Works matching IS 03051048 AND DT 2004 AND VI 32 AND IP suppl 2

Results: 138

EDITORIAL.

Published in:: Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w1, doi. 10.1093/nar/gkh487
Publication type:: Article

CSTminer: a web tool for the identification of coding and noncoding conserved sequence tags through cross-species genome comparison.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w624, doi. 10.1093/nar/gkh486

By:

Castrignanò, Tiziana;
Canali, Alessandro;
Grillo, Giorgio;
Liuni, Sabino;
Mignone, Flavio;
Pesole, Graziano

Publication type:

Article

Proteome Analyst: custom predictions with explanations in a web-based tool for high-throughput proteome annotations.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w365, doi. 10.1093/nar/gkh485

By:

Szafron, Duane;
Lu, Paul;
Greiner, Russell;
Wishart, David S.;
Poulin, Brett;
Eisner, Roman;
Lu, Zhiyong;
Anvik, John;
Macdonell, Cam;
Fyshe, Alona;
Meeuwis, David

Publication type:

Article

Dragon TF Association Miner: a system for exploring transcription factor associations through text-mining.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w230, doi. 10.1093/nar/gkh484

By:

Pan, Hong;
Zuo, Li;
Choudhary, Vidhu;
Zhang, Zhuo;
Leow, Shoi Houi;
Chong, Fui Teen;
Huang, Yingliang;
Ong, Victor Wui Siong;
Mohanty, Bijayalaxmi;
Tan, Sin Lam;
Krishnan, S. P. T.;
Bajic, Vladimir B.

Publication type:

Article

SeqVISTA: a new module of integrated computational tools for studying transcriptional regulation.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w235

By:

Hu, Zhenjun;
Fu, Yutao;
Halees, Anason S.;
Kielbasa, Szymon M.;
Weng, Zhiping

Publication type:

Article

RECON: a program for prediction of nucleosome formation potential.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w346, doi. 10.1093/nar/gkh482

By:

Levitsky, Victor G.

Publication type:

Article

CHOP: parsing proteins into structural domains.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w569, doi. 10.1093/nar/gkh481

By:

Liu, Jinfeng;
Rost, Burkhard

Publication type:

Article

JavaProtein Dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w595, doi. 10.1093/nar/gkh480

By:

Neshich, Goran;
Rocchia, Walter;
Mancini, Adauto L.;
Yamagishi, Michel E. B.;
Kuser, Paula R.;
Fileto, Renato;
Baudet, Christian;
Pinto, Ivan P.;
Montagner, Arnaldo J.;
Palandrani, Juliana F.;
Krauchenco, Joao N.;
Torres, Renato C.;
Souza, Savio;
Togawa, Roberto C.;
Higa, Roberto H.

Publication type:

Article

MyHits: a new interactive resource for protein annotation and domain identification.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w332, doi. 10.1093/nar/gkh479

By:

Pagni, Marco;
Ioannidis, Vassilios;
Cerutti, Lorenzo;
Zahn-Zabal, Monique;
Jongeneel, C. Victor;
Falquet, Laurent

Publication type:

Article

e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w301, doi. 10.1093/nar/gkh478

By:

Krüger, Jan;
Sczyrba, Alexander;
Kurtz, Stefan;
Giegerich, Robert

Publication type:

Article

SuperPose: a simple server for sophisticated structural superposition.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w590, doi. 10.1093/nar/gkh477

By:

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

Publication type:

Article

ArrayXPath: mapping and visualizing microarray gene-expression data with integrated biological pathway resources using Scalable Vector Graphics.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w460, doi. 10.1093/nar/gkh476

By:

Chung, Hee-Joon;
Kim, Mingoo;
Park, Chan Hee;
Kim, Jihoon;
Kim, Ju Han

Publication type:

Article

CysView: protein classification based on cysteine pairing patterns.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w350, doi. 10.1093/nar/gkh475

By:

Lenffer, Johann;
Lai, Paulo;
El Mejaber, Wafaa;
Khan, Asif M.;
Koh, Judice L. Y.;
Tan, Paul T. J.;
Seah, Seng H.;
Brusic, Vladimir

Publication type:

Article

SITECON: a tool for detecting conservative conformational and physicochemical properties in transcription factor binding site alignments and for site recognition.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w208, doi. 10.1093/nar/gkh474

By:

Oshchepkov, D. Y.;
Vityaev, E. E.;
Grigorovich, D. A.;
Ignatieva, E. V.;
Khlebodarova, T. M.

Publication type:

Article

KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w267, doi. 10.1093/nar/gkh473

By:

Aoki, Kiyoko F.;
Yamaguchi, Atsuko;
Ueda, Nobuhisa;
Akutsu, Tatsuya;
Mamitsuka, Hiroshi;
Goto, Susumu;
Kanehisa, Minoru

Publication type:

Article

PepBuild: a web server for building structure data of peptides/proteins.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w559, doi. 10.1093/nar/gkh472

By:

Singh, Balvinder

Publication type:

Article

ADVICE: Automated Detection and Validation of Interaction by Co-Evolution.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w69, doi. 10.1093/nar/gkh471

By:

Tan, Soon-Heng;
Zhang, Zhuo;
Ng, See-Kiong

Publication type:

Article

Expression Profiler: next generation—an online platform for analysis of microarray data.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w465, doi. 10.1093/nar/gkh470

By:

Kapushesky, Misha;
Kemmeren, Patrick;
Culhane, Aedín C.;
Durinck, Steffen;
Ihmels, Jan;
Körner, Christine;
Kull, Meelis;
Torrente, Aurora;
Sarkans, Ugis;
Vilo, Jaak;
Brazma, Alvis

Publication type:

Article

MAVL and StickWRLD: visually exploring relationships in nucleic acid sequence alignments.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w59, doi. 10.1093/nar/gkh469

By:

Ray, William C.

Publication type:

Article

Protein structure prediction and analysis using the Robetta server.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w526, doi. 10.1093/nar/gkh468

By:

Kim, David E.;
Chivian, Dylan;
Baker, David

Publication type:

Article

SA-Search: a web tool for protein structure mining based on a Structural Alphabet.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w545, doi. 10.1093/nar/gkh467

By:

Guyon, Frédéric;
Camproux, Anne-Claude;
Hochez, Joëlle;
Tufféry, Pierre

Publication type:

Article

Complexity: an internet resource for analysis of DNA sequence complexity.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w628, doi. 10.1093/nar/gkh466

By:

Orlov, Y. L.;
Potapov, V. N.

Publication type:

Article

ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w414, doi. 10.1093/nar/gkh350

By:

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

Publication type:

Article

BOMP: a program to predict integral β-barrel outer membrane proteins encoded within genomes of Gram-negative bacteria.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w394, doi. 10.1093/nar/gkh351

By:

Berven, Frode S.;
Flikka, Kristian;
Jensen, Harald B.;
Eidhammer, Ingvar

Publication type:

Article

Riboswitch finder—a tool for identification of riboswitch RNAs.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w154, doi. 10.1093/nar/gkh352

By:

Bengert, Peter;
Dandekar, Thomas

Publication type:

Article

CONFAC: automated application of comparative genomic promoter analysis to DNA microarray datasets.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w475, doi. 10.1093/nar/gkh353

By:

Karanam, Suresh;
Moreno, Carlos S.

Publication type:

Article

ClusPro: a fully automated algorithm for protein–protein docking.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w96, doi. 10.1093/nar/gkh354

By:

Comeau, Stephen R.;
Gatchell, David W.;
Vajda, Sandor;
Camacho, Carlos J.

Publication type:

Article

ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w280, doi. 10.1093/nar/gkh355

By:

Ovcharenko, Ivan;
Nobrega, Marcelo A.;
Loots, Gabriela G.;
Stubbs, Lisa

Publication type:

Article

ProMoST (Protein Modification Screening Tool): a web-based tool for mapping protein modifications on two-dimensional gels.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w638, doi. 10.1093/nar/gkh356

By:

Halligan, Brian D.;
Ruotti, Victor;
Jin, Weihong;
Laffoon, Scott;
Twigger, Simon N.;
Dratz, Edward A.

Publication type:

Article

Wurst: a protein threading server with a structural scoring function, sequence profiles and optimized substitution matrices.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w532, doi. 10.1093/nar/gkh357

By:

Torda, Andrew E.;
Procter, James B.;
Huber, Thomas

Publication type:

Article

WAViS server for handling, visualization and presentation of multiple alignments of nucleotide or amino acids sequences.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w48, doi. 10.1093/nar/gkh358

By:

Zika, Radek;
Pačes, Jan;
Pavlíček, Adam;
Pačes, Václav

Publication type:

Article

NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynthases.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w405, doi. 10.1093/nar/gkh359

By:

Ansari, Mohd. Zeeshan;
Yadav, Gitanjali;
Gokhale, Rajesh S.;
Mohanty, Debasisa

Publication type:

Article

The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequences.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w41, doi. 10.1093/nar/gkh361

By:

Brudno, Michael;
Steinkamp, Rasmus;
Morgenstern, Burkhard

Publication type:

Article

TROD: T7 RNAi Oligo Designer.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w121, doi. 10.1093/nar/gkh360

By:

Dudek, Peter;
Picard, Didier

Publication type:

Article

CVTree: a phylogenetic tree reconstruction tool based on whole genomes.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w45, doi. 10.1093/nar/gkh362

By:

Qi, Ji;
Luo, Hong;
Hao, Bailin

Publication type:

Article

Qgrid: clustering tool for detecting charged and hydrophobic regions in proteins.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w104, doi. 10.1093/nar/gkh363

By:

Ahmad, Shandar;
Sarai, Akinori

Publication type:

Article

PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w318, doi. 10.1093/nar/gkh364

By:

Yellaboina, Sailu;
Seshadri, Jayashree;
Kumar, M. Senthil;
Ranjan, Akash

Publication type:

Article

Phydbac2: improved inference of gene function using interactive phylogenomic profiling and chromosomal location analysis.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w336, doi. 10.1093/nar/gkh365

By:

Enault, François;
Suhre, Karsten;
Poirot, Olivier;
Abergel, Chantal;
Claverie, Jean-Michel

Publication type:

Article

siRNA Selection Server: an automated siRNA oligonucleotide prediction server.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w130, doi. 10.1093/nar/gkh366

By:

Yuan, Bingbing;
Latek, Robert;
Hossbach, Markus;
Tuschl, Thomas;
Lewitter, Fran

Publication type:

Article

The web server of IBM's Bioinformatics and Pattern Discovery group: 2004 update.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w10, doi. 10.1093/nar/gkh367

By:

Huynh, Tien;
Rigoutsos, Isidore

Publication type:

Article

ElNémo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w610, doi. 10.1093/nar/gkh368

By:

Suhre, Karsten;
Sanejouand, Yves-Henri

Publication type:

Article

SNPbox: web-based high-throughput primer design from gene to genome.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w170, doi. 10.1093/nar/gkh369

By:

Weckx, Stefan;
De Rijk, Peter;
Van Broeckhoven, Christine;
Del-Favero, Jurgen

Publication type:

Article

Detecting distant homology with Meta-BASIC.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w576, doi. 10.1093/nar/gkh370

By:

Ginalski, Krzysztof;
von Grotthuss, Marcin;
Grishin, Nick V.;
Rychlewski, Leszek

Publication type:

Article

DICHROWEB, an online server for protein secondary structure analyses from circular dichroism spectroscopic data.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w668, doi. 10.1093/nar/gkh371

By:

Whitmore, Lee;
Wallace, B. A.

Publication type:

Article

ConSite: web-based prediction of regulatory elements using cross-species comparison.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w249, doi. 10.1093/nar/gkh372

By:

Sandelin, Albin;
Wasserman, Wyeth W.;
Lenhard, Boris

Publication type:

Article

DIALIGN: multiple DNA and protein sequence alignment at BiBiServ.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w33, doi. 10.1093/nar/gkh373

By:

Morgenstern, Burkhard

Publication type:

Article

MITOPRED: a web server for the prediction of mitochondrial proteins.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w372, doi. 10.1093/nar/gkh374

By:

Guda, Chittibabu;
Guda, Purnima;
Fahy, Eoin;
Subramaniam, Shankar

Publication type:

Article

iMOT: an interactive package for the selection of spatially interacting motifs.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w602, doi. 10.1093/nar/gkh375

By:

Bhaduri, A.;
Pugalenthi, G.;
Gupta, N.;
Sowdhamini, R.

Publication type:

Article

The PredictProtein server.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w321, doi. 10.1093/nar/gkh377

By:

Rost, Burkhard;
Yachdav, Guy;
Liu, Jinfeng

Publication type:

Article

GDAP: a web tool for genome-wide protein disulfide bond prediction.

Published in:

Nucleic Acids Research, 2004, v. 32, n. suppl 2, p. w360, doi. 10.1093/nar/gkh376

By:

O'Connor, Brian D.;
Yeates, Todd O.

Publication type:

Article