Search results for "homology search"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
3	Xianyang Jiang, Peiheng Zhang, Xinchun Liu, Stephen S.-T. Yau	Survey on index based homology search algorithms.	The Journal of Supercomputing	2007	DBLP DOI BibTeX RDF	Genomic indexing, Algorithm, Bioinformatics, Sequence alignment, Homology search
3	Louxin Zhang	Superiority of Spaced Seeds for Homology Search.	IEEE/ACM Trans. Comput. Biology Bioinform.	2007	DBLP DOI BibTeX RDF	run statistics, pattern matching, sequence alignment, Homology search, renewal theory, spaced seeds
3	Yinglei Song, Jizhen Zhao, Chunmei Liu, Kan Liu, Russell L. Malmberg, Liming Cai	RNA Structural Homology Search with a Succinct Stochastic Grammar Model.	J. Comput. Sci. Technol.	2005	DBLP DOI BibTeX RDF	RNA structural homology search, stochastic context-free grammar (SCFG), structure-sequence alignment, pseudoknot
3	Hsiao Ping Lee, Yin-Te Tsai, Chuan Yi Tang	A seriate coverage filtration approach for homology search.	SAC	2004	DBLP DOI BibTeX RDF	incrementally decreasing covers, longest increasing subsequence problems, lossless filtration, seriate coverage, homology search
2	Weiming Li, Bin Ma, Kaizhong Zhang	Amino Acid Classification and Hash Seeds for Homology Search.	BICoB	2009	DBLP DOI BibTeX RDF
2	Miklós Csürös, Bin Ma	Rapid Homology Search with Neighbor Seeds.	Algorithmica	2007	DBLP DOI BibTeX RDF
2	Alireza Hadj Khodabakhshi, Mehdi Mirzazadeh, Arvind Gupta	An efficient data structure for applying multiple seeds in homology search.	BIBE	2007	DBLP DOI BibTeX RDF
2	Ming Li	Invited Talk: Modern Homology Search.	ISBRA	2007	DBLP DOI BibTeX RDF
2	Michael Cameron, Hugh E. Williams	Comparing Compressed Sequences for Faster Nucleotide BLAST Searches.	IEEE/ACM Trans. Comput. Biology Bioinform.	2007	DBLP DOI BibTeX RDF	Four Russians algorithm, compression, sequence alignment, BLAST, Homology search
2	Lucian Ilie, Silvana Ilie	Fast Computation of Good Multiple Spaced Seeds.	WABI	2007	DBLP DOI BibTeX RDF	multiple spaced seeds, string overlaps, PatternHunterII, sensitivity, BLAST, homology search
2	Mitsuo Murata	Application of PVM to Protein Homology Search.	PVM/MPI	2006	DBLP DOI BibTeX RDF
2	Bin Ma, Lieyu Wu, Kaizhong Zhang	Improving the Sensitivity and Specificity of Protein Homology Search by Incorporating Predicted Secondary Structures.	International Conference on Computational Science	2005	DBLP DOI BibTeX RDF
2	Miklós Csürös, Bin Ma	Rapid Homology Search with Two-Stage Extension and Daughter Seeds.	COCOON	2005	DBLP DOI BibTeX RDF
2	Kwok Pui Choi, Fanfan Zeng, Louxin Zhang	Good Spaced Seeds For Homology Search.	BIBE	2004	DBLP DOI BibTeX RDF
2	Jinbo Xu, Daniel G. Brown 0001, Ming Li, Bin Ma	Optimizing Multiple Spaced Seeds for Homology Search.	CPM	2004	DBLP DOI BibTeX RDF
2	Michael Cameron, Hugh E. Williams, Adam Cannane	Improved Gapped Alignment in BLAST.	IEEE/ACM Trans. Comput. Biology Bioinform.	2004	DBLP DOI BibTeX RDF	dynamic programming, Sequence alignment, BLAST, homology search
2	Yoshiki Yamaguchi, Yosuke Miyajima, Tsutomu Maruyama, Akihiko Konagaya	High Speed Homology Search Using Run-Time Reconfiguration.	FPL	2002	DBLP DOI BibTeX RDF
1	Fumihiko Ino, Yuma Munekawa, Kenichi Hagihara	Sequence Homology Search Using Fine Grained Cycle Sharing of Idle GPUs.	IEEE Trans. Parallel Distrib. Syst.	2012	DBLP DOI BibTeX RDF
1	Diana L. Kolbe, Sean R. Eddy	Fast filtering for RNA homology search.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Mindaugas Margelevicius, Mindaugas Laganeckas, Ceslovas Venclovas	COMA server for protein distant homology search.	Bioinformatics	2010	DBLP DOI BibTeX RDF
1	Takuma Nishii, Tomoyuki Hiroyasu, Masato Yoshimi, Mitsunori Miki, Hisatake Yokouchi	Similar subsequence retrieval from two time series data using homology search.	SMC	2010	DBLP DOI BibTeX RDF
1	Peter Menzel, Jan Gorodkin, Peter F. Stadler	Maximum Likelihood Estimation of Weight Matrices for Targeted Homology Search.	GCB	2009	DBLP BibTeX RDF
1	Mariana B. Monteiro, Manuela E. Pintado, Francisco X. Malcata, Conrad Bessant, Patrícia R. Moreira	Development of a Workflow for Protein Sequence Analysis Based on the Taverna Workbench Software.	IWANN	2009	DBLP DOI BibTeX RDF	protein sequence analysis, Taverna Workbench®, web services, workflow
1	Takashi Abe, Shigehiko Kanaya, Toshimichi Ikemura	Batch-Learning Self-Organizing Map for Predicting Functions of Poorly-Characterized Proteins Massively Accumulated.	WSOM	2009	DBLP DOI BibTeX RDF	batch-learning SOM, oligopeptide frequency, high-performance supercomputer, bioinformatics, protein function
1	Inke Herms, Sven Rahmann	Computing Alignment Seed Sensitivity with Probabilistic Arithmetic Automata.	WABI	2008	DBLP DOI BibTeX RDF	Seed sensitivity, Indel seed, Probabilistic arithmetic automaton, Homology search, Spaced seed, Multiple seeds
1	Thomas Lingner, Peter Meinicke	Fast Target Set Reduction for Large-Scale Protein Function Prediction: A Multi-class Multi-label Machine Learning Approach.	WABI	2008	DBLP DOI BibTeX RDF	Pfam, target set reduction, machine learning, large-scale, protein classification, multi-class, metagenomics, homology search, protein function prediction, multi-label
1	Lucian Ilie, Silvana Ilie	Multiple spaced seeds for homology search.	Bioinformatics	2007	DBLP DOI BibTeX RDF
1	Volker Hollich, Erik L. L. Sonnhammer	PfamAlyzer: domain-centric homology search.	Bioinformatics	2007	DBLP DOI BibTeX RDF
1	Michael Cameron, Yaniv Bernstein, Hugh E. Williams	Clustered Sequence Representation for Fast Homology Search.	Journal of Computational Biology	2007	DBLP DOI BibTeX RDF
1	Yong Kong	Generalized Correlation Functions and Their Applications in Selection of Optimal Multiple Spaced Seeds for Homology Search.	Journal of Computational Biology	2007	DBLP DOI BibTeX RDF
1	Axel Mosig, Julian J.-L. Chen, Peter F. Stadler	Homology Search with Fragmented Nucleic Acid Sequence Patterns.	WABI	2007	DBLP DOI BibTeX RDF
1	Xuefeng Cui, Tomás Vinar, Brona Brejová, Dennis Shasha, Ming Li	Homology search for genes.	ISMB/ECCB (Supplement of Bioinformatics)	2007	DBLP DOI BibTeX RDF
1	Xin Gao, Shuai Cheng Li, Yinan Lu	New Algorithms for the Spaced Seeds.	FAW	2007	DBLP DOI BibTeX RDF	bioinformatics, homology search, spaced seed
1	Arnaud Fontaine, Hélène Touzet	Computational Identification of Protein-Coding Sequences by Comparative Analysis.	BIBM	2007	DBLP DOI BibTeX RDF
1	Jinbo Xu, Daniel G. Brown 0001, Ming Li, Bin Ma	Optimizing Multiple Spaced Seeds for Homology Search.	Journal of Computational Biology	2006	DBLP DOI BibTeX RDF
1	Bin Ma, Lieyu Wu, Kaizhong Zhang	Improving the Sensitivity and Specificity of Protein Homology Search by Incorporating Predicted Secondary Structures.	J. Bioinformatics and Computational Biology	2006	DBLP DOI BibTeX RDF
1	Scott F. Smith 0002	Homology search with binary and trinary scoring matrices.	IJBRA	2006	DBLP DOI BibTeX RDF
1	Xiandong Meng, Vipin Chaudhary	Optimised fine and coarse parallelism for sequence homology search.	IJBRA	2006	DBLP DOI BibTeX RDF
1	Rana Bhadra, S. Sandhya, K. R. Abhinandan, Saikat Chakrabarti, Ramanathan Sowdhamini, Narayanaswamy Srinivasan	Cascade PSI-BLAST web server: a remote homology search tool for relating protein domains.	Nucleic Acids Research	2006	DBLP DOI BibTeX RDF
1	Shingo Masuno, Tsutomu Maruyama, Yoshiki Yamaguchi, Akihiko Konagaya	Multidimensional Dynamic Programming for Homology Search on Distributed Systems.	Euro-Par	2006	DBLP DOI BibTeX RDF
1	Qiang Xue, James R. Cole, Sakti Pramanik	Sequence Homology Search Based on Database Indexing Using the Profile Hidden Markov Model.	BIBE	2006	DBLP BibTeX RDF
1	Denise Y. F. Mak, Yevgeniy Gelfand, Gary Benson	Indel seeds for homology search.	ISMB (Supplement of Bioinformatics)	2006	DBLP DOI BibTeX RDF
1	Michael Cameron, Yaniv Bernstein, Hugh E. Williams	Clustering Near-Identical Sequences for Fast Homology Search.	RECOMB	2006	DBLP DOI BibTeX RDF
1	Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai	Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment.	IEEE/ACM Trans. Comput. Biology Bioinform.	2006	DBLP DOI BibTeX RDF	Structure-sequence alignment, RNA structure homology search, dynamic programming, tree decomposition, parameterized algorithm, protein threading
1	Ming Li, Bin Ma, Louxin Zhang	Superiority and complexity of the spaced seeds.	SODA	2006	DBLP DOI BibTeX RDF
1	Guo-Hsing Lee, Nai-Yu Chuang, Wen-Dar Lin, Chung-Der Hsiao, Hahn-Ming Lee, Jan-Ming Ho	E2D: A Novel Tool for Annotating Protein Domains in Expressed Sequence Tags.	CIBCB	2006	DBLP DOI BibTeX RDF
1	Adrian Driga, Paul Lu, Jonathan Schaeffer, Duane Szafron, Kevin Charter, Ian Parsons	FastLSA: A Fast, Linear-Space, Parallel and Sequential Algorithm for Sequence Alignment.	Algorithmica	2006	DBLP DOI BibTeX RDF
1	Masumi Itoh, Susumu Goto, Tatsuya Akutsu, Minoru Kanehisa	Fast and accurate database homology search using upper bounds of local alignment scores.	Bioinformatics	2005	DBLP DOI BibTeX RDF
1	Derek Kisman, Ming Li, Bin Ma, Li Wang	tPatternHunter: gapped, fast and sensitive translated homology search .	Bioinformatics	2005	DBLP DOI BibTeX RDF
1	Franco P. Preparata, Louxin Zhang, Kwok Pui Choi	Quick, Practical Selection of Effective Seeds for Homology Search.	Journal of Computational Biology	2005	DBLP DOI BibTeX RDF
1	Daniel G. Brown 0001	Optimizing Multiple Seeds for Protein Homology Search.	IEEE/ACM Trans. Comput. Biology Bioinform.	2005	DBLP DOI BibTeX RDF	Bioinformatics database applications, similarity measures, biology and genetics
1	Shingo Masuno, Tsutomu Maruyama, Yoshiki Yamaguchi, Akihiko Konagaya	Multidimensional Dynamic Programming for Homology Search.	FPL	2005	DBLP BibTeX RDF
1	Xiandong Meng, Vipin Chaudhary	Exploiting Multi-level Parallelism for Homology Search using General Purpose Processors.	ICPADS	2005	DBLP DOI BibTeX RDF
1	Xin Chen, Jie Zheng, Zheng Fu, Peng Nan, Yang Zhong, Stefano Lonardi, Tao Jiang	Assignment of Orthologous Genes via Genome Rearrangement.	IEEE/ACM Trans. Comput. Biology Bioinform.	2005	DBLP DOI BibTeX RDF	Ortholog, paralog, reversal, comparative genomics, genome rearrangement, gene duplication
1	Mine Altunay, D. Colonnese, C. Warade	High Throughput Web Services for Life Sciences.	ITCC	2005	DBLP DOI BibTeX RDF	BioPerl, NC BioGrid, Web Services, Bioinformatics, High Throughput
1	Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai	Efficient Parameterized Algorithm for Biopolymer Structure-Sequence Alignment.	WABI	2005	DBLP DOI BibTeX RDF
1	Malika Mahoui, Lingma Lu, Ning Gao, Nianhua Li, Jessica Chen, Omran A. Bukhres, Zina Ben-Miled	A Dynamic Workflow Approach for the Integration of Bioinformatics Services.	Cluster Computing	2005	DBLP DOI BibTeX RDF	bioinformatics, web-based applications, service integration, dynamic workflow
1	Anne H. H. Ngu, Daniel Rocco, Terence Critchlow, David Buttler	Automatic Discovery and Inferencing of Complex Bioinformatics Web Interfaces.	World Wide Web	2005	DBLP DOI BibTeX RDF
1	Kwok Pui Choi, Fanfan Zeng, Louxin Zhang	Good spaced seeds for homology search.	Bioinformatics	2004	DBLP DOI BibTeX RDF
1	Susie Stephens, Jake Yue Chen, Shiby Thomas	ODM BLAST: Sequence Homology Search in the RDBMS.	IEEE Data Eng. Bull.	2004	DBLP BibTeX RDF
1	Piotr Berman, Paul Bertone, Bhaskar DasGupta, Mark Gerstein, Ming-Yang Kao, Michael Snyder	Fast Optimal Genome Tiling with Applications to Microarray Design and Homology Search.	Journal of Computational Biology	2004	DBLP DOI BibTeX RDF
1	Ming Li, Bin Ma, Derek Kisman, John Tromp	Patternhunter Ii: Highly Sensitive and Fast Homology Search.	J. Bioinformatics and Computational Biology	2004	DBLP DOI BibTeX RDF
1	Yoshiki Yamaguchi, Tsutomu Maruyama, Akihiko Konagaya	Three-Dimensional Dynamic Programming for Homology Search.	FPL	2004	DBLP DOI BibTeX RDF
1	Abhijit Chattaraj, Hugh E. Williams	Variable-length Intervals in Homology Search.	APBC	2004	DBLP BibTeX RDF
1	Xia Cao, Shuai Cheng Li, Beng Chin Ooi, Anthony K. H. Tung	Piers: An Efficient Model for Similarity Search in DNA Sequence Databases.	SIGMOD Record	2004	DBLP DOI BibTeX RDF
1	Gregory Kucherov, Laurent Noé, Yann Ponty	Estimating Seed Sensitivity on Homogeneous Alignments.	BIBE	2004	DBLP DOI BibTeX RDF
1	Hsiao Ping Lee, Yin-Te Tsai, Ching Hua Shih, Tzu Fang Sheu, Chuan Yi Tang	An IDC-based Algorithm for Efficient Homology Filtration with Guaranteed Seriate Coverage.	BIBE	2004	DBLP DOI BibTeX RDF
1	Zina Ben-Miled, Lingma Lu, Malika Mahoui, Jessica Chen, Omran A. Bukhres, Ning Gao, Yue He	A Service Discovery Approach in Support of Web Service Integration.	BIBE	2004	DBLP DOI BibTeX RDF
1	I-Hsuan Yang, Sheng-Ho Wang, Yang-Ho Chen, Pao-Hsian Huang, Liang Ye, Xiaoqiu Huang, Kun-Mao Chao	Efficient Methods for Generating Optimal Single and Multiple Spaced Seeds.	BIBE	2004	DBLP DOI BibTeX RDF	Sequence Alignment, Database Search
1	Salvatore Alesci, Yan A. Su, George P. Chrousos	hMiDas and hMitChip: New Opportunities in Mitochondrial Bioinformatics and Genomic Medicine.	CBMS	2004	DBLP DOI BibTeX RDF
1	Zina Ben-Miled, Ning Gao, Omran A. Bukhres, Lingma Lu, Nianhua Li, Yue He, Malika Mahoui, Jessica Chen	SIBIOS: A System for the Integration of Bioinformatics Services.	CLADE	2004	DBLP DOI BibTeX RDF	bioinformatics, web-based applications, service integration, dynamic workflow
1	Akinobu Fukuzaki, Takeshi Nagashima, Kaori Ide, Fumikazu Konishi, Mariko Hatakeyama, Shigeyuki Yokoyama, Seiki Kuramitsu, Akihiko Konagaya	Genome-Wide Functional Annotation Environment forin OBIGrid.	LSGRID	2004	DBLP DOI BibTeX RDF
1	Adrian Driga, Paul Lu, Jonathan Schaeffer, Duane Szafron, Kevin Charter, Ian Parsons	FastLSA: A Fast, Linear-Space, Parallel and Sequential Algorithm for Sequence Alignment.	ICPP	2003	DBLP DOI BibTeX RDF
1	Zhenqiang Tan, Xia Cao, Beng Chin Ooi, Anthony K. H. Tung	The ed-tree: An Index for Large DNA Sequence Databases.	SSDBM	2003	DBLP DOI BibTeX RDF
1	Brona Brejová, Daniel G. Brown 0001, Tomás Vinar	Optimal Spaced Seeds for Hidden Markov Models, with Application to Homologous Coding Regions.	CPM	2003	DBLP DOI BibTeX RDF
1	Bin Ma, John Tromp, Ming Li	PatternHunter: faster and more sensitive homology search.	Bioinformatics	2002	DBLP DOI BibTeX RDF
1	Yoshiki Yamaguchi, Tsutomu Maruyama, Akihiko Konagaya	High Speed Homology Search with FPGAs.	Pacific Symposium on Biocomputing	2002	DBLP BibTeX RDF
1	Piotr Berman, Paul Bertone, Bhaskar DasGupta, Mark Gerstein, Ming-Yang Kao, Michael Snyder	Fast Optimal Genome Tiling with Applications to Microarray Design and Homology Search.	WABI	2002	DBLP DOI BibTeX RDF
1	Hugh E. Williams, Justin Zobel	Indexing and Retrieval for Genomic Databases.	IEEE Trans. Knowl. Data Eng.	2002	DBLP DOI BibTeX RDF	genomic and scientific databases, indexing, homology search, local alignment
1	Akihiko Konagaya	OBIGrid: Towards a New Distributed Platform for Bioinformatics.	SRDS	2002	DBLP DOI BibTeX RDF
1	Jeffrey T. Chang, Soumya Raychaudhuri, Russ B. Altman	Including Biological Literature Improves Homology Search.	Pacific Symposium on Biocomputing	2001	DBLP BibTeX RDF
1	Sarah A. Teichmann, Cyrus Chothia, George M. Church, Jong Park	PDB_ISL: an intermediate sequence library for protein structure assignment.	RECOMB	2000	DBLP DOI BibTeX RDF	PDB_ISL, PSI-BLAST, structure assignment, homology
1	Osamu Maruyama, Tomoyuki Uchida, Takayoshi Shoudai, Satoru Miyano	Toward Genomic Hypothesis Creator: View Designer for Discovery.	Discovery Science	1998	DBLP DOI BibTeX RDF
1	Ying Xu, Edward C. Uberbacher	Gene Prediction by Pattern Recognition and Homology Search.	ISMB	1996	DBLP BibTeX RDF
1	Victor B. Strelets, Andrey A. Ptitsyn, Luciano Milanesi, Hwa A. Lim	Data bank homology search algorithm with linear computation complexity.	Computer Applications in the Biosciences	1994	DBLP DOI BibTeX RDF
1	C. Thomas White, S. C. Hardies, C. A. Hutchison III, M. H. Edgell	The diagonal-traverse homology search algorithm for locating similarities between two sequences.	Nucleic Acids Research	1984	DBLP DOI BibTeX RDF