VOGUE: A Novel Variable Order-Gap State Machine for Modeling Sequences. Search on Bibsonomy PKDD The full citation details ... 2006 DBLP  DOI  BibTeX  RDF
19Anton Bezuglov, Juan E. Vargas Simulated Annealing Algorithm with Biased Neighborhood Distribution for Training Profile Models. Search on Bibsonomy ISMIS The full citation details ... 2006 DBLP  DOI  BibTeX  RDF
19Thomas Rattei, Mathias C. Walter, Roland Arnold, David P. Anderson, Hans-Werner Mewes Using Public Resource Computing and Systematic Pre-calculation for Large Scale Sequence Analysis. Search on Bibsonomy GCCB The full citation details ... 2006 DBLP  DOI  BibTeX  RDF sequence similarity, protein homology, public resource computing, grid computing, sequence analysis, protein domain
19Vipin Sachdeva, Michael Kistler, Evan Speight Poster reception - Pairwise alignments on the cell processor. Search on Bibsonomy SC The full citation details ... 2006 DBLP  DOI  BibTeX  RDF
19Yan Liu 0002, Jaime G. Carbonell, Peter Weigele, Vanathi Gopalakrishnan Segmentation Conditional Random Fields (SCRFs): A New Approach for Protein Fold Recognition. Search on Bibsonomy RECOMB The full citation details ... 2005 DBLP  DOI  BibTeX  RDF
19Fabiano Pazzini, Fernanda Oliveira, Jorge A. Guimarães, Hermes Luís Neubauer de Amorim Prediction of Myotoxic and Neurotoxic Activities in Phospholipases A2 from Primary Sequence Analysis. Search on Bibsonomy BSB The full citation details ... 2005 DBLP  DOI  BibTeX  RDF
19Xing-Ming Zhao, De-Shuang Huang, Yiu-ming Cheung, Hong-Qiang Wang, Xin Huang A Novel Hybrid GA/SVM System for Protein Sequences Classification. Search on Bibsonomy IDEAL The full citation details ... 2004 DBLP  DOI  BibTeX  RDF
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