Works matching IS 03051048 AND DT 2005 AND VI 33 AND IP suppl 2

Results: 161

The Bioinformatics Links Directory: a Compilation of Molecular Biology Web Servers.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w3, doi. 10.1093/nar/gki594

By:

Fox, Joanne A.;
Butland, Stefanie L.;
McMillan, Scott;
Campbell, Graeme;
Ouellette, B. F. Francis

Publication type:

Article

BASys: a web server for automated bacterial genome annotation.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w455, doi. 10.1093/nar/gki593

By:

Van Domselaar, Gary H.;
Stothard, Paul;
Shrivastava, Savita;
Cruz, Joseph A.;
Guo, AnChi;
Dong, Xiaoli;
Lu, Paul;
Szafron, Duane;
Greiner, Russ;
Wishart, David S.

Publication type:

Article

EDITORIAL.

Published in:: Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w1, doi. 10.1093/nar/gki592
Publication type:: Article

DINAMelt web server for nucleic acid melting prediction.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w577, doi. 10.1093/nar/gki591

By:

Markham, Nicholas R.;
Zuker, Michael

Publication type:

Article

T-Reg Comparator: an analysis tool for the comparison of position weight matrices.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w438, doi. 10.1093/nar/gki590

By:

Roepcke, Stefan;
Grossmann, Steffen;
Rahmann, Sven;
Vingron, Martin

Publication type:

Article

SVC: structured visualization of evolutionary sequence conservation.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w271, doi. 10.1093/nar/gki589

By:

Roepcke, S.;
Fiziev, P.;
Seeburg, P. H.;
Vingron, M.

Publication type:

Article

BhairPred: prediction of β-hairpins in a protein from multiple alignment information using ANN and SVM techniques.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w154, doi. 10.1093/nar/gki588

By:

Kumar, Manish;
Bhasin, Manoj;
Natt, Navjot K.;
Raghava, G. P. S.

Publication type:

Article

Pcleavage: an SVM based method for prediction of constitutive proteasome and immunoproteasome cleavage sites in antigenic sequences.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w202, doi. 10.1093/nar/gki587

By:

Bhasin, Manoj;
Raghava, G. P. S.

Publication type:

Article

MEDock: a web server for efficient prediction of ligand binding sites based on a novel optimization algorithm.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w233, doi. 10.1093/nar/gki586

By:

Chang, Darby Tien-Hau;
Oyang, Yen-Jen;
Lin, Jung-Hsin

Publication type:

Article

PRISM: protein interactions by structural matching.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w331, doi. 10.1093/nar/gki585

By:

Ogmen, Utkan;
Keskin, Ozlem;
Aytuna, A. Selim;
Nussinov, Ruth;
Gursoy, Attila

Publication type:

Article

GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w616, doi. 10.1093/nar/gki500

By:

Vaquerizas, Juan M.;
Conde, Lucía;
Yankilevich, Patricio;
Cabezón, Amaya;
Minguez, Pablo;
Díaz-Uriarte, Ramón;
Al-Shahrour, Fátima;
Herrero, Javier;
Dopazo, Joaquín

Publication type:

Article

pdbFun: mass selection and fast comparison of annotated PDB residues.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w133, doi. 10.1093/nar/gki499

By:

Ausiello, Gabriele;
Zanzoni, Andreas;
Peluso, Daniele;
Via, Allegra;
Helmer-Citterich, Manuela

Publication type:

Article

MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w471, doi. 10.1093/nar/gki498

By:

Cruveiller, Stéphane;
Le Saux, Jérôme;
Vallenet, David;
Lajus, Aurélie;
Bocs, Stéphanie;
Médigue, Claudine

Publication type:

Article

MIDAW: a web tool for statistical analysis of microarray data.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w644, doi. 10.1093/nar/gki497

By:

Romualdi, Chiara;
Vitulo, Nicola;
Favero, Micky Del;
Lanfranchi, Gerolamo

Publication type:

Article

QuasiMotiFinder: protein annotation by searching for evolutionarily conserved motif-like patterns.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w255, doi. 10.1093/nar/gki496

By:

Gutman, Roee;
Berezin, Carine;
Wollman, Roy;
Rosenberg, Yossi;
Ben-Tal, Nir

Publication type:

Article

GRIFFIN: a system for predicting GPCR–G-protein coupling selectivity using a support vector machine and a hidden Markov model.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w148, doi. 10.1093/nar/gki495

By:

Yabuki, Yukimitsu;
Muramatsu, Takahiko;
Hirokawa, Takatsugu;
Mukai, Hidehito;
Suwa, Makiko

Publication type:

Article

POWER: PhylOgenetic WEb Repeater—an integrated and user-optimized framework for biomolecular phylogenetic analysis.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w553, doi. 10.1093/nar/gki494

By:

Lin, Chung-Yen;
Lin, Fan-Kai;
Lin, Chieh Hua;
Lai, Li-Wei;
Hsu, Hsiu-Jun;
Chen, Shu-Hwa;
Hsiung, Chao A.

Publication type:

Article

SCANMOT: searching for similar sequences using a simultaneous scan of multiple sequence motifs.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w274, doi. 10.1093/nar/gki493

By:

Chakrabarti, Saikat;
Anand, A. Prem;
Bhardwaj, Nitin;
Pugalenthi, Ganesan;
Sowdhamini, R.

Publication type:

Article

WordSpy: identifying transcription factor binding motifs by building a dictionary and learning a grammar.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w412, doi. 10.1093/nar/gki492

By:

Wang, Guandong;
Yu, Taotao;
Zhang, Weixiong

Publication type:

Article

SOAP-based services provided by the European Bioinformatics Institute.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w25, doi. 10.1093/nar/gki491

By:

Pillai, S.;
Silventoinen, V.;
Kallio, K.;
Senger, M.;
Sobhany, S.;
Tate, J.;
Velankar, S.;
Golovin, A.;
Henrick, K.;
Rice, P.;
Stoehr, P.;
Lopez, R.

Publication type:

Article

RACE: Remote Analysis Computation for gene Expression data.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w638, doi. 10.1093/nar/gki490

By:

Psarros, Michael;
Heber, Steffen;
Sick, Manuela;
Thoppae, Gnanasekaran;
Harshman, Keith;
Sick, Beate

Publication type:

Article

GENSTYLE: exploration and analysis of DNA sequences with genomic signature.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w512, doi. 10.1093/nar/gki489

By:

Fertil, Bernard;
Massin, Matthieu;
Lespinats, Sylvain;
Devic, Caroline;
Dumee, Philippe;
Giron, Alain

Publication type:

Article

One-Block CYRCA: an automated procedure for identifying multiple-block alignments from single block queries.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w281, doi. 10.1093/nar/gki488

By:

Frenkel-Morgenstern, Milana;
Singer, Alice;
Bronfeld, Hagit;
Pietrokovski, Shmuel

Publication type:

Article

GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w451, doi. 10.1093/nar/gki487

By:

Besemer, John;
Borodovsky, Mark

Publication type:

Article

CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w408, doi. 10.1093/nar/gki486

By:

Jegga, Anil G.;
Gupta, Ashima;
Gowrisankar, Sivakumar;
Deshmukh, Mrunal A.;
Connolly, Steven;
Finley, Kevin;
Aronow, Bruce J.

Publication type:

Article

MovieMaker: a web server for rapid rendering of protein motions and interactions.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w358, doi. 10.1093/nar/gki485

By:

Maiti, Rajarshi;
Van Domselaar, Gary H.;
Wishart, David S.

Publication type:

Article

T-profiler: scoring the activity of predefined groups of genes using gene expression data.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w592, doi. 10.1093/nar/gki484

By:

Boorsma, André;
Foat, Barrett C.;
Vis, Daniel;
Klis, Frans;
Bussemaker, Harmen J.

Publication type:

Article

SOP3v2: web-based selection of oligonucleotide primer trios for genotyping of human and mouse polymorphisms.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w548, doi. 10.1093/nar/gki483

By:

Ringquist, Steven;
Pecoraro, Christopher;
Gilchrist, Crystal M. S.;
Styche, Alexis;
Rudert, William A.;
Benos, Panagiotis V.;
Trucco, Massimo

Publication type:

Article

SiteEngines: recognition and comparison of binding sites and protein–protein interfaces.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w337, doi. 10.1093/nar/gki482

By:

Shulman-Peleg, Alexandra;
Nussinov, Ruth;
Wolfson, Haim J.

Publication type:

Article

PatchDock and SymmDock: servers for rigid and symmetric docking.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w363, doi. 10.1093/nar/gki481

By:

Schneidman-Duhovny, Dina;
Inbar, Yuval;
Nussinov, Ruth;
Wolfson, Haim J.

Publication type:

Article

GBA server: EST-based digital gene expression profiling.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w673

By:

Wu, Xin;
Walker, Michael G.;
Luo, Jingchu;
Wei, Liping

Publication type:

Article

PREDBALB/c: a system for the prediction of peptide binding to H2d molecules, a haplotype of the BALB/c mouse.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w180, doi. 10.1093/nar/gki479

By:

Zhang, Guang Lan;
Srinivasan, Kellathur N.;
Veeramani, Anitha;
August, J. Thomas;
Brusic, Vladimir

Publication type:

Article

YASS: enhancing the sensitivity of DNA similarity search.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w540, doi. 10.1093/nar/gki478

By:

Noé, Laurent;
Kucherov, Gregory

Publication type:

Article

RPBS: a web resource for structural bioinformatics.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w44, doi. 10.1093/nar/gki477

By:

Alland, C.;
Moreews, F.;
Boens, D.;
Carpentier, M.;
Chiusa, S.;
Lonquety, M.;
Renault, N.;
Wong, Y.;
Cantalloube, H.;
Chomilier, J.;
Hochez, J.;
Pothier, J.;
Villoutreix, B. O.;
Zagury, J.-F.;
Tufféry, P.

Publication type:

Article

PupasView: a visual tool for selecting suitable SNPs, with putative pathological effect in genes, for genotyping purposes.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w501, doi. 10.1093/nar/gki476

By:

Conde, Lucía;
Vaquerizas, Juan M.;
Ferrer-Costa, Carles;
de la Cruz, Xavier;
Orozco, Modesto;
Dopazo, Joaquín

Publication type:

Article

WebGestalt: an integrated system for exploring gene sets in various biological contexts.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w741, doi. 10.1093/nar/gki475

By:

Zhang, Bing;
Kirov, Stefan;
Snoddy, Jay

Publication type:

Article

PRODOC: a resource for the comparison of tethered protein domain architectures with in-built information on remotely related domain families.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w126, doi. 10.1093/nar/gki474

By:

Krishnadev, O.;
Rekha, N.;
Pandit, S. B.;
Abhiman, S.;
Mohanty, S.;
Swapna, L. S.;
Gore, S.;
Srinivasan, N.

Publication type:

Article

The foldalign web server for pairwise structural RNA alignment and mutual motif search.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w650, doi. 10.1093/nar/gki473

By:

Havgaard, Jakob H.;
Lyngsø, Rune B.;
Gorodkin, Jan

Publication type:

Article

Recent additions and improvements to the Onto-Tools.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w762, doi. 10.1093/nar/gki472

By:

Khatri, Purvesh;
Sellamuthu, Sivakumar;
Malhotra, Pooja;
Amin, Kashyap;
Done, Arina;
Draghici, Sorin

Publication type:

Article

KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w226, doi. 10.1093/nar/gki471

By:

Huang, Hsien-Da;
Lee, Tzong-Yi;
Tzeng, Shih-Wei;
Horng, Jorng-Tzong

Publication type:

Article

GoPubMed: exploring PubMed with the Gene Ontology.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w783, doi. 10.1093/nar/gki470

By:

Doms, Andreas;
Schroeder, Michael

Publication type:

Article

GEMS: a web server for biclustering analysis of expression data.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w596

By:

Wu, Chang-Jiun;
Kasif, Simon

Publication type:

Article

E-RNAi: a web application to design optimized RNAi constructs.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w582, doi. 10.1093/nar/gki468

By:

Arziman, Zeynep;
Horn, Thomas;
Boutros, Michael

Publication type:

Article

POCO: discovery of regulatory patterns from promoters of oppositely expressed gene sets.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w427, doi. 10.1093/nar/gki467

By:

Kankainen, Matti;
Holm, Liisa

Publication type:

Article

Identifying synonymous regulatory elements in vertebrate genomes.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w403, doi. 10.1093/nar/gki466

By:

Ovcharenko, Ivan;
Nobrega, Marcelo A.

Publication type:

Article

MINER: software for phylogenetic motif identification.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w267

By:

La, David;
Livesay, Dennis R.

Publication type:

Article

H++: a server for estimating pKas and adding missing hydrogens to macromolecules.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w368, doi. 10.1093/nar/gki464

By:

Gordon, John C.;
Myers, Jonathan B.;
Folta, Timothy;
Shoja, Valia;
Heath, Lenwood S.;
Onufriev, Alexey

Publication type:

Article

Integrating protein annotation resources through the Distributed Annotation System.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w468, doi. 10.1093/nar/gki463

By:

Ólason, Páll Ísólfur

Publication type:

Article

SNPServer: a real-time SNP discovery tool.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w493, doi. 10.1093/nar/gki462

By:

Savage, David;
Batley, Jacqueline;
Erwin, Tim;
Logan, Erica;
Love, Christopher G.;
Lim, Geraldine A. C.;
Mongin, Emmanuel;
Barker, Gary;
Spangenberg, German C.;
Edwards, David

Publication type:

Article

DeNovoID: a web-based tool for identifying peptides from sequence and mass tags deduced from de novo peptide sequencing by mass spectroscopy.

Published in:

Nucleic Acids Research, 2005, v. 33, n. suppl 2, p. w376, doi. 10.1093/nar/gki461

By:

Halligan, Brian D.;
Ruotti, Victor;
Twigger, Simon N.;
Greene, Andrew S.

Publication type:

Article