Search results for "Pfam"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
2	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
2	Mihaela Pertea, Steven Salzberg	Using Protein Domains to Improve the Accuracy of Ab Initio Gene Finding.	WABI	2007	DBLP DOI BibTeX RDF	Pfam, GHMM, ab intio gene finding, protein domain, profile HMM
1	Marco Punta, Penny C. Coggill, Ruth Y. Eberhardt, Jaina Mistry, John G. Tate, Chris Boursnell, Ningze Pang, Kristoffer Forslund, Goran Ceric, Jody Clements, Andreas Heger, Liisa Holm, Erik L. L. Sonnhammer, Sean R. Eddy, Alex Bateman, Robert D. Finn	The Pfam protein families database.	Nucleic Acids Research	2012	DBLP DOI BibTeX RDF
1	Asif U. Tamuri, Roman A. Laskowski	ArchSchema: a tool for interactive graphing of related Pfam domain architectures.	Bioinformatics	2010	DBLP DOI BibTeX RDF
1	Robert D. Finn, Jaina Mistry, John G. Tate, Penny C. Coggill, Andreas Heger, Joanne E. Pollington, O. Luke Gavin, Prasad Gunasekaran, Goran Ceric, Kristoffer Forslund, Liisa Holm, Erik L. L. Sonnhammer, Sean R. Eddy, Alex Bateman	The Pfam protein families database.	Nucleic Acids Research	2010	DBLP DOI BibTeX RDF
1	Nalin C. W. Goonesekere, Krysten Shipely, Kevin O'Connor	The challenge of annotating protein sequences: The tale of eight domains of unknown function in Pfam.	Computational Biology and Chemistry	2010	DBLP DOI BibTeX RDF
1	Robert D. Finn, John G. Tate, Jaina Mistry, Penny C. Coggill, Stephen John Sammut, Hans-Rudolf Hotz, Goran Ceric, Kristoffer Forslund, Sean R. Eddy, Erik L. L. Sonnhammer, Alex Bateman	The Pfam protein families database.	Nucleic Acids Research	2008	DBLP DOI BibTeX RDF
1	Stephen John Sammut, Robert D. Finn, Alex Bateman	Pfam 10 years on: 10 000 families and still growing.	Briefings in Bioinformatics	2008	DBLP DOI BibTeX RDF
1	Cyril Allauzen, Mehryar Mohri, Ameet Talwalkar	Sequence kernels for predicting protein essentiality.	ICML	2008	DBLP DOI BibTeX RDF
1	Somesh Jha, Louis Kruger, Vitaly Shmatikov	Towards Practical Privacy for Genomic Computation.	IEEE Symposium on Security and Privacy	2008	DBLP DOI BibTeX RDF	Privacy, Edit Distance, Genome, Secure Multi-Party Computation, Smith-Waterman
1	Karen T. Girão, Fátima C. E. Oliveira, Kaio M. Farias, Italo M. C. Maia, Samara C. Silva, Carla R. F. Gadelha, Laura D. G. Carneiro, Ana Carolina L. Pacheco, Michel T. Kamimura, Michely C. Diniz, Maria C. Silva, Diana M. Oliveira	Multi-relational Data Mining for Tetratricopeptide Repeats (TPR)-Like Superfamily Members in Leishmania spp.: Acting-by-Connecting Proteins.	PRIB	2008	DBLP DOI BibTeX RDF	tetratricopeptide repeat motif, Leishmania proteins, hidden Markov models, Viterbi algorithm, Multi-relational data mining
1	Jaina Mistry, Alex Bateman, Robert D. Finn	Predicting active site residue annotations in the Pfam database.	BMC Bioinformatics	2007	DBLP DOI BibTeX RDF
1	Scooter Willis	Protein CorreLogo: an X3D representation of co-evolving pairs, tertiary structure, ligand binding pockets and protein-protein interactions in protein families.	Web3D	2007	DBLP DOI BibTeX RDF	Protein CorreLogo, mutual information, X3D
1	Marco Masseroli	Management and Analysis of Genomic Functional and Phenotypic Controlled Annotations to Support Biomedical Investigation and Practice.	IEEE Transactions on Information Technology in Biomedicine	2007	DBLP DOI BibTeX RDF
1	Margaret Dah-Tsyr Chang, Hao-Teng Chang, Rong-Yuan Huang, Wen-Shyong Tzou, Chih-Hong Liu, Wei-Jun Zhung, Hsien-Wei Wang, Chun-Tien Chang, Tun-Wen Pai	A Database for Prediction of Unique Peptide Motifs as Linear Epitopes.	ISBRA	2007	DBLP DOI BibTeX RDF	unique peptide motif, linear epitope, antigenicity, protein family, specificity
1	Hongwei Wu, Fenglou Mao, Victor Olman, Ying Xu	An Algorithm for Hierarchical Classification of Genes of Prokaryotic Genomes.	ISBRA	2007	DBLP DOI BibTeX RDF
1	Daniel A. S. Anjos, Gustavo G. Zerlotini, Guilherme A. Pinto, Maria Emilia Telles Walter, Marcelo M. Brigido, Guilherme P. Telles, Carlos Juliano M. Viana, Nalvo F. Almeida	A Method for Inferring Biological Functions Using Homologous Genes Among Three Genomes.	BSB	2007	DBLP DOI BibTeX RDF
1	Elizabeta Bab-Dinitz, Hagay Shmuely, Julie Maupin-Furlow, Jerry Eichler, Boaz Shaanan	Haloferax volcanii PitA: an example of functional interaction between the Pfam chlorite dismutase and antibiotic biosynthesis monooxygenase families?	Bioinformatics	2006	DBLP DOI BibTeX RDF
1	Robert D. Finn, Jaina Mistry, Benjamin Schuster-Böckler, Sam Griffiths-Jones, Volker Hollich, Timo Lassmann, Simon Moxon, Mhairi Marshall, Ajay Khanna, Richard Durbin, Sean R. Eddy, Erik L. L. Sonnhammer, Alex Bateman	Pfam: clans, web tools and services.	Nucleic Acids Research	2006	DBLP DOI BibTeX RDF
1	Ana Gabriela Maguitman, Andreas Rechtsteiner, Karin Verspoor, Charlie E. M. Strauss, Luis Mateus Rocha	Large-Scale Testing of Bibliome Informatics Using Pfam Protein Families.	Pacific Symposium on Biocomputing	2006	DBLP BibTeX RDF
1	Changhui Yan, Jing Hu	A Hidden Markov Model Approach to Identifying HTH Motifs Using Protein Sequence and Predicted Solvent Accessibility.	CIBCB	2006	DBLP DOI BibTeX RDF
1	C. Z. Cai, Q. F. Yuan, H. G. Xiao, X. H. Liu, L. Y. Han, Yu Zong Chen	Prediction of Transmembrane Proteins from Their Primary Sequence by Support Vector Machine Approach.	ICIC	2006	DBLP DOI BibTeX RDF
1	Mehmet M. Dalkilic	An Architecture and Application for Integrating Curation Data at the Residue Level for Proteins.	DILS	2005	DBLP DOI BibTeX RDF
1	Haifeng Liu, Loo-Nin Teow	Performance Evaluation of Protein Sequence Clustering Tools.	International Conference on Computational Science	2005	DBLP DOI BibTeX RDF
1	Akshay Vashist, Casimir A. Kulikowski, Ilya B. Muchnik	Screening for Ortholog Clusters Using Multipartite Graph Clustering by Quasi-Concave Set Function Optimization.	RSFDGrC	2005	DBLP DOI BibTeX RDF
1	Giridhar Chukkapalli, Chittibabu Guda, Shankar Subramaniam	SledgeHMMER: a web server for batch searching the Pfam database.	Nucleic Acids Research	2004	DBLP DOI BibTeX RDF
1	Alex Bateman, Lachlan James M. Coin, Richard Durbin, Robert D. Finn, Volker Hollich, Sam Griffiths-Jones, Ajay Khanna, Mhairi Marshall, Simon Moxon, Erik L. L. Sonnhammer, David J. Studholme, Corin Yeats, Sean R. Eddy	The Pfam protein families database.	Nucleic Acids Research	2004	DBLP DOI BibTeX RDF
1	Edward de Oliveira Ribeiro, Gustavo G. Zerlotini, Irving Lopes, Victor Ribeiro, Alba Cristina Magalhaes Alves de Melo, Maria Emilia Telles Walter, Marcos Motta	Rede BIOFOCO: A distributed computation of Interpro Pfam, PROSITE and ProDom for protein annotation.	WOB	2004	DBLP BibTeX RDF
1	David Lee, Alastair Grant, Ian Sillitoe, Mark Dibley, Juan Garcia Ranea, Christine A. Orengo	A structural perspective on genome evolution.	RECOMB	2004	DBLP DOI BibTeX RDF
1	David J. Studholme, Neil D. Rawlings, Alan J. Barrett, Alex Bateman	A comparison of Pfam and MEROPS: Two databases, one comprehensive, and one specialised.	BMC Bioinformatics	2003	DBLP DOI BibTeX RDF
1	Weirong Zhu, Yanwei Niu, Jizhu Lu, Guang R. Gao	Implementing Parallel Hmm-pfam on the EARTH Multithreaded Architecture. (PDF / PS)	CSB	2003	DBLP DOI BibTeX RDF
1	Minghua Deng, Ting Chen, Fengzhu Sun	An integrated probabilistic model for functional prediction of proteins.	RECOMB	2003	DBLP DOI BibTeX RDF	function prediction, pfam domain, Markov random field, protein-protein interaction, Gibbs sampler
1	Niranjan Nagarajan, Golan Yona	A multi-expert system for the automatic detection of protein domains from sequence information.	RECOMB	2003	DBLP DOI BibTeX RDF	domain boundaries, domain prediction, protein domains, SCOP
1	Umar Syed, Golan Yona	Using a mixture of probabilistic decision trees for direct prediction of protein function.	RECOMB	2003	DBLP DOI BibTeX RDF	functional prediction, sequence-function relationships, decision trees
1	Byung-Hoon Park, George Ostrouchov, Gong-Xin Yu, Al Geist, Andrey Gorin, Nagiza F. Samatova	Inference of Protein-Protein Interactions by Unlikely Profile Pair.	ICDM	2003	DBLP DOI BibTeX RDF
1	Alex Bateman, Ewan Birney, Lorenzo Cerutti, Richard Durbin, Laurence Ettwiller, Sean R. Eddy, Sam Griffiths-Jones, Kevin L. Howe, Mhairi Marshall, Erik L. L. Sonnhammer	The Pfam Protein Families Database.	Nucleic Acids Research	2002	DBLP DOI BibTeX RDF
1	Guoying Liu, Ann E. Loraine, Ron Shigeta, Melissa S. Cline, Jill Cheng, Stephen A. Chervitz, David Kulp, Michael A. Siani-Rose	NetAffx: affymetrix probeset annotations.	SAC	2002	DBLP DOI BibTeX RDF	GRAPA, GeneChip, netaffx, microarray, protein domains
1	Alex Bateman, Ewan Birney, Richard Durbin, Sean R. Eddy, Kevin L. Howe, Erik L. L. Sonnhammer	The Pfam Protein Families Database.	Nucleic Acids Research	2000	DBLP DOI BibTeX RDF
1	Alex Bateman, Ewan Birney, Richard Durbin, Sean R. Eddy, Robert D. Finn, Erik L. L. Sonnhammer	Pfam 3.1: 1313 multiple alignments and profile HMMs match the majority of proteins.	Nucleic Acids Research	1999	DBLP DOI BibTeX RDF
1	Erik L. L. Sonnhammer, Sean R. Eddy, Ewan Birney, Alex Bateman, Richard Durbin	Pfam: multiple sequence alignments and HMM-profiles of protein domains.	Nucleic Acids Research	1998	DBLP DOI BibTeX RDF