Search results for "psi-blast"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
136	Yuheng Li, Mario Lauria, Ralf Bundschuh	Suboptimal Alignments Improve the Detection of Weak Homologs in Sequence Database Searches.	BIBE	2005	DBLP DOI BibTeX RDF	PSI-BLAST, suboptimal alignment, sequence alignment, hybrid algorithm, forward-backward algorithm
113	Sarah A. Teichmann, Cyrus Chothia, George M. Church, Jong-Chan Park	PDB_ISL: an intermediate sequence library for protein structure assignment.	RECOMB	2000	DBLP DOI BibTeX RDF	PDB_ISL, PSI-BLAST, structure assignment, homology
93	Rui Kuang, Eugene Ie, Ke Wang, Kai Wang, Mahira Siddiqi, Yoav Freund, Christina S. Leslie	Profile-Based String Kernels for Remote Homology Detection and Motif Extraction.	CSB	2004	DBLP DOI BibTeX RDF	protein motifs, support vector machine, kernels, protein classification
76	Server Kasap, Khaled Benkrid, Ying Liu 0003	A high performance fpga-based implementation of position specific iterated blast.	FPGA	2009	DBLP DOI BibTeX RDF	psi-blast, fpga, blast, handel c
75	Seon-Kyung Woo, Chang-Beom Park, Seong-Whan Lee	Protein Secondary Structure Prediction Using Sequence Profile and Conserved Domain Profile.	ICIC (2)	2005	DBLP DOI BibTeX RDF
70	Yuheng Li, Mario Lauria, Ralf Bundschuh	Using Hybrid Alignment for Iterative Sequence Database Searches.	IPDPS	2003	DBLP DOI BibTeX RDF
70	Golan Yona, Michael Levitt	A unified sequence-structure classification of protein sequences: combining sequence and structure in a map of the protein space.	RECOMB	2000	DBLP DOI BibTeX RDF
52	Fumikazu Konishi, Akihiko Konagaya	The Architectural Design of High-Throughput BLAST Services on OBIGrid.	LSGRID	2004	DBLP DOI BibTeX RDF
46	Ankit Agrawal 0001, Volker Brendel, Xiaoqiu Huang 0001	Pairwise Statistical Significance Versus Database Statistical Significance for Local Alignment of Protein Sequences.	ISBRA	2008	DBLP DOI BibTeX RDF	Database statistical significance, Pairwise local alignment, Pairwise statistical significance, Homologs
46	Minh Ngoc Nguyen 0002, Jagath C. Rajapakse, Kaibo Duan	Amino Acid Features for Prediction of Protein-Protein Interface Residues with Support Vector Machines.	EvoBIO	2007	DBLP DOI BibTeX RDF
46	Eugene Ie, Jason Weston, William Stafford Noble, Christina S. Leslie	Multi-class protein fold recognition using adaptive codes.	ICML	2005	DBLP DOI BibTeX RDF
46	Xiaopeng Jin, Qing Liao 0001, Hang Wei, Jun Zhang, Bin Liu 0014	SMI-BLAST: a novel supervised search framework based on PSI-BLAST for protein remote homology detection.	Bioinform.	2021	DBLP DOI BibTeX RDF
46	Marianne M. Lee, Michael K. Chan, Ralf Bundschuh	SIB-BLAST: a web server for improved delineation of true and false positives in PSI-BLAST searches.	Nucleic Acids Res.	2009	DBLP DOI BibTeX RDF
46	Jeffrey D. Grant, Roland L. Dunbrack Jr., Frank J. Manion, Michael F. Ochs	BeoBLAST: distributed BLAST and PSI-BLAST on a Beowulf cluster.	Bioinform.	2002	DBLP DOI BibTeX RDF
33	Ankit Agrawal 0001, Xiaoqiu Huang 0001	Pairwise statistical significance of local sequence alignment using multiple parameter sets.	DTMBIO	2008	DBLP DOI BibTeX RDF	database statistical significance, pairwise statistical significance, sequence alignment, homologs, parameter set
32	Issar Arab	EPSAPG: A Pipeline Combining MMseqs2 and PSI-BLAST to Quickly Generate Extensive Protein Sequence Alignment Profiles.	CoRR	2023	DBLP DOI BibTeX RDF
32	Issar Arab	EPSAPG: A Pipeline Combining MMseqs2 and PSI-BLAST to Quickly Generate Extensive Protein Sequence Alignment Profiles.	BDCAT	2023	DBLP DOI BibTeX RDF
32	Xiaopeng Jin, Qing Liao 0001, Bin Liu 0014	S2L-PSIBLAST: a supervised two-layer search framework based on PSI-BLAST for protein remote homology detection.	Bioinform.	2021	DBLP DOI BibTeX RDF
32	Toshiyuki Oda, Kyungtaek Lim, Kentaro Tomii	Simple adjustment of the sequence weight algorithm remarkably enhances PSI-BLAST performance.	BMC Bioinform.	2017	DBLP DOI BibTeX RDF
32	Henrique de Assis Lopes Ribeiro	Desenvolvimento de um serviço de análise de sequências utilizando um modelo baseado em atributos de resultados de PSI-BLAST.		2013	RDF
32	Yuheng Li, Nicholas Chia, Mario Lauria, Ralf Bundschuh	A performance enhanced PSI-BLAST based on hybrid alignment.	Bioinform.	2011	DBLP DOI BibTeX RDF
32	Bong-Hyun Kim, Qian Cong, Nick V. Grishin	HangOut: generating clean PSI-BLAST profiles for domains with long insertions.	Bioinform.	2010	DBLP DOI BibTeX RDF
32	Mats Aspnäs, Kimmo Mattila, Kristoffer Osowski, Jan Westerholm	Code Optimization of the Subroutine to Remove Near Identical Matches in the Sequence Database Homology Search Tool PSI-BLAST.	J. Comput. Biol.	2010	DBLP DOI BibTeX RDF
32	Ankit Agrawal 0001, Xiaoqiu Huang 0001	PSIBLAST_PairwiseStatSig: reordering PSI-BLAST hits using pairwise statistical significance.	Bioinform.	2009	DBLP DOI BibTeX RDF
32	Marianne M. Lee, Michael K. Chan, Ralf Bundschuh	Simple is beautiful: a straightforward approach to improve the delineation of true and false positives in PSI-BLAST searches.	Bioinform.	2008	DBLP DOI BibTeX RDF
32	Dariusz Przybylski, Burkhard Rost	Powerful fusion: PSI-BLAST and consensus sequences.	Bioinform.	2008	DBLP DOI BibTeX RDF
32	Jiangning Song, Kevin Burrage, Zheng Yuan, Thomas Huber	Prediction of cis/trans isomerization in proteins using PSI-BLAST profiles and secondary structure information.	BMC Bioinform.	2006	DBLP DOI BibTeX RDF
32	Rana Bhadra, Sankaran Sandhya, K. R. Abhinandan, Saikat Chakrabarti 0001, Ramanathan Sowdhamini, Narayanaswamy Srinivasan	Cascade PSI-BLAST web server: a remote homology search tool for relating protein domains.	Nucleic Acids Res.	2006	DBLP DOI BibTeX RDF
32	Jian Guo 0002, Xian Pu, Yuanlie Lin, Howard Leung	Protein Subcellular Localization Based on Psi-blast and Machine Learning.	J. Bioinform. Comput. Biol.	2006	DBLP DOI BibTeX RDF
32	Mindaugas Margelevicius, Ceslovas Venclovas	PSI-BLAST-ISS: an intermediate sequence search tool for estimation of the position-specific alignment reliability.	BMC Bioinform.	2005	DBLP DOI BibTeX RDF
32	Dan Xie, Ao Li 0001, Minghui Wang, Zhewen Fan, Huanqing Feng	LOCSVMPSI: a web server for subcellular localization of eukaryotic proteins using SVM and profile of PSI-BLAST.	Nucleic Acids Res.	2005	DBLP DOI BibTeX RDF
32	Manoj Bhasin, G. P. S. Raghava	ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST.	Nucleic Acids Res.	2004	DBLP DOI BibTeX RDF
32	Alejandro A. Schäffer, Yuri I. Wolf, Chris P. Ponting, Eugene V. Koonin, L. Aravind, Stephen F. Altschul	IMPALA: matching a protein sequence against a collection of PSI-BLAST-constructed position-specific score matrices.	Bioinform.	1999	DBLP DOI BibTeX RDF
32	Arne Müller, Robert M. MacCallum, Michael J. E. Sternberg	Genome annotation with PSI-BLAST: Benchmark and application.	German Conference on Bioinformatics	1999	DBLP BibTeX RDF
23	Feng Zhao, Jian Peng 0001, Joe DeBartolo, Karl F. Freed, Tobin R. Sosnick, Jinbo Xu	A Probabilistic Graphical Model for Ab Initio Folding.	RECOMB	2009	DBLP DOI BibTeX RDF	ab initio folding, conditional random fields (CRFs), directional statistics, fragment assembly, protein structure prediction, lattice model
23	Man-Wai Mak, Jian Guo 0002, Sun-Yuan Kung	PairProSVM: Protein Subcellular Localization Based on Local Pairwise Profile Alignment and SVM.	IEEE ACM Trans. Comput. Biol. Bioinform.	2008	DBLP DOI BibTeX RDF	profile alignment, Mercer condition, Support Vector Machines, Kernel Methods, Subcellular localization
23	Keith Marsolo, Srinivasan Parthasarathy 0001	On the use of structure and sequence-based features for protein classification and retrieval.	Knowl. Inf. Syst.	2008	DBLP DOI BibTeX RDF	Protein indexing, Protein retrieval, Sequence and structure-based protein representations, Bioinformatics
23	Bin Liu 0014, Lei Lin 0001, Xiaolong Wang 0001, Qiwen Dong, Xuan Wang 0002	A Discriminative Method for Protein Remote Homology Detection Based on N-nary Profiles.	BIRD	2008	DBLP DOI BibTeX RDF	remote homology, N-nary profiles, chi-square algorithm, latent semantic analysis
23	Qiwen Dong, Lei Lin 0001, Xiaolong Wang 0001	Protein Remote Homology Detection Based on Binary Profiles.	BIRD	2007	DBLP DOI BibTeX RDF	remote homology detection, binary profile, latent semantic analysis
23	Gulsah Altun, Hae-Jin Hu, Stefan Gremalschi, Robert W. Harrison, Yi Pan 0001	A Feature Selection Algorithm Based on Graph Theory and Random Forests for Protein Secondary Structure Prediction.	ISBRA	2007	DBLP DOI BibTeX RDF	feature selection, clique, random forests, protein secondary structure prediction
23	Feng Shi, Qiujian Chen, Xiao-hui Niu	Functional Similarity Analyzing of Protein Sequences with Empirical Mode Decomposition.	FSKD (2)	2007	DBLP DOI BibTeX RDF
23	Jyh-Yeong Chang, Jia-Jie Shyu, Yi-Xiang Shi	Fuzzy K-Nearest Neighbor Classifier to Predict Protein Solvent Accessibility.	ICONIP (2)	2007	DBLP DOI BibTeX RDF
23	Euna Jeong, Satoru Miyano	A Weighted Profile Based Method for Protein-RNA Interacting Residue Prediction.	Trans. Comp. Sys. Biology	2006	DBLP DOI BibTeX RDF
23	Keith Marsolo, Srinivasan Parthasarathy 0001	On the Use of Structure and Sequence-Based Features for Protein Classification and Retrieval.	ICDM	2006	DBLP DOI BibTeX RDF
23	Seung-Yeon Kim, Jaehyun Sim, Julian Lee	Fuzzy k-Nearest Neighbor Method for Protein Secondary Structure Prediction and Its Parallel Implementation.	ICIC (3)	2006	DBLP DOI BibTeX RDF
23	Minh Ngoc Nguyen 0002, Jagath C. Rajapakse	Protein-Protein Interface Residue Prediction with SVM Using Evolutionary Profiles and Accessible Surface Areas.	CIBCB	2006	DBLP DOI BibTeX RDF
23	Li Liao, William Stafford Noble	Combining pairwise sequence similarity and support vector machines for remote protein homology detection.	RECOMB	2002	DBLP DOI BibTeX RDF
23	Andreas Karwath, Ross D. King	An Automated ILP Server in the Field of Bioinformatics.	ILP	2001	DBLP DOI BibTeX RDF