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Nucleic acids research 目次あり PDF

London : Information Retrieval Limited, 1974-


所在 請求記号 所蔵年 所蔵巻号 受入継続
1 電子化情報 1996-2005 24-33  
2 図書館 1986-2003 14, 15(2-24), 16-31  
3 電子ジャーナル OUP  

Vol.33 Web Server Issue 2005年7月1日

所在 請求記号 資料ID 受入日 製本状態 状況 予約人数
1 電子化情報 4200590 2005/07/11 0
PDF The Bioinformatics Links Directory: a Compilation of Molecular Biology Web Servers / Joanne A. Fox, Stefanie L. Butland, Scott McMillan, Graeme Campbell, and B. F. Francis Ouellette p.W3-W24
PDF SOAP-based services provided by the European Bioinformatics Institute / S. Pillai, V. Silventoinen, K. Kallio, M. Senger, S. Sobhany, J. Tate, S. Velankar, A. Golovin, K. Henrick, P. Rice, P. Stoehr, and R. Lopez p.W25-W28
PDF The Diamond STING server / Goran Neshich, Luiz C. Borro, Roberto H. Higa, Paula R. Kuser, Michel E. B. Yamagishi, Eduardo H. Franco, Joao N. Krauchenco, Renato Fileto, Andre A. Ribeiro, George B. P. Bezerra, Thiago M. Velludo, Tomas S. Jimenez, Noboru Furukawa, Hirofumi Teshima, Koji Kitajima, Abdulla Bava, Akinori Sarai, Roberto C. Togawa, and Adauto L. Mancini p.W29-W35
PDF Protein structure prediction servers at University College London / Kevin Bryson, Liam J. McGuffin, Russell L. Marsden, Jonathan J. Ward, Jaspreet S. Sodhi, and David T. Jones p.W36-W38
PDF SPACE: a suite of tools for protein structure prediction and analysis based on complementarity and environment / Vladimir Sobolev, Eran Eyal, Sergey Gerzon, Vladimir Potapov, Mariana Babor, Jaime Prilusky, and Marvin Edelman p.W39-W43
PDF RPBS: a web resource for structural bioinformatics / C. Alland, F. Moreews, D. Boens, M. Carpentier, S. Chiusa, M. Lonquety, N. Renault, Y. Wong, H. Cantalloube, J. Chomilier, J. Hochez, J. Pothier, B. O. Villoutreix, J.-F. Zagury, and P. Tuffery p.W44-W49
PDF CAMPO, SCR_FIND and CHC_FIND: a suite of web tools for computational structural biology / Alessandro Paiardini, Francesco Bossa, and Stefano Pascarella p.W50-W55
PDF Dcode.org anthology of comparative genomic tools / Gabriela G. Loots and Ivan Ovcharenko p.W56-W64
PDF PAT: a protein analysis toolkit for integrated biocomputing on the web / Jerome Gracy and Laurent Chiche p.W65-W71
PDF SCRATCH: a protein structure and structural feature prediction server / J. Cheng, A. Z. Randall, M. J. Sweredoski, and P. Baldi p.W72-W76
PDF PROTINFO: new algorithms for enhanced protein structure predictions / Ling-Hong Hung, Shing-Chung Ngan, Tianyun Liu, and Ram Samudrala p.W77-W80
PDF ProTarget: automatic prediction of protein structure novelty / Ori Sasson and Michal Linial p.W81-W84
PDF Fragment Finder: a web-based software to identify similar three-dimensional structural motif / P. Ananthalakshmi, Ch. Kiran Kumar, M. Jeyasimhan, K. Sumathi, and K. Sekar p.W85-W88
PDF ProFunc: a server for predicting protein function from 3D structure / Roman A. Laskowski, James D. Watson, and Janet M. Thornton p.W89-W93
PDF PISCES: recent improvements to a PDB sequence culling server / Guoli Wang and Roland L. Dunbrack, Jr p.W94-W98
PDF WebProAnalyst: an interactive tool for analysis of quantitative structure_activity relationships in protein families / Vladimir A. Ivanisenko, Alexey M. Eroshkin, and Nickolay A. Kolchanov p.W99-W104
PDF LOCSVMPSI: a web server for subcellular localization of eukaryotic proteins using SVM and profile of PSI-BLAST / Dan Xie, Ao Li, Minghui Wang, Zhewen Fan, and Huanqing Feng p.W105-W110
PDF AS2TS system for protein structure modeling and analysis / A. Zemla, C. Ecale Zhou, T. Slezak, T. Kuczmarski, D. Rama, C. Torres, D. Sawicka, and D. Barsky p.W111-W115
PDF InterProScan: protein domains identifier / E. Quevillon, V. Silventoinen, S. Pillai, N. Harte, N. Mulder, R. Apweiler, and R. Lopez p.W116-W120
PDF PhyloDome-visualization of taxonomic distributions of domains occurring in eukaryote protein sequence sets / Maria Novatchkova, Michael Wildpaner, Dieter Schweizer, and Frank Eisenhaber p.W121-W125
PDF PRODOC: a resource for the comparison of tethered protein domain architectures with in-built information on remotely related domain families / O. Krishnadev, N. Rekha, S. B. Pandit, S. Abhiman, S. Mohanty, L. S. Swapna, S. Gore, and N. Srinivasan p.W126-W129
PDF DIAL: a web-based server for the automatic identification of structural domains in proteins / Ganesan Pugalenthi, Govindaraju Archunan, and Ramanathan Sowdhamini p.W130-W132
PDF pdbFun: mass selection and fast comparison of annotated PDB residues / Gabriele Ausiello, Andreas Zanzoni, Daniele Peluso, Allegra Via, and Manuela Helmer-Citterich p.W133-W137
PDF PEPVAC: a web server for multi-epitope vaccine development based on the prediction of supertypic MHC ligands / Pedro A. Reche and Ellis L. Reinherz p.W138-W142
PDF GPCRsclass: a web tool for the classification of amine type of G-protein-coupled receptors / Manoj Bhasin and G. P. S. Raghava p.W143-W147
PDF GRIFFIN: a system for predicting GPCR_G-protein coupling selectivity using a support vector machine and a hidden Markov model / Yukimitsu Yabuki, Takahiko Muramatsu, Takatsugu Hirokawa, Hidehito Mukai, and Makiko Suwa p.W148-W153
PDF BhairPred: prediction of β-hairpins in a protein from multiple alignment information using ANN and SVM techniques / Manish Kumar, Manoj Bhasin, Navjot K. Natt, and G. P. S. Raghava p.W154-W159
PDF Scooby-domain: prediction of globular domains in protein sequence / Richard A. George, Kuang Lin, and Jaap Heringa p.W160-W163
PDF TMBETA-NET: discrimination and prediction of membrane spanning β-strands in outer membrane proteins / M. Michael Gromiha, Shandar Ahmad, and Makiko Suwa p.W164-W167
PDF CEP: a conformational epitope prediction server / Urmila Kulkarni-Kale, Shriram Bhosle, and A. S. Kolaskar p.W168-W171
PDF MULTIPRED: a computational system for prediction of promiscuous HLA binding peptides / Guang Lan Zhang, Asif M. Khan, Kellathur N. Srinivasan, J. Thomas August, and Vladimir Brusic p.W172-W179
PDF PREDBALB/c: a system for the prediction of peptide binding to H2d molecules, a haplotype of the BALB/c mouse / Guang Lan Zhang, Kellathur N. Srinivasan, Anitha Veeramani, J. Thomas August, and Vladimir Brusic p.W180-W183
PDF GPS: a comprehensive www server for phosphorylation sites prediction / Yu Xue, Fengfeng Zhou, Minjie Zhu, Kashif Ahmed, Guoliang Chen, and Xuebiao Yao p.W184-W187
PDF TMB-Hunt: a web server to screen sequence sets for transmembrane β-barrel proteins / Andrew G. Garrow, Alison Agnew, and David R. Westhead p.W188-W192
PDF Web-based toolkits for topology prediction of transmembrane helical proteins, fold recognition, structure and binding scoring, folding-kinetics analysis and comparative analysis of domain combinations / Hongyi Zhou, Chi Zhang, Song Liu, and Yaoqi Zhou p.W193-W197
PDF TRAMPLE: the transmembrane protein labelling environment / Piero Fariselli, Michele Finelli, Ivan Rossi, Mauro Amico, Andrea Zauli, Pier Luigi Martelli, and Rita Casadio p.W198-W201
PDF Pcleavage: an SVM based method for prediction of constitutive proteasome and immunoproteasome cleavage sites in antigenic sequences / Manoj Bhasin and G. P. S. Raghava p.W202-W207
PDF GraBCas: a bioinformatics tool for score-based prediction of Caspase- and Granzyme B-cleavage sites in protein sequences / Christina Backes, Jan Kuentzer, Hans-Peter Lenhof, Nicole Comtesse, and Eckart Meese p.W208-W213
PDF GlyProt: in silico glycosylation of proteins / Andreas Bohne-Lang and Claus-Wilhelm von der Lieth p.W214-W219
PDF SEARCHGTr: a program for analysis of glycosyltransferases involved in glycosylation of secondary metabolites / Pankaj Kamra, Rajesh S. Gokhale, and Debasisa Mohanty p.W220-W225
PDF KinasePhos: a web tool for identifying protein kinase-specific phosphorylation sites / Hsien-Da Huang, Tzong-Yi Lee, Shih-Wei Tzeng, and Jorng-Tzong Horng p.W226-W229
PDF DiANNA: a web server for disulfide connectivity prediction / F. Ferre and P. Clote p.W230-W232
PDF MEDock: a web server for efficient prediction of ligand binding sites based on a novel optimization algorithm / Darby Tien-Hau Chang, Yen-Jen Oyang, and Jung-Hsin Lin p.W233-W238
PDF REPPER-repeats and their periodicities in fibrous proteins / Markus Gruber, Johannes Soding, and Andrei N. Lupas p.W239-W243
PDF The HHpred interactive server for protein homology detection and structure prediction / Johannes Soding, Andreas Biegert, and Andrei N. Lupas p.W244-W248
PDF Fragnostic: walking through protein structure space / Iddo Friedberg and Adam Godzik p.W249-W251
PDF CX, DPX and PRIDE: WWW servers for the analysis and comparison of protein 3D structures / Kristian Vlahovicek, Alessandro Pintar, Laavanya Parthasarathi, Oliviero Carugo, and Sandor Pongor p.W252-W254
PDF QuasiMotiFinder: protein annotation by searching for evolutionarily conserved motif-like patterns / Roee Gutman, Carine Berezin, Roy Wollman, Yossi Rosenberg, and Nir Ben-Tal p.W255-W261
PDF PatMatch: a program for finding patterns in peptide and nucleotide sequences / Thomas Yan, Danny Yoo, Tanya Z. Berardini, Lukas A. Mueller, Dan C. Weems, Shuai Weng, J. Michael Cherry, and Seung Y. Rhee p.W262-W266
PDF MINER: software for phylogenetic motif identification / David La and Dennis R. Livesay p.W267-W270
PDF SVC: structured visualization of evolutionary sequence conservation / S. Roepcke, P. Fiziev, P. H. Seeburg, and M. Vingron p.W271-W273
PDF SCANMOT: searching for similar sequences using a simultaneous scan of multiple sequence motifs / Saikat Chakrabarti, A. Prem Anand, Nitin Bhardwaj, Ganesan Pugalenthi, and R. Sowdhamini p.W274-W276
PDF ProTeus: identifying signatures in protein termini / Iris Bahir and Michal Linial p.W277-W280
PDF One-Block CYRCA: an automated procedure for identifying multiple-block alignments from single block queries / Milana Frenkel-Morgenstern, Alice Singer, Hagit Bronfeld, and Shmuel Pietrokovski p.W281-W283
PDF FFAS03: a server for profile_profile sequence alignments / Lukasz Jaroszewski, Leszek Rychlewski, Zhanwen Li, Weizhong Li, and Adam Godzik p.W284-W288
PDF PRALINE: a multiple sequence alignment toolbox that integrates homology-extended and secondary structure information / V. A. Simossis and J. Heringa p.W289-W294
PDF Manipulating multiple sequence alignments via MaM and WebMaM / Can Alkan, Eray Tuzun, Jerome Buard, Franck Lethiec, Evan E. Eichler, Jeffrey A. Bailey, and S. Cenk Sahinalp p.W295-W298
PDF ConSurf 2005: the projection of evolutionary conservation scores of residues on protein structures / Meytal Landau, Itay Mayrose, Yossi Rosenberg, Fabian Glaser, Eric Martz, Tal Pupko, and Nir Ben-Tal p.W299-W302
PDF SRide: a server for identifying stabilizing residues in proteins / Csaba Magyar, M. Michael Gromiha, Gerard Pujadas, Gabor E. Tusnady, and Istvan Simon p.W303-W305
PDF I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure / Emidio Capriotti, Piero Fariselli, and Rita Casadio p.W306-W310
PDF MutDB services: interactive structural analysis of mutation data / Jessica Dantzer, Charles Moad, Randy Heiland, and Sean Mooney p.W311-W314
PDF MAVL/StickWRLD for protein: visualizing protein sequence families to detect non-consensus features / William C. Ray p.W315-W319
PDF PPG: online generation of protein pictures and animations / Cedric Binisti, Ahmed Ali Salim, and Pierre Tuffery p.W320-W323
PDF BIOVERSE: enhancements to the framework for structural, functional and contextual modeling of proteins and proteomes / Jason McDermott, Michal Guerquin, Zach Frazier, Aaron N. Chang, and Ram Samudrala p.W324-W325
PDF Metabolic PathFinding: inferring relevant pathways in biochemical networks / Didier Croes, Fabian Couche, Shoshana J. Wodak, and Jacques van Helden p.W326-W330
PDF PRISM: protein interactions by structural matching / Utkan Ogmen, Ozlem Keskin, A. Selim Aytuna, Ruth Nussinov, and Attila Gursoy p.W331-W336
PDF SiteEngines: recognition and comparison of binding sites and protein_protein interfaces / Alexandra Shulman-Peleg, Ruth Nussinov, and Haim J. Wolfson p.W337-W341
PDF POPSCOMP: an automated interaction analysis of biomolecular complexes / Jens Kleinjung and Franca Fraternali p.W342-W346
PDF EVAcon: a protein contact prediction evaluation service / Osvaldo Grana, Volker A. Eyrich, Florencio Pazos, Burkhard Rost, and Alfonso Valencia p.W347-W351
PDF VisANT: data-integrating visual framework for biological networks and modules / Zhenjun Hu, Joe Mellor, Jie Wu, Takuji Yamada, Dustin Holloway, and Charles DeLisi p.W352-W357
PDF MovieMaker: a web server for rapid rendering of protein motions and interactions / Rajarshi Maiti, Gary H. Van Domselaar, and David S. Wishart p.W358-W362
PDF PatchDock and SymmDock: servers for rigid and symmetric docking / Dina Schneidman-Duhovny, Yuval Inbar, Ruth Nussinov, and Haim J. Wolfson p.W363-W367
PDF H++: a server for estimating pKas and adding missing hydrogens to macromolecules / John C. Gordon, Jonathan B. Myers, Timothy Folta, Valia Shoja, Lenwood S. Heath, and Alexey Onufriev p.W368-W371
PDF PCE: web tools to compute protein continuum electrostatics / Maria A. Miteva, Pierre Tuffery, and Bruno O. Villoutreix p.W372-W375
PDF DeNovoID: a web-based tool for identifying peptides from sequence and mass tags deduced from de novo peptide sequencing by mass spectroscopy / Brian D. Halligan, Victor Ruotti, Simon N. Twigger, and Andrew S. Greene p.W376-W381
PDF The FoldX web server: an online force field / Joost Schymkowitz, Jesper Borg, Francois Stricher, Robby Nys, Frederic Rousseau, and Luis Serrano p.W382-W388
PDF enoLOGOS: a versatile web tool for energy normalized sequence logos / Christopher T. Workman, Yutong Yin, David L. Corcoran, Trey Ideker, Gary D. Stormo, and Panayiotis V. Benos p.W389-W392
PDF TOUCAN 2: the all-inclusive open source workbench for regulatory sequence analysis / Stein Aerts, Peter Van Loo, Gert Thijs, Herbert Mayer, Rainer de Martin, Yves Moreau, and Bart De Moor p.W393-W396
PDF AthaMap web tools for database-assisted identification of combinatorial cis-regulatory elements and the display of highly conserved transcription factor binding sites in Arabidopsis thaliana / Nils Ole Steffens, Claudia Galuschka, Martin Schindler, Lorenz Bulow, and Reinhard Hehl p.W397-W402
PDF Identifying synonymous regulatory elements in vertebrate genomes / Ivan Ovcharenko and Marcelo A. Nobrega p.W403-W407
PDF CisMols Analyzer: identification of compositionally similar cis-element clusters in ortholog conserved regions of coordinately expressed genes / Anil G. Jegga, Ashima Gupta, Sivakumar Gowrisankar, Mrunal A. Deshmukh, Steven Connolly, Kevin Finley, and Bruce J. Aronow p.W408-W411
PDF WordSpy: identifying transcription factor binding motifs by building a dictionary and learning a grammar / Guandong Wang, Taotao Yu, and Weixiong Zhang p.W412-W416
PDF ARGO: a web system for the detection of degenerate motifs and large-scale recognition of eukaryotic promoters / Oleg V. Vishnevsky and Nikolay A. Kolchanov p.W417-W422
PDF PromoterPlot: a graphical display of promoter similarities by pattern recognition / Alessandro Di Cara, Karsten Schmidt, Brian A. Hemmings, and Edward J. Oakeley p.W423-W426
PDF POCO: discovery of regulatory patterns from promoters of oppositely expressed gene sets / Matti Kankainen and Liisa Holm p.W427-W431
PDF P-Match: transcription factor binding site search by combining patterns and weight matrices / D. S. Chekmenev, C. Haid, and A. E. Kel p.W432-W437
PDF T-Reg Comparator: an analysis tool for the comparison of position weight matrices / Stefan Roepcke, Steffen Grossmann, Sven Rahmann, and Martin Vingron p.W438-W441
PDF FOOTER: a web tool for finding mammalian DNA regulatory regions using phylogenetic footprinting / David L. Corcoran, Eleanor Feingold, and Panayiotis V. Benos p.W442-W446
PDF CONREAL web server: identification and visualization of conserved transcription factor binding sites / Eugene Berezikov, Victor Guryev, and Edwin Cuppen p.W447-W450
PDF GeneMark: web software for gene finding in prokaryotes, eukaryotes and viruses / John Besemer and Mark Borodovsky p.W451-W454
PDF BASys: a web server for automated bacterial genome annotation / Gary H. Van Domselaar, Paul Stothard, Savita Shrivastava, Joseph A. Cruz, AnChi Guo, Xiaoli Dong, Paul Lu, Duane Szafron, Russ Greiner, and David S. Wishart p.W455-W459
PDF BABELOMICS: a suite of web tools for functional annotation and analysis of groups of genes in high-throughput experiments / Fatima Al-Shahrour, Pablo Minguez, Juan M. Vaquerizas, Lucia Conde, and Joaquin Dopazo p.W460-W464
PDF AUGUSTUS: a web server for gene prediction in eukaryotes that allows user-defined constraints / Mario Stanke and Burkhard Morgenstern p.W465-W467
PDF Integrating protein annotation resources through the Distributed Annotation System / Pall Isolfur Olason p.W468-W470
PDF MICheck: a web tool for fast checking of syntactic annotations of bacterial genomes / Stephane Cruveiller, Jerome Le Saux, David Vallenet, Aurelie Lajus, Stephanie Bocs, and Claudine Medigue p.W471-W479
PDF nsSNPAnalyzer: identifying disease-associated nonsynonymous single nucleotide polymorphisms / Lei Bao, Mi Zhou, and Yan Cui p.W480-W482
PDF SNPAnalyzer: a web-based integrated workbench for single-nucleotide polymorphism analysis / Ruifang Zhang, Zanhua Zhu, Hongming Zhu, Tu Nguyen, Fengxia Yao, Kun Xia, Desheng Liang, and Chunyu Liu p.W489-W492
PDF SNPAnalyzer: a web-based integrated workbench for single-nucleotide polymorphism analysis / Jinho Yoo, Bonghee Seo, and Yangseok Kim p.W483-W488
PDF SNP Cutter: a comprehensive tool for SNP PCR_RFLP assay design / Ruifang Zhang, Zanhua Zhu, Hongming Zhu, Tu Nguyen, Fengxia Yao, Kun Xia, Desheng Liang, and Chunyu Liu p.W489-W492
PDF SNPServer: a real-time SNP discovery tool / David Savage, Jacqueline Batley, Tim Erwin, Erica Logan, Christopher G. Love, Geraldine A. C. Lim, Emmanuel Mongin, Gary Barker, German C. Spangenberg, and David Edwards p.W493-W495
PDF ARTS: a web-based tool for the set-up of high-throughput genome-wide mapping panels for the SNP genotyping of mouse mutants / Matthias Klaften and Martin Hrabe de Angelis p.W496-W500
PDF PupasView: a visual tool for selecting suitable SNPs, with putative pathological effect in genes, for genotyping purposes / Lucia Conde, Juan M. Vaquerizas, Carles Ferrer-Costa, Xavier de la Cruz, Modesto Orozco, and Joaquin Dopazo p.W501-W505
PDF AMOD: a morpholino oligonucleotide selection tool / Eric W. Klee, Kyong Jin Shim, Michael A. Pickart, Stephen C. Ekker, and Lynda B. M. Ellis p.W506-W511
PDF GENSTYLE: exploration and analysis of DNA sequences with genomic signature / Bernard Fertil, Matthieu Massin, Sylvain Lespinats, Caroline Devic, Philippe Dumee, and Alain Giron p.W512-W515
PDF PriFi: using a multiple alignment of related sequences to find primers for amplification of homologs / Jakob Fredslund, Leif Schauser, Lene H. Madsen, Niels Sandal, and Jens Stougaard p.W516-W520
PDF Assembly PCR oligo maker: a tool for designing oligodeoxynucleotides for constructing long DNA molecules for RNA production / Roman Rydzanicz, X. Sharon Zhao, and Philip E. Johnson p.W521-W525
PDF JCat: a novel tool to adapt codon usage of a target gene to its potential expression host / Andreas Grote, Karsten Hiller, Maurice Scheer, Richard Munch, Bernd Nortemann, Dietmar C. Hempel, and Dieter Jahn p.W526-W531
PDF Multiple alignment of genomic sequences using CHAOS, DIALIGN and ABC / Dirk Pohler, Nadine Werner, Rasmus Steinkamp, and Burkhard Morgenstern p.W532-W534
PDF PARALIGN: rapid and sensitive sequence similarity searches powered by parallel computing technology / Per Eystein Sabo, Sten Morten Andersen, Jon Myrseth, Jon K. Laerdahl, and Torbjorn Rognes p.W535-W539
PDF YASS: enhancing the sensitivity of DNA similarity search / Laurent Noe and Gregory Kucherov p.W540-W543
PDF MuPlex: multi-objective multiplex PCR assay design / John Rachlin, Chunming Ding, Charles Cantor, and Simon Kasif p.W544-W547
PDF SOP3v2: web-based selection of oligonucleotide primer trios for genotyping of human and mouse polymorphisms / Steven Ringquist, Christopher Pecoraro, Crystal M. S. Gilchrist, Alexis Styche, William A. Rudert, Panagiotis V. Benos, and Massimo Trucco p.W548-W552
PDF POWER: PhylOgenetic WEb Repeater-an integrated and user-optimized framework for biomolecular phylogenetic analysis / Chung-Yen Lin, Fan-Kai Lin, Chieh Hua Lin, Li-Wei Lai, Hsiu-Jun Hsu, Shu-Hwa Chen, and Chao A. Hsiung p.W553-W556
PDF PHYML Online-a web server for fast maximum likelihood-based phylogenetic inference / Stephane Guindon, Franck Lethiec, Patrice Duroux, and Olivier Gascuel p.W557-W559
PDF Projector 2: contig mapping for efficient gap-closure of prokaryotic genome sequence assemblies / Sacha A. F. T. van Hijum, Aldert L. Zomer, Oscar P. Kuipers, and Jan Kok p.W560-W566
PDF FeatureExtract-extraction of sequence annotation made easy / Rasmus Wernersson p.W567-W569
PDF dnaMATE: a consensus melting temperature prediction server for short DNA sequences / Alejandro Panjkovich, Tomas Norambuena, and Francisco Melo p.W570-W572
PDF Stitchprofiles.uio.no: analysis of partly melted DNA conformations using stitch profiles / Eivind Tostesen, Geir Ivar Jerstad, and Eivind Hovig p.W573-W576
PDF DINAMelt web server for nucleic acid melting prediction / Nicholas R. Markham and Michael Zuker p.W577-W581
PDF E-RNAi: a web application to design optimized RNAi constructs / Zeynep Arziman, Thomas Horn, and Michael Boutros p.W582-W588
PDF dsCheck: highly sensitive off-target search software for double-stranded RNA-mediated RNA interference / Yuki Naito, Tomoyuki Yamada, Takahiro Matsumiya, Kumiko Ui-Tei, Kaoru Saigo, and Shinichi Morishita p.W589-W591
PDF T-profiler: scoring the activity of predefined groups of genes using gene expression data / Andre Boorsma, Barrett C. Foat, Daniel Vis, Frans Klis, and Harmen J. Bussemaker p.W592-W595
PDF GEMS: a web server for biclustering analysis of expression data / Chang-Jiun Wu and Simon Kasif p.W596-W599
PDF RNALOSS: a web server for RNA locally optimal secondary structures / P. Clote p.W600-W604
PDF Kinefold web server for RNA/DNA folding path and structure prediction including pseudoknots and knots / A. Xayaphoummine, T. Bucher, and H. Isambert p.W605-W610
PDF OligoWiz 2.0-integrating sequence feature annotation into the design of microarray probes / Rasmus Wernersson and Henrik Bjorn Nielsen p.W611-W615
PDF GEPAS, an experiment-oriented pipeline for the analysis of microarray gene expression data / Juan M. Vaquerizas, Lucia Conde, Patricio Yankilevich, Amaya Cabezon, Pablo Minguez, Ramon Diaz-Uriarte, Fatima Al-Shahrour, Javier Herrero, and Joaquin Dopazo p.W616-W620
PDF ArrayXPath II: mapping and visualizing microarray gene-expression data with biomedical ontologies and integrated biological pathway resources using Scalable Vector Graphics / Hee-Joon Chung, Chan Hee Park, Mi Ryung Han, Seokho Lee, Jung Hun Ohn, Jihoon Kim, Jihun Kim, and Ju Han Kim p.W621-W626
PDF VAMPIRE microarray suite: a web-based platform for the interpretation of gene expression data / Albert Hsiao, Trey Ideker, Jerrold M. Olefsky, and Shankar Subramaniam p.W627-W632
PDF PathwayExplorer: web service for visualizing high-throughput expression data on biological pathways / Bernhard Mlecnik, Marcel Scheideler, Hubert Hackl, Jurgen Hartler, Fatima Sanchez-Cabo, and Zlatko Trajanoski p.W633-W637
PDF RACE: Remote Analysis Computation for gene Expression data / Michael Psarros, Steffen Heber, Manuela Sick, Gnanasekaran Thoppae, Keith Harshman, and Beate Sick p.W638-W643
PDF MIDAW: a web tool for statistical analysis of microarray data / Chiara Romualdi, Nicola Vitulo, Micky Del Favero, and Gerolamo Lanfranchi p.W644-W649
PDF The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search / Jakob H. Havgaard, Rune B. Lyngso, and Jan Gorodkin p.W650-W653
PDF T-STAG: resource and web-interface for tissue-specific transcripts and genes / Shobhit Gupta, Martin Vingron, and Stefan A. Haas p.W654-W658
PDF ASIAN: a web server for inferring a regulatory network framework from gene expression profiles / Sachiyo Aburatani, Kousuke Goto, Shigeru Saito, Hiroyuki Toh, and Katsuhisa Horimoto p.W659-W664
PDF AntiHunter 2.0: increased speed and sensitivity in searching BLAST output for EST antisense transcripts / Giovanni Lavorgna, Riccardo Triunfo, Federico Santoni, Ugo Orfanelli, Sara Noci, Alessandro Bulfone, Gianluigi Zanetti, and Giorgio Casari p.W665-W668
PDF TargetIdentifier: a webserver for identifying full-length cDNAs from EST sequences / Xiang Jia Min, Gregory Butler, Reginald Storms, and Adrian Tsang p.W669-W672
PDF GBA server: EST-based digital gene expression profiling / Xin Wu, Michael G. Walker, Jingchu Luo, and Liping Wei p.W673-W676
PDF OrfPredictor: predicting protein-coding regions in EST-derived sequences / Xiang Jia Min, Gregory Butler, Reginald Storms, and Adrian Tsang p.W677-W680
PDF ASePCR: alternative splicing electronic RT_PCR in multiple tissues and organs / Namshin Kim, Dajeong Lim, Sanghyuk Lee, and Heebal Kim p.W681-W685
PDF The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs / Peter Schattner, Angela N. Brooks, and Todd M. Lowe p.W686-W689
PDF RibEx: a web server for locating riboswitches and other conserved bacterial regulatory elements / Cei Abreu-Goodger and Enrique Merino p.W690-W692
PDF WEBSAGE: a web tool for visual analysis of differentially expressed human SAGE tags / Jean Pylouster, Catherine Senamaud-Beaufort, and Tula Ester Saison-Behmoaras p.W693-W695
PDF MicroInspector: a web tool for detection of miRNA binding sites in an RNA sequence / Ventsislav Rusinov, Vesselin Baev, Ivan Nikiforov Minkov, and Martin Tabler p.W696-W700
PDF miRU: an automated plant miRNA target prediction server / Yuanji Zhang p.W701-W704
PDF AISMIG-an interactive server-side molecule image generator / Andreas Bohne-Lang, Wolf-Dieter Groch, and Rene Ranzinger p.W705-W709
PDF BRIGEP-the BRIDGE-based genome_transcriptome_proteome browser / A. Goesmann, B. Linke, D. Bartels, M. Dondrup, L. Krause, H. Neuweger, S. Oehm, T. Paczian, A. Wilke, and F. Meyer p.W710-W716
PDF GFINDer: genetic disease and phenotype location statistical analysis and mining of dynamically annotated gene lists / Marco Masseroli, Osvaldo Galati, and Francesco Pinciroli p.W717-W723
PDF Eclair-a web service for unravelling species origin of sequences sampled from mixed host interfaces / Stephen Rudd and Igor V. Tetko p.W724-W727
PDF The multilocus sequence typing network: mlst.net / David M. Aanensen and Brian G. Spratt p.W728-W733
PDF The bioinformatics resource for oral pathogens / Tsute Chen, Kevin Abbey, Wen-jie Deng, and Meng-chuan Cheng p.W734-W740
PDF WebGestalt: an integrated system for exploring gene sets in various biological contexts / Bing Zhang, Stefan Kirov, and Jay Snoddy p.W741-W748
PDF GenePath: from mutations to genetic networks and back / Peter Juvan, Janez Demsar, Gad Shaulsky, and Blaz Zupan p.W749-W752
PDF Data mining tools for the Saccharomyces cerevisiae morphological database / Taro L. Saito, Jun Sese, Yoichiro Nakatani, Fumi Sano, Masashi Yukawa, Yoshikazu Ohya, and Shinichi Morishita p.W753-W757
PDF GeneSeeker: extraction and integration of human disease-related information from web-based genetic databases / M. A. van Driel, K. Cuelenaere, P. P. C. W. Kemmeren, J. A. M. Leunissen, H. G. Brunner, and Gert Vriend p.W758-W761
PDF Recent additions and improvements to the Onto-Tools / Purvesh Khatri, Sivakumar Sellamuthu, Pooja Malhotra, Kashyap Amin, Arina Done, and Sorin Draghici p.W762-W765
PDF MRS: a fast and compact retrieval system for biological data / M. L. Hekkelman and G. Vriend p.W766-W769
PDF Current Comparative Table (CCT) automates customized searches of dynamic biological databases / Benjamin R. Landsteiner, Michael R. Olson, and Robert Rutherford p.W770-W773
PDF PubFinder: a tool for improving retrieval rate of relevant PubMed abstracts / Thomas Goetz and Claus-Wilhelm von der Lieth p.W774-W778
PDF LitMiner and WikiGene: identifying problem-related key players of gene regulation using publication abstracts / Holger Maier, Stefanie Dohr, Korbinian Grote, Sean O'Keeffe, Thomas Werner, Martin Hrabe de Angelis, and Ralf Schneider p.W779-W782
PDF GoPubMed: exploring PubMed with the Gene Ontology / Andreas Doms and Michael Schroeder p.W783-W786

Vol.33 Database Issue 2005年1月1日

所在 請求記号 資料ID 受入日 製本状態 状況 予約人数
1 電子化情報 4200580 2005/03/15 0
PDF Editorial: Editorial / Alex Bateman p.D1
PDF Editorial / Dov Greenbaum, Andrew Smith, and Mark Gerstein p.D3-D4
PDF Articles: The Molecular Biology Database Collection: 2005 update / Michael Y. Galperin p.D5-D24
PDF DDBJ in collaboration with mass-sequencing teams on annotation / Y. Tateno, N. Saitou, K. Okubo, H. Sugawara, and T. Gojobori p.D25-D28
PDF The EMBL Nucleotide Sequence Database / Carola Kanz, Philippe Aldebert, Nicola Althorpe, Wendy Baker, Alastair Baldwin, Kirsty Bates, Paul Browne, Alexandra van den Broek, Matias Castro, Guy Cochrane, Karyn Duggan, Ruth Eberhardt, Nadeem Faruque, John Gamble, Federico Garcia Diez, Nicola Harte, Tamara Kulikova, Quan Lin, Vincent Lombard, Rodrigo Lopez, Renato Mancuso, Michelle McHale, Francesco Nardone, Ville Silventoinen, Siamak Sobhany, Peter Stoehr, Mary Ann Tuli, Katerina Tzouvara, Robert Vaughan, Dan Wu, Weimin Zhu, and Rolf Apweiler p.D29-D33
PDF GenBank / Dennis A. Benson, Ilene Karsch-Mizrachi, David J. Lipman, James Ostell, and David L. Wheeler p.D34-D38
PDF Database resources of the National Center for Biotechnology Information / David L. Wheeler, Tanya Barrett, Dennis A. Benson, Stephen H. Bryant, Kathi Canese, Deanna M. Church, Michael DiCuccio, Ron Edgar, Scott Federhen, Wolfgang Helmberg, David L. Kenton, Oleg Khovayko, David J. Lipman, Thomas L. Madden, Donna R. Maglott, James Ostell, Joan U. Pontius, Kim D. Pruitt, Gregory D. Schuler, Lynn M. Schriml, Edwin Sequeira, Steven T. Sherry, Karl Sirotkin, Grigory Starchenko, Tugba O. Suzek, Roman Tatusov, Tatiana A. Tatusova, Lukas Wagner, and Eugene Yaschenko p.D39-D45
PDF The European Bioinformatics Institute's data resources: towards systems biology / Catherine Brooksbank, Graham Cameron, and Janet Thornton p.D46-D53
PDF Entrez Gene: gene-centered information at NCBI / Donna Maglott, Jim Ostell, Kim D. Pruitt, and Tatiana Tatusova p.D54-D58
PDF HOPPSIGEN: a database of human and mouse processed pseudogenes / Khelifi Adel, Duret Laurent, and Mouchiroud Dominique p.D59-D66
PDF NPRD: Nucleosome Positioning Region Database / Victor G. Levitsky, Aleksey V. Katokhin, Olga A. Podkolodnaya, Dagmara P. Furman, and Nikolay A. Kolchanov p.D67-D70
PDF The TIGR Gene Indices: clustering and assembling EST and known genes and integration with eukaryotic genomes / Y. Lee, J. Tsai, S. Sunkara, S. Karamycheva, G. Pertea, R. Sultana, V. Antonescu, A. Chan, F. Cheung, and J. Quackenbush p.D71-D74
PDF ECgene: genome annotation for alternative splicing / Pora Kim, Namshin Kim, Younghee Lee, Bumjin Kim, Youngah Shin, and Sanghyuk Lee p.D75-D79
PDF SpliceInfo: an information repository for mRNA alternative splicing in human genome / Hsien-Da Huang, Jorng-Tzong Horng, Feng-Mao Lin, Yu-Chung Chang, and Chen-Chia Huang p.D80-D85
PDF DoOP: Databases of Orthologous Promoters, collections of clusters of orthologous upstream sequences from chordates and plants / Endre Barta, Endre Sebestyen, Tamas B. Palfy, Gabor Toth, Csaba P. Ortutay, and Laszlo Patthy p.D86-D90
PDF The MAPPER database: a multi-genome catalog of putative transcription factor binding sites / Voichita D. Marinescu, Isaac S. Kohane, and Alberto Riva p.D91-D97
PDF TRACTOR_DB: a database of regulatory networks in gamma-proteobacterial genomes / Abel D. Gonzalez, Vladimir Espinosa, Ana T. Vasconcelos, Ernesto Perez-Rueda, and Julio Collado-Vides p.D98-D102
PDF TRED: a Transcriptional Regulatory Element Database and a platform for in silico gene regulation studies / Fang Zhao, Zhenyu Xuan, Lihua Liu, and Michael Q. Zhang p.D103-D107
PDF HuSiDa−the human siRNA database: an open-access database for published functional siRNA sequences and technical details of efficient transfer into recipient cells / Matthias Truss, Maciej Swat, Szymon M. Kielbasa, Reinhold Schafer, Hanspeter Herzel, and Christian Hagemeier p.D108-D111
PDF NONCODE: an integrated knowledge database of non-coding RNAs / Changning Liu, Baoyan Bai, Geir Skogerbo, Lun Cai, Wei Deng, Yong Zhang, Dongbo Bu, Yi Zhao, and Runsheng Chen p.D112-D115
PDF PolyA_DB: a database for mammalian mRNA polyadenylation / Haibo Zhang, Jun Hu, Michael Recce, and Bin Tian p.D116-D120
PDF Rfam: annotating non-coding RNAs in complete genomes / Sam Griffiths-Jones, Simon Moxon, Mhairi Marshall, Ajay Khanna, Sean R. Eddy, and Alex Bateman p.D121-D124
PDF RNAdb−a comprehensive mammalian noncoding RNA database / Ken C. Pang, Stuart Stephen, Par G. Engstrom, Khairina Tajul-Arifin, Weisan Chen, Claes Wahlestedt, Boris Lenhard, Yoshihide Hayashizaki, and John S. Mattick p.D125-D130
PDF siRNAdb: a database of siRNA sequences / Alistair M. Chalk, Richard E. Warfinge, Patrick Georgii-Hemming, and Erik L. L. Sonnhammer p.D131-D134
PDF The Small Subunit rRNA Modification Database / James A. McCloskey and Jef Rozenski p.D135-D138
PDF Compilation of tRNA sequences and sequences of tRNA genes / Mathias Sprinzl and Konstantin S. Vassilenko p.D139-D140
PDF UTRdb and UTRsite: a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs / Flavio Mignone, Giorgio Grillo, Flavio Licciulli, Michele Iacono, Sabino Liuni, Paul J. Kersey, Jorge Duarte, Cecilia Saccone, and Graziano Pesole p.D141-D146
PDF PA-GOSUB: a searchable database of model organism protein sequences with their predicted Gene Ontology molecular function and subcellular localization / Paul Lu, Duane Szafron, Russell Greiner, David S. Wishart, Alona Fyshe, Brandon Pearcy, Brett Poulin, Roman Eisner, Danny Ngo, and Nicholas Lamb p.D147-D153
PDF The Universal Protein Resource (UniProt) / Amos Bairoch, Rolf Apweiler, Cathy H. Wu, Winona C. Barker, Brigitte Boeckmann, Serenella Ferro, Elisabeth Gasteiger, Hongzhan Huang, Rodrigo Lopez, Michele Magrane, Maria J. Martin, Darren A. Natale, Claire O'Donovan, Nicole Redaschi, and Lai-Su L. Yeh p.D154-D159
PDF NMPdb: Database of Nuclear Matrix Proteins / Sven Mika and Burkhard Rost p.D160-D163
PDF PSORTdb: a protein subcellular localization database for bacteria / Sebastien Rey, Michael Acab, Jennifer L. Gardy, Matthew R. Laird, Katalin deFays, Christophe Lambert, and Fiona S. L. Brinkman p.D164-D168
PDF SPD−a web-based secreted protein database / Yunjia Chen, Yong Zhang, Yanbin Yin, Ge Gao, Songgang Li, Ying Jiang, Xiaocheng Gu, and Jingchu Luo p.D169-D173
PDF TPMD: a database and resources of microsatellite marker genotyped in Taiwanese populations / Ya-Hui Chang, Wen-Hui Su, Tso-Ching Lee, Hsiao-Fang Sunny Sun, Chia-Hsiang Chen, Wen-Harn Pan, Shih-Feng Tsai, and Yuh-Shan Jou p.D174-D177
PDF eBLOCKs: enumerating conserved protein blocks to achieve maximal sensitivity and specificity / Qiaojuan Jane Su, Lin Lu, Serge Saxonov, and Douglas L. Brutlag p.D178-D182
PDF PDBSite: a database of the 3D structure of protein functional sites / Vladimir A. Ivanisenko, Sergey S. Pintus, Dmitry A. Grigorovich, and Nickolay A. Kolchanov p.D183-D187
PDF ADDA: a domain database with global coverage of the protein universe / Andreas Heger, Christopher Andrew Wilton, Ashwin Sivakumar, and Liisa Holm p.D188-D191
PDF CDD: a Conserved Domain Database for protein classification / Aron Marchler-Bauer, John B. Anderson, Praveen F. Cherukuri, Carol DeWeese-Scott, Lewis Y. Geer, Marc Gwadz, Siqian He, David I. Hurwitz, John D. Jackson, Zhaoxi Ke, Christopher J. Lanczycki, Cynthia A. Liebert, Chunlei Liu, Fu Lu, Gabriele H. Marchler, Mikhail Mullokandov, Benjamin A. Shoemaker, Vahan Simonyan, James S. Song, Paul A. Thiessen, Roxanne A. Yamashita, Jodie J. Yin, Dachuan Zhang, and Stephen H. Bryant p.D192-D196
PDF FunShift: a database of function shift analysis on protein subfamilies / Saraswathi Abhiman and Erik L. L. Sonnhammer p.D197-D200
PDF InterPro, progress and status in 2005 / Nicola J. Mulder, Rolf Apweiler, Teresa K. Attwood, Amos Bairoch, Alex Bateman, David Binns, Paul Bradley, Peer Bork, Phillip Bucher, Lorenzo Cerutti, Richard Copley, Emmanuel Courcelle, Ujjwal Das, Richard Durbin, Wolfgang Fleischmann, Julian Gough, Daniel Haft, Nicola Harte, Nicolas Hulo, Daniel Kahn, Alexander Kanapin, Maria Krestyaninova, David Lonsdale, Rodrigo Lopez, Ivica Letunic, Martin Madera, John Maslen, Jennifer McDowall, Alex Mitchell, Anastasia N. Nikolskaya, Sandra Orchard, Marco Pagni, Chris P. Ponting, Emmanuel Quevillon, Jeremy Selengut, Christian J. A. Sigrist, Ville Silventoinen, David J. Studholme, Robert Vaughan, and Cathy H. Wu p.D201-D205
PDF PRECISE: a Database of Predicted and Consensus Interaction Sites in Enzymes / Shu-Hsien Sheu, David R. Lancia, Jr, Karl H. Clodfelter, Melissa R. Landon, and Sandor Vajda p.D206-D211
PDF The ProDom database of protein domain families: more emphasis on 3D / Catherine Bru, Emmanuel Courcelle, Sebastien Carrere, Yoann Beausse, Sandrine Dalmar, and Daniel Kahn p.D212-D215
PDF ProtoNet 4.0: A hierarchical classification of one million protein sequences / Noam Kaplan, Ori Sasson, Uri Inbar, Moriah Friedlich, Menachem Fromer, Hillel Fleischer, Elon Portugaly, Nathan Linial, and Michal Linial p.D216-D218
PDF S4: structure-based sequence alignments of SCOP superfamilies / James Casbon and Mansoor A. S. Saqi p.D219-D222
PDF The SBASE domain sequence resource, release 12: prediction of protein domain-architecture using support vector machines / Kristian Vlahovicek, Laszlo Kajan, Vilmos Agoston, and Sandor Pongor p.D223-D225
PDF The SYSTERS Protein Family Database in 2005 / Thomas Meinel, Antje Krause, Hannes Luz, Martin Vingron, and Eike Staub p.D226-D229
PDF REBASE−restriction enzymes and DNA methyltransferases / Richard J. Roberts, Tamas Vincze, Janos Posfai, and Dana Macelis p.D230-D232
PDF The RCSB Protein Data Bank: a redesigned query system and relational database based on the mmCIF schema / Nita Deshpande, Kenneth J. Addess, Wolfgang F. Bluhm, Jeffrey C. Merino-Ott, Wayne Townsend-Merino, Qing Zhang, Charlie Knezevich, Lie Xie, Li Chen, Zukang Feng, Rachel Kramer Green, Judith L. Flippen-Anderson, John Westbrook, Helen M. Berman, and Philip E. Bourne p.D233-D237
PDF PDB-Ligand: a ligand database based on PDB for the automated and customized classification of ligand-binding structures / Jae-Min Shin and Doo-Ho Cho p.D238-D241
PDF Carbohydrate Structure Suite (CSS): analysis of carbohydrate 3D structures derived from the PDB / Thomas Lutteke, Martin Frank, and Claus-W. von der Lieth p.D242-D246
PDF The CATH Domain Structure Database and related resources Gene3D and DHS provide comprehensive domain family information for genome analysis / Frances Pearl, Annabel Todd, Ian Sillitoe, Mark Dibley, Oliver Redfern, Tony Lewis, Christopher Bennett, Russell Marsden, Alistair Grant, David Lee, Adrian Akpor, Michael Maibaum, Andrew Harrison, Timothy Dallman, Gabrielle Reeves, Ilhem Diboun, Sarah Addou, Stefano Lise, Caroline Johnston, Antonio Sillero, Janet Thornton, and Christine Orengo p.D247-D251
PDF GenDiS: Genomic Distribution of protein structural domain Superfamilies / Ganesan Pugalenthi, Anirban Bhaduri, and Ramanathan Sowdhamini p.D252-D255
PDF IMGT/GENE-DB: a comprehensive database for human and mouse immunoglobulin and T cell receptor genes / Veronique Giudicelli, Denys Chaume, and Marie-Paule Lefranc p.D256-D261
PDF E-MSD: an integrated data resource for bioinformatics / S. Velankar, P. McNeil, V. Mittard-Runte, A. Suarez, D. Barrell, R. Apweiler, and K. Henrick p.D262-D265
PDF PDBsum more: new summaries and analyses of the known 3D structures of proteins and nucleic acids / Roman A. Laskowski, Victor V. Chistyakov, and Janet M. Thornton p.D266-D268
PDF STING Report: convenient web-based application for graphic and tabular presentations of protein sequence, structure and function descriptors from the STING database / Goran Neshich, Adauto L. Mancini, Michel E. B. Yamagishi, Paula R. Kuser, Renato Fileto, Ivan P. Pinto, Juliana F. Palandrani, Joao N. Krauchenco, Christian Baudet, Arnaldo J. Montagner, and Roberto H. Higa p.D269-D274
PDF PDB_TM: selection and membrane localization of transmembrane proteins in the protein data bank / Gabor E. Tusnady, Zsuzsanna Dosztanyi, and Istvan Simon p.D275-D278
PDF PFD: a database for the investigation of protein folding kinetics and stability / Kate F. Fulton, Glyn L. Devlin, Rachel A. Jodun, Linda Silvestri, Stephen P. Bottomley, Alan R. Fersht, and Ashley M. Buckle p.D279-D283
PDF The PANTHER database of protein families, subfamilies, functions and pathways / Huaiyu Mi, Betty Lazareva-Ulitsky, Rozina Loo, Anish Kejariwal, Jody Vandergriff, Steven Rabkin, Nan Guo, Anushya Muruganujan, Olivier Doremieux, Michael J. Campbell, Hiroaki Kitano, and Paul D. Thomas p.D284-D288
PDF Biomedical term mapping databases / Jonathan D. Wren, Jeffrey T. Chang, James Pustejovsky, Eytan Adar, Harold R. Garner, and Russ B. Altman p.D289-D293
PDF The Ribosomal Database Project (RDP-II): sequences and tools for high-throughput rRNA analysis / J. R. Cole, B. Chai, R. J. Farris, Q. Wang, S. A. Kulam, D. M. McGarrell, G. M. Garrity, and J. M. Tiedje p.D294-D296
PDF Integr8 and Genome Reviews: integrated views of complete genomes and proteomes / Paul Kersey, Lawrence Bower, Lorna Morris, Alan Horne, Robert Petryszak, Carola Kanz, Alexander Kanapin, Ujjwal Das, Karine Michoud, Isabelle Phan, Alexandre Gattiker, Tamara Kulikova, Nadeem Faruque, Karyn Duggan, Peter Mclaren, Britt Reimholz, Laurent Duret, Simon Penel, Ingmar Reuter, and Rolf Apweiler p.D297-D302
PDF PartiGeneDB−collating partial genomes / Jose M. Peregrin-Alvarez, Andrew Yam, Gaya Sivakumar, and John Parkinson p.D303-D307
PDF The PEDANT genome database in 2005 / M. Louise Riley, Thorsten Schmidt, Christian Wagner, Hans-Werner Mewes, and Dmitrij Frishman p.D308-D310
PDF Poxvirus Bioinformatics Resource Center: a comprehensive Poxviridae informational and analytical resource / Elliot J. Lefkowitz, Chris Upton, Shankar S. Changayil, Charles Buck, Paula Traktman, and R. Mark L. Buller p.D311-D316
PDF BacMap: an interactive picture atlas of annotated bacterial genomes / Paul Stothard, Gary Van Domselaar, Savita Shrivastava, Anchi Guo, Brian O'Neill, Joseph Cruz, Michael Ellison, and David S. Wishart p.D317-D320
PDF Metagrowth: a new resource for the building of metabolic hypotheses in microbiology / Hiroyuki Ogata and Jean-Michel Claverie p.D321-D324
PDF VFDB: a reference database for bacterial virulence factors / Lihong Chen, Jian Yang, Jun Yu, Zhijian Yao, Lilian Sun, Yan Shen, and Qi Jin p.D325-D328
PDF EchoBASE: an integrated post-genomic database for Escherichia coli / Raju V. Misra, Richard S. P. Horler, Wolfgang Reindl, Igor I. Goryanin, and Gavin H. Thomas p.D329-D333
PDF EcoCyc: a comprehensive database resource for Escherichia coli / Ingrid M. Keseler, Julio Collado-Vides, Socorro Gama-Castro, John Ingraham, Suzanne Paley, Ian T. Paulsen, Martin Peralta-Gil, and Peter D. Karp p.D334-D337
PDF Pseudomonas aeruginosa Genome Database and PseudoCAP: facilitating community-based, continually updated, genome annotation / Geoffrey L. Winsor, Raymond Lo, Shannan J. Ho Sui, Korine S.E. Ung, Shaoshan Huang, Dean Cheng, Wai-Kay Ho Ching, Robert E. W. Hancock, and Fiona S. L. Brinkman p.D338-D343
PDF The Diatom EST Database / Uma Maheswari, Anton Montsant, Johannes Goll, S. Krishnasamy, K. R. Rajyashri, Villoo Morawala Patell, and Chris Bowler p.D344-D347
PDF The Ashbya Genome Database (AGD)−a tool for the yeast community and genome biologists / Leandro Hermida, Sophie Brachat, Sylvia Voegeli, Peter Philippsen, and Michael Primig p.D348-D352
PDF CandidaDB: a genome database for Candida albicans pathogenomics / C. d'Enfert, S. Goyard, S. Rodriguez-Arnaveilhe, L. Frangeul, L. Jones, F. Tekaia, O. Bader, Antje Albrecht, L. Castillo, A. Dominguez, J. F. Ernst, C. Fradin, C. Gaillardin, S. Garcia-Sanchez, P. de Groot, B. Hube, F. M. Klis, S. Krishnamurthy, D. Kunze, M.-C. Lopez, A. Mavor, N. Martin, I. Moszer, D. Onesime, J. Perez Martin, R. Sentandreu, E. Valentin, and A. J. P. Brown p.D353-D357
PDF The Candida Genome Database (CGD), a community resource for Candida albicans gene and protein information / Martha B. Arnaud, Maria C. Costanzo, Marek S. Skrzypek, Gail Binkley, Christopher Lane, Stuart R. Miyasato, and Gavin Sherlock p.D358-D363
PDF CYGD: the Comprehensive Yeast Genome Database / U. Guldener, M. Munsterkotter, G. Kastenmuller, N. Strack, J. van Helden, C. Lemer, J. Richelles, S. J. Wodak, J. Garcia-Martinez, J. E. Perez-Ortin, H. Michael, A. Kaps, E. Talla, B. Dujon, B. Andre, J. L. Souciet, J. De Montigny, E. Bon, C. Gaillardin, and H. W. Mewes p.D364-D368
PDF PROPHECY−a database for high-resolution phenomics / Luciano Fernandez-Ricaud, Jonas Warringer, Elke Ericson, Ilona Pylvanainen, Graham J. L. Kemp, Olle Nerman, and Anders Blomberg p.D369-D373
PDF Fungal BLAST and Model Organism BLASTP Best Hits: new comparison resources at the Saccharomyces Genome Database (SGD) / Rama Balakrishnan, Karen R. Christie, Maria C. Costanzo, Kara Dolinski, Selina S. Dwight, Stacia R. Engel, Dianna G. Fisk, Jodi E. Hirschman, Eurie L. Hong, Robert Nash, Rose Oughtred, Marek Skrzypek, Chandra L. Theesfeld, Gail Binkley, Qing Dong, Christopher Lane, Anand Sethuraman, Shuai Weng, David Botstein, and J. Michael Cherry p.D374-D377
PDF The Yeast Resource Center Public Data Repository / Michael Riffle, Lars Malmstrom, and Trisha N. Davis p.D378-D382
PDF WormBase: a comprehensive data resource for Caenorhabditis biology and genomics / Nansheng Chen, Todd W. Harris, Igor Antoshechkin, Carol Bastiani, Tamberlyn Bieri, Darin Blasiar, Keith Bradnam, Payan Canaran, Juancarlos Chan, Chao-Kung Chen, Wen J. Chen, Fiona Cunningham, Paul Davis, Eimear Kenny, Ranjana Kishore, Daniel Lawson, Raymond Lee, Hans-Michael Muller, Cecilia Nakamura, Shraddha Pai, Philip Ozersky, Andrei Petcherski, Anthony Rogers, Aniko Sabo, Erich M. Schwarz, Kimberly Van Auken, Qinghua Wang, Richard Durbin, John Spieth, Paul W. Sternberg, and Lincoln D. Stein p.D383-D389
PDF FlyBase: genes and gene models / Rachel A. Drysdale, Madeline A. Crosby, and The FlyBase Consortium p.D390-D395
PDF MDS_IES_DB: a database of macronuclear and micronuclear genes in spirotrichous ciliates / Andre R. O. Cavalcanti, Thomas H. Clarke, and Laura F. Landweber p.D396-D398
PDF SilkDB: a knowledgebase for silkworm biology and genomics / Jing Wang, Qingyou Xia, Ximiao He, Mingtao Dai, Jue Ruan, Jie Chen, Guo Yu, Haifeng Yuan, Yafeng Hu, Ruiqiang Li, Tao Feng, Chen Ye, Cheng Lu, Jun Wang, Songgang Li, Gane Ka-Shu Wong, Huanming Yang, Jian Wang, Zhonghuai Xiang, Zeyang Zhou, and Jun Yu p.D399-D402
PDF SilkSatDb: a microsatellite database of the silkworm, Bombyx mori / M. D. Prasad, M. Muthulakshmi, K. P. Arunkumar, M. Madhu, V. B. Sreenu, V. Pavithra, B. Bose, H. A. Nagarajaram, K. Mita, T. Shimada, and J. Nagaraju p.D403-D406
PDF EzCatDB: the Enzyme Catalytic-mechanism Database / Nozomi Nagano p.D407-D412
PDF 3did: interacting protein domains of known three-dimensional structure / Amelie Stein, Robert B. Russell, and Patrick Aloy p.D413-D417
PDF The Biomolecular Interaction Network Database and related tools 2005 update / C. Alfarano, C. E. Andrade, K. Anthony, N. Bahroos, M. Bajec, K. Bantoft, D. Betel, B. Bobechko, K. Boutilier, E. Burgess, K. Buzadzija, R. Cavero, C. D'Abreo, I. Donaldson, D. Dorairajoo, M. J. Dumontier, M. R. Dumontier, V. Earles, R. Farrall, H. Feldman, E. Garderman, Y. Gong, R. Gonzaga, V. Grytsan, E. Gryz, V. Gu, E. Haldorsen, A. Halupa, R. Haw, A. Hrvojic, L. Hurrell, R. Isserlin, F. Jack, F. Juma, A. Khan, T. Kon, S. Konopinsky, V. Le, E. Lee, S. Ling, M. Magidin, J. Moniakis, J. Montojo, S. Moore, B. Muskat, I. Ng, J. P. Paraiso, B. Parker, G. Pintilie, R. Pirone, J. J. Salama, S. Sgro, T. Shan, Y. Shu, J. Siew, D. Skinner, K. Snyder, R. Stasiuk, D. Strumpf, B. Tuekam, S. Tao, Z. Wang, M. White, R. Willis, C. Wolting, S. Wong, A. Wrong, C. Xin, R. Yao, B. Yates, S. Zhang, K. Zheng, T. Pawson, B. F. F. Ouellette, and C. W. V. Hogue p.D418-D424
PDF GeneNet in 2005 / E. A. Ananko, N. L. Podkolodny, I. L. Stepanenko, O. A. Podkolodnaya, D. A. Rasskazov, D. S. Miginsky, V. A. Likhoshvai, A. V. Ratushny, N. N. Podkolodnaya, and N. A. Kolchanov p.D425-D427
PDF Reactome: a knowledgebase of biological pathways / G. Joshi-Tope, M. Gillespie, I. Vastrik, P. D'Eustachio, E. Schmidt, B. de Bono, B. Jassal, G.R. Gopinath, G.R. Wu, L. Matthews, S. Lewis, E. Birney, and L. Stein p.D428-D432
PDF STRING: known and predicted protein−protein associations, integrated and transferred across organisms / Christian von Mering, Lars J. Jensen, Berend Snel, Sean D. Hooper, Markus Krupp, Mathilde Foglierini, Nelly Jouffre, Martijn A. Huynen, and Peer Bork p.D433-D437
PDF ChickVD: a sequence variation database for the chicken genome / Jing Wang, Ximiao He, Jue Ruan, Mingtao Dai, Jie Chen, Yong Zhang, Yafeng Hu, Chen Ye, Shengting Li, Lijuan Cong, Lin Fang, Bin Liu, Songgang Li, Jian Wang, David W. Burt, Gane Ka-Shu Wong, Jun Yu, Huanming Yang, and Jun Wang p.D438-D441
PDF DED: Database of Evolutionary Distances / Vamsi Veeramachaneni and Wojciech Makalowski p.D442-D446
PDF Ensembl 2005 / T. Hubbard, D. Andrews, M. Caccamo, G. Cameron, Y. Chen, M. Clamp, L. Clarke, G. Coates, T. Cox, F. Cunningham, V. Curwen, T. Cutts, T. Down, R. Durbin, X. M. Fernandez-Suarez, J. Gilbert, M. Hammond, J. Herrero, H. Hotz, K. Howe, V. Iyer, K. Jekosch, A. Kahari, A. Kasprzyk, D. Keefe, S. Keenan, F. Kokocinsci, D. London, I. Longden, G. McVicker, C. Melsopp, P. Meidl, S. Potter, G. Proctor, M. Rae, D. Rios, M. Schuster, S. Searle, J. Severin, G. Slater, D. Smedley, J. Smith, W. Spooner, A. Stabenau, J. Stalker, R. Storey, S. Trevanion, A. Ureta-Vidal, J. Vogel, S. White, C. Woodwark, and E. Birney p.D447-D453
PDF The UCSC Proteome Browser / Fan Hsu, Tom H. Pringle, Robert M. Kuhn, Donna Karolchik, Mark Diekhans, David Haussler, and W. James Kent p.D454-D458
PDF The Vertebrate Genome Annotation (Vega) database / J. L. Ashurst, C.-K. Chen, J. G. R. Gilbert, K. Jekosch, S. Keenan, P. Meidl, S. M. Searle, J. Stalker, R. Storey, S. Trevanion, L. Wilming, and T. Hubbard p.D459-D465
PDF Improvements to GALA and dbERGE II: databases featuring genomic sequence alignment, annotation and experimental results / Laura Elnitski, Belinda Giardine, Prachi Shah, Yi Zhang, Cathy Riemer, Matthew Weirauch, Richard Burhans, Webb Miller, and Ross C. Hardison p.D466-D470
PDF The Mouse Genome Database (MGD): from genes to mice−a community resource for mouse biology / Janan T. Eppig, Carol J. Bult, James A. Kadin, Joel E. Richardson, Judith A. Blake, and the Mouse Genome Database Group p.D471-D475
PDF Inparanoid: a comprehensive database of eukaryotic orthologs / Kevin P. O'Brien, Maido Remm, and Erik L. L. Sonnhammer p.D476-D480
PDF Polymorphix: a sequence polymorphism database / Eric Bazin, Laurent Duret, Simon Penel, and Nicolas Galtier p.D481-D484
PDF The Rat Genome Database (RGD): developments towards a phenome database / Norberto de la Cruz, Susan Bromberg, Dean Pasko, Mary Shimoyama, Simon Twigger, Jiali Chen, Chin-Fu Chen, Chunyu Fan, Cindy Foote, Gopal R. Gopinath, Glenn Harris, Aubrey Hughes, Yuan Ji, Weihong Jin, Dawei Li, Jedidiah Mathis, Natalya Nenasheva, Jeff Nie, Rajni Nigam, Victoria Petri, Dorothy Reilly, Weiye Wang, Wenhua Wu, Angela Zuniga-Meyer, Lan Zhao, Anne Kwitek, Peter Tonellato, and Howard Jacob p.D485-D491
PDF RatMap−rat genome tools and data / Greta Petersen, Per Johnson, Lars Andersson, Karin Klinga-Levan, Pedro M. Gomez-Fabre, and Fredrik Stahl p.D492-D494
PDF The Adaptive Evolution Database (TAED): a phylogeny based tool for comparative genomics / Christian Roth, Matthew J. Betts, Par Steffansson, Gisle Salensminde, and David A. Liberles p.D495-D497
PDF L1Base: from functional annotation to prediction of active LINE-1 elements / Tobias Penzkofer, Thomas Dandekar, and Tomasz Zemojtel p.D498-D500
PDF NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins / Kim D. Pruitt, Tatiana Tatusova, and Donna R. Maglott p.D501-D504
PDF DG-CST (Disease Gene Conserved Sequence Tags), a database of human−mouse conserved elements associated to disease genes / Angelo Boccia, Mauro Petrillo, Diego di Bernardo, Alessandro Guffanti, Flavio Mignone, Stefano Confalonieri, Lucilla Luzi, Graziano Pesole, Giovanni Paolella, Andrea Ballabio, and Sandro Banfi p.D505-D510
PDF HCAD, closing the gap between breakpoints and genes / Robert Hoffmann, Joaquin Dopazo, Juan C. Cigudosa, and Alfonso Valencia p.D511-D513
PDF Online Mendelian Inheritance in Man (OMIM), a knowledgebase of human genes and genetic disorders / Ada Hamosh, Alan F. Scott, Joanna S. Amberger, Carol A. Bocchini, and Victor A. McKusick p.D514-D517
PDF FESD: a Functional Element SNPs Database in human / Hyo Jin Kang, Kyoung Oak Choi, Byung-Dong Kim, Sangsoo Kim, and Young Joo Kim p.D518-D522
PDF IPD−the Immuno Polymorphism Database / James Robinson, Matthew J. Waller, Peter Stoehr, and Steven G. E. Marsh p.D523-D526
PDF SNPeffect: a database mapping molecular phenotypic effects of human non-synonymous coding SNPs / Joke Reumers, Joost Schymkowitz, Jesper Ferkinghoff-Borg, Francois Stricher, Luis Serrano, and Frederic Rousseau p.D527-D532
PDF Cancer gene expression database (CGED): a database for gene expression profiling with accompanying clinical information of human cancer tissues / Kikuya Kato, Riu Yamashita, Ryo Matoba, Morito Monden, Shinzaburo Noguchi, Toshihisa Takagi, and Kenta Nakai p.D533-D536
PDF HAGR: the Human Ageing Genomic Resources / Joao Pedro de Magalhaes, Joana Costa, and Olivier Toussaint p.D537-D543
PDF T1DBase, a community web-based resource for type 1 diabetes research / Luc J. Smink, Erin M. Helton, Barry C. Healy, Christopher C. Cavnor, Alex C. Lam, Daisy Flamez, Oliver S. Burren, Yang Wang, Geoffrey E. Dolman, David B. Burdick, Vincent H. Everett, Gustavo Glusman, Davide Laneri, Lee Rowen, Helen Schuilenburg, Neil M. Walker, Josyf Mychaleckyj, Linda S. Wicker, Decio L. Eizirik, John A. Todd, and Nathan Goodman p.D544-D549
PDF 5'SAGE: 5'-end Serial Analysis of Gene Expression database / Yasuhiro Kasai, Shin-ichi Hashimoto, Tomoyuki Yamada, Jun Sese, Sumio Sugano, Kouji Matsushima, and Shinichi Morishita p.D550-D552
PDF ArrayExpress−a public repository for microarray gene expression data at the EBI / H. Parkinson, U. Sarkans, M. Shojatalab, N. Abeygunawardena, S. Contrino, R. Coulson, A. Farne, G. Garcia Lara, E. Holloway, M. Kapushesky, P. Lilja, G. Mukherjee, A. Oezcimen, T. Rayner, P. Rocca-Serra, A. Sharma, S. Sansone, and A. Brazma p.D553-D555
PDF GeneTide−Terra Incognita Discovery Endeavor: a new transcriptome focused member of the GeneCards/GeneNote suite of databases / Maxim Shklar, Liora Strichman-Almashanu, Orit Shmueli, Michael Shmoish, Marilyn Safran, and Doron Lancet p.D556-D561
PDF NCBI GEO: mining millions of expression profiles−database and tools / Tanya Barrett, Tugba O. Suzek, Dennis B. Troup, Stephen E. Wilhite, Wing-Chi Ngau, Pierre Ledoux, Dmitry Rudnev, Alex E. Lash, Wataru Fujibuchi, and Ron Edgar p.D562-D566
PDF The Human Anatomic Gene Expression Library (H-ANGEL), the H-Inv integrative display of human gene expression across disparate technologies and platforms / Motohiko Tanino, Marie-Anne Debily, Takuro Tamura, Teruyoshi Hishiki, Osamu Ogasawara, Katsuji Murakawa, Shoko Kawamoto, Kouichi Itoh, Shinya Watanabe, Sandro Jose de Souza, Sandrine Imbeaud, Esther Graudens, Eric Eveno, Phillip Hilton, Yukio Sudo, Janet Kelso, Kazuho Ikeo, Tadashi Imanishi, Takashi Gojobori, Charles Auffray, Winston Hide, and Kousaku Okubo p.D567-D572
PDF SIEGE: Smoking Induced Epithelial Gene Expression Database / Vishal Shah, Sriram Sridhar, Jennifer Beane, Jerome S. Brody, and Avrum Spira p.D573-D579
PDF The Stanford Microarray Database accommodates additional microarray platforms and data formats / Catherine A. Ball, Ihab A. B. Awad, Janos Demeter, Jeremy Gollub, Joan M. Hebert, Tina Hernandez-Boussard, Heng Jin, John C. Matese, Michael Nitzberg, Farrell Wymore, Zachariah K. Zachariah, Patrick O. Brown, and Gavin Sherlock p.D580-D582
PDF DynaProt 2D: an advanced proteomic database for dynamic online access to proteomes and two-dimensional electrophoresis gels / Oliver Drews and Angelika Gorg p.D583-D587
PDF MetaRouter: bioinformatics for bioremediation / Florencio Pazos, David Guijas, Alfonso Valencia, and Victor De Lorenzo p.D588-D592
PDF IMGT, the international ImMunoGeneTics information system(R) / Marie-Paule Lefranc, Veronique Giudicelli, Quentin Kaas, Elodie Duprat, Joumana Jabado-Michaloud, Dominique Scaviner, Chantal Ginestoux, Oliver Clement, Denys Chaume, and Gerard Lefranc p.D593-D597
PDF Organelle DB: a cross-species database of protein localization and function / Nuwee Wiwatwattana and Anuj Kumar p.D598-D604
PDF AMPDB: the Arabidopsis Mitochondrial Protein Database / Joshua L. Heazlewood and A. Harvey Millar p.D605-D610
PDF MITOMAP: a human mitochondrial genome database−2004 update / Marty C. Brandon, Marie T. Lott, Kevin Cuong Nguyen, Syawal Spolim, Shamkant B. Navathe, Pierre Baldi, and Douglas C. Wallace p.D611-D613
PDF BarleyBase−an expression profiling database for plant genomics / Lishuang Shen, Jian Gong, Rico A. Caldo, Dan Nettleton, Dianne Cook, Roger P. Wise, and Julie A. Dickerson p.D614-D618
PDF CR-EST: a resource for crop ESTs / C. Kunne, M. Lange, T. Funke, H. Miehe, T. Thiel, I. Grosse, and U. Scholz p.D619-D621
PDF openSputnik−a database to ESTablish comparative plant genomics using unsaturated sequence collections / Stephen Rudd p.D622-D627
PDF PlantMarkers−a database of predicted molecular markers from plants / Stephen Rudd, Heiko Schoof, and Klaus Mayer p.D628-D632
PDF Arabidopsis nucleolar protein database (AtNoPDB) / John W. S. Brown, Peter J. Shaw, Paul Shaw, and David F. Marshall p.D633-D636
PDF ASRP: the Arabidopsis Small RNA Project Database / Adam M. Gustafson, Edwards Allen, Scott Givan, Daniel Smith, James C. Carrington, and Kristin D. Kasschau p.D637-D640
PDF GeneFarm, structural and functional annotation of Arabidopsis gene and protein families by a network of experts / Sebastien Aubourg, Veronique Brunaud, Clemence Bruyere, Mark Cock, Richard Cooke, Annick Cottet, Arnaud Couloux, Patrice Dehais, Gilbert Deleage, Aymeric Duclert, Manuel Echeverria, Aimee Eschbach, Denis Falconet, Ghislain Filippi, Christine Gaspin, Christophe Geourjon, Jean-Michel Grienenberger, Guy Houlne, Elisabeth Jamet, Frederic Lechauve, Olivier Leleu, Philippe Leroy, Regis Mache, Christian Meyer, Hafed Nedjari, Ioan Negrutiu, Valerie Orsini, Eric Peyretaillade, Cyril Pommier, Jeroen Raes, Jean-Loup Risler, Stephane Riviere, Stephane Rombauts, Pierre Rouze, Michel Schneider, Philippe Schwob, Ian Small, Ghislain Soumayet-Kampetenga, Darko Stankovski, Claire Toffano, Michael Tognolli, Michel Caboche, and Alain Lecharny p.D641-D646
PDF RARGE: a large-scale database of RIKEN Arabidopsis resources ranging from transcriptome to phenome / Tetsuya Sakurai, Masakazu Satou, Kenji Akiyama, Kei Iida, Motoaki Seki, Takashi Kuromori, Takuya Ito, Akihiko Konagaya, Tetsuro Toyoda, and Kazuo Shinozaki p.D647-D650
PDF Rice Annotation Database (RAD): a contig-oriented database for map-based rice genomics / Yuichi Ito, Kohji Arikawa, Baltazar A. Antonio, Isamu Ohta, Shinji Naito, Yoshiyuki Mukai, Atsuko Shimano, Masatoshi Masukawa, Michie Shibata, Mayu Yamamoto, Yukiyo Ito, Junri Yokoyama, Yasumichi Sakai, Katsumi Sakata, Yoshiaki Nagamura, Nobukazu Namiki, Takashi Matsumoto, Kenichi Higo, and Takuji Sasaki p.D651-D655
PDF Brassica ASTRA: an integrated database for Brassica genomic research / Christopher G. Love, Andrew J. Robinson, Geraldine A. C. Lim, Clare J. Hopkins, Jacqueline Batley, Gary Barker, German C. Spangenberg, and David Edwards p.D656-D659
PDF The Legume Information System (LIS): an integrated information resource for comparative legume biology / Michael D. Gonzales, Eric Archuleta, Andrew Farmer, Kamal Gajendran, David Grant, Randy Shoemaker, William D. Beavis, and Mark E. Waugh p.D660-D665
PDF PoMaMo−a comprehensive database for potato genome data / Svenja Meyer, Axel Nagel, and Christiane Gebhardt p.D666-D670
PDF VBASE2, an integrative V gene database / Ida Retter, Hans Helmar Althaus, Richard Munch, and Werner Muller p.D671-D674
PDF Oracle Database 10g: a platform for BLAST search and Regular Expression pattern matching in life sciences / Susie M. Stephens, Jake Y. Chen, Marcel G. Davidson, Shiby Thomas, and Barry M. Trute p.D675-D679

Vol.33 No.22 2005年

所在 請求記号 資料ID 受入日 製本状態 状況 予約人数
1 電子化情報 4200604 2006/01/12 0
PDF AU-rich elements and associated factors: are there unifying principles? / Carine Barreau, Luc Paillard, and H. Beverley Osborne p.7138-7150
PDF Time-resolved fluorescence of 2-aminopurine as a probe of base flipping in M.HhaI-DNA complexes / Robert K. Neely, Dalia Daujotyte, Saulius Grazulis, Steven W. Magennis, David T. F. Dryden, Saulius Klimasauskas, and Anita C. Jones p.6953-6960
PDF Solution structure of ψ32-modified anticodon stem-loop of Escherichia coli tRNAPhe / Javier Cabello-Villegas and Edward P. Nikonowicz p.6961-6971
PDF The leucine rich region of DNA-PKcs contributes to its innate DNA affinity / Shikha Gupta and Katheryn Meek p.6972-6981
PDF Coupling DNA-binding and ATP hydrolysis in Escherichia coli RecQ: role of a highly conserved aromatic-rich sequence / Morgan C. Zittel and James L. Keck p.6982-6991
PDF Identification of a 14mer RNA that recognizes and binds flavin mononucleotide with high affinity / Peter C. Anderson and Sandro Mecozzi p.6992-6999
PDF Oligomerization of HEXIM1 via 7SK snRNA and coiled-coil region directs the inhibition of P-TEFb / Dalibor Blazek, Matjaz Barboric, Jiri Kohoutek, Irena Oven, and B. Matija Peterlin p.7000-7010
PDF Role of the N- and C-terminal extensions on the activity of mammalian mitochondrial translational initiation factor 3 / Kalpana Bhargava and Linda L. Spremulli p.7011-7018
PDF Synthesis and hybridization studies of oligonucleotides containing 1-(2-deoxy-2-α-C-hydroxymethyl-β-D-ribofuranosyl)thymine (2'-α-hm-dT) / Chang Geng Peng and Masad J. Damha p.7019-7028
PDF Structure and energy of a DNA dodecamer under tensile load / Stefano Piana p.7029-7038
PDF Developing a programmed restriction endonuclease for highly specific DNA cleavage / Kristin Eisenschmidt, Thomas Lanio, Andras Simoncsits, Albert Jeltsch, Vera Pingoud, Wolfgang Wende, and Alfred Pingoud p.7039-7047
PDF Molecular flexibility in ab initio drug docking to DNA: binding-site and binding-mode transitions in all-atom Monte Carlo simulations / Remo Rohs, Itai Bloch, Heinz Sklenar, and Zippora Shakked p.7048-7057
PDF Gene expression studies in isolated mitochondria: Solanum tuberosum rps10 is recognized by cognate potato but not by the transcription, splicing and editing machinery of wheat mitochondria / David Choury, Jean-Claude Farre, Xavier Jordana, and Alejandro Araya p.7058-7065
PDF Genomic blueprint of Hahella chejuensis, a marine microbe producing an algicidal agent / Haeyoung Jeong, Joung Han Yim, Choonghwan Lee, Sang-Haeng Choi, Yon Kyoung Park, Sung Ho Yoon, Cheol-Goo Hur, Ho-Young Kang, Dockyu Kim, Hyun Hee Lee, Kyun Hyang Park, Seung-Hwan Park, Hong-Seog Park, Hong Kum Lee, Tae Kwang Oh, and Jihyun F. Kim p.7066-7073
PDF The autoregulatory translational control element of poly(A)-binding protein mRNA forms a heteromeric ribonucleoprotein complex / Gopal P. Patel, Shuhua Ma, and Jnanankur Bag p.7074-7089
PDF Mycobacterium tuberculosis NAD+-dependent DNA ligase is selectively inhibited by glycosylamines compared with human DNA ligase I / Sandeep Kumar Srivastava, Divya Dube, Neetu Tewari, Namrata Dwivedi, Rama Pati Tripathi, and Ravishankar Ramachandran p.7090-7101
PDF Dynamic regulation of replication independent deposition of histone H3 in fission yeast / Eun Shik Choi, Jin A Shin, Hyun Soo Kim, and Yeun Kyu Jang p.7102-7110
PDF DNA base flipping by a base pair-mimic nucleoside / Shu-ichi Nakano, Yuuki Uotani, Kazuya Uenishi, Masayuki Fujii, and Naoki Sugimoto p.7111-7119
PDF Automatic assessment of alignment quality / Timo Lassmann and Erik L. L. Sonnhammer p.7120-7128
PDF Easily denaturing nucleic acids derived from intercalating nucleic acids: thermal stability studies, dual duplex invasion and inhibition of transcription start / Vyacheslav V. Filichev, Birte Vester, Lykke H. Hansen, and Erik B. Pedersen p.7129-7137
PDF Structural polymorphism of the HIV-1 leader region explored by computational methods / Wojciech Kasprzak, Eckart Bindewald, and Bruce A. Shapiro p.7151-7163
PDF Characterization of a catalytically efficient acidic RNA-cleaving deoxyribozyme / Srinivas A. Kandadai and Yingfu Li p.7164-7175
PDF New approaches to the analysis of palindromic sequences from the human genome: evolution and polymorphism of an intronic site at the NF1 locus / Susanna M. Lewis, Shuang Chen, Jeffrey N. Strathern, and Alison J. Rattray p.e186
PDF Use of a mixed tissue RNA design for performance assessments on multiple microarray formats / Karol L. Thompson, Barry A. Rosenzweig, P. Scott Pine, Jacques Retief, Yaron Turpaz, Cynthia A. Afshari, Hisham K. Hamadeh, Michael A. Damore, Michael Boedigheimer, Eric Blomme, Rita Ciurlionis, Jeffrey F. Waring, James C. Fuscoe, Richard Paules, Charles J. Tucker, Thomas Fare, Ernest M. Coffey, Yudong He, Patrick J. Collins, Kurt Jarnagin, Susan Fujimoto, Brigitte Ganter, Gretchen Kiser, Tamma Kaysser-Kranich, Joseph Sina, and Frank D. Sistare p.e187
PDF Rapid and quantitative detection of homologous and non-homologous recombination events using three oligonucleotide MLPA / Petra Langerak, Anders O. H. Nygren, Jan P. Schouten, and Heinz Jacobs p.e188
PDF Iterative in vivo assembly of large and complex transgenes by combining the activities of ψC31 integrase and Cre recombinase / Felix Dafhnis-Calas, Zhengyao Xu, Steve Haines, Sunir K. Malla, Margaret C. M. Smith, and William R. A. Brown p.e189
PDF Quantum dots to monitor RNAi delivery and improve gene silencing / Alice A. Chen, Austin M. Derfus, Salman R. Khetani, and Sangeeta N. Bhatia p.e190
PDF Distortion of quantitative genomic and expression hybridization by Cot-1 DNA: mitigation of this effect / Heather L. Newkirk, Joan H.M. Knoll, and Peter K. Rogan p.e191
PDF Human and mouse oligonucleotide-based array CGH / Paul van den IJssel, Marianne Tijssen, Suet-Feung Chin, Paul Eijk, Beatriz Carvalho, Erik Hopmans, Henne Holstege, Dhinoth Kumar Bangarusamy, Jos Jonkers, Gerrit A. Meijer, Carlos Caldas, and Bauke Ylstra p.e192
PDF Integrating probe-level expression changes across generations of Affymetrix arrays / Laura L. Elo, Leo Lahti, Heli Skottman, Minna Kylaniemi, Riitta Lahesmaa, and Tero Aittokallio p.e193
PDF A novel experimental approach for systematic identification of box H/ACA snoRNAs from eukaryotes / Ai-Di Gu, Hui Zhou, Chun-Hong Yu, and Liang-Hu Qu p.e194
PDF Correlation between sequence conservation and the genomic context after gene duplication / Richard A. Notebaart, Martijn A. Huynen, Bas Teusink, Roland J. Siezen, and Berend Snel p.7176

Vol.33 No.21 2005年

所在 請求記号 資料ID 受入日 製本状態 状況 予約人数
1 電子化情報 4200603 2005/12/14 0
PDF An obligate intermediate along the slow folding pathway of a group II intron ribozyme / Linhui Julie Su, Christina Waldsich, and Anna Marie Pyle p.6674-6687
PDF The genetic map and comparative analysis with the physical map of Trypanosoma brucei / Annette MacLeod, Alison Tweedie, Sarah McLellan, Sonya Taylor, Neil Hall, Matthew Berriman, Najib M. El-Sayed, Michelle Hope, C. Michael R. Turner, and Andy Tait p.6688-6693
PDF Simulation of non-specific protein-mRNA interactions / James Magee and Jim Warwicker p.6694-6699
PDF Identification and characterization of high affinity antisense PNAs for the human unr (upstream of N-ras) mRNA which is uniquely overexpressed in MCF-7 breast cancer cells / Huafeng Fang, Xuan Yue, Xiaoxu Li, and John-Stephen Taylor p.6700-6711
PDF Glucose repression of the Escherichia coli sdhCDAB operon, revisited: regulation by the CRP・cAMP complex / Tae-Wook Nam, Young-Ha Park, Hye-Jin Jeong, Sangryeol Ryu, and Yeong-Jae Seok p.6712-6722
PDF The effect of osmolytes and small molecule on Quadruplex-WC duplex equilibrium: a fluorescence resonance energy transfer study / Niti Kumar and Souvik Maiti p.6723-6732
PDF Lack of MSH2 involvement differentiates V(D)J recombination from other non-homologous end joining events / Mani Larijani, Ahmad Zaheen, Darina Frieder, Yuxun Wang, Gillian E. Wu, Winfried Edelmann, and Alberto Martin p.6733-6742
PDF Improved alignment of nucleosome DNA sequences using a mixture model / Ji-Ping Z. Wang and Jonathan Widom p.6743-6755
PDF An autoregulatory loop controlling orphan nuclear receptor DAX-1 gene expression by orphan nuclear receptor ERRγ / Yun-Yong Park, Seung-Won Ahn, Hye-Jin Kim, Jin-Man Kim, In-Kyu Lee, Heonjoong Kang, and Hueng-Sik Choi p.6756-6768
PDF The interaction site of Flap Endonuclease-1 with WRN helicase suggests a coordination of WRN and PCNA / Sudha Sharma, Joshua A. Sommers, Ronald K. Gary, Erica Friedrich-Heineken, Ulrich Hubscher, and Robert M. Brosh, Jr p.6769-6781
PDF A genomic approach to the identification and characterization of HOXA13 functional binding elements / Colleen D. McCabe and Jeffrey W. Innis p.6782-6794
PDF MPP6 is an exosome-associated RNA-binding protein involved in 5.8S rRNA maturation / Geurt Schilders, Reinout Raijmakers, Jos M. H. Raats, and Ger J. M. Pruijn p.6795-6804
PDF Kruppel-like zinc finger protein Gli-similar 2 (Glis2) represses transcription through interaction with C-terminal binding protein 1 (CtBP1) / Seong-Chul Kim, Yong-Sik Kim, and Anton M. Jetten p.6805-6815
PDF A study on the correlation of nucleotide skews and the positioning of the origin of replication: different modes of replication in bacterial species / Christoforos Nikolaou and Yannis Almirantis p.6816-6822
PDF Analysis of repetitive element DNA methylation by MethyLight / Daniel J. Weisenberger, Mihaela Campan, Tiffany I. Long, Myungjin Kim, Christian Woods, Emerich Fiala, Melanie Ehrlich, and Peter W. Laird p.6823-6836
PDF Cell-penetrating peptide conjugates of peptide nucleic acids (PNA) as inhibitors of HIV-1 Tat-dependent trans-activation in cells / John J. Turner, Gabriela D. Ivanova, Birgit Verbeure, Donna Williams, Andrey A. Arzumanov, Said Abes, Bernard Lebleu, and Michael J. Gait p.6837-6849
PDF CTCF binds the proximal exonic region of hTERT and inhibits its transcription / Stephanie Renaud, Dmitri Loukinov, Fred T. Bosman, Victor Lobanenkov, and Jean Benhattar p.6850-6860
PDF A conserved and species-specific functional interaction between the Werner syndrome-like exonuclease atWEX and the Ku heterodimer in Arabidopsis / Baomin Li, Nathan Conway, Sonia Navarro, Luca Comai, and Lucio Comai p.6861-6867
PDF SNEV is an evolutionarily conserved splicing factor whose oligomerization is necessary for spliceosome assembly / Johannes Grillari, Paul Ajuh, Guido Stadler, Marlies Loscher, Regina Voglauer, Wolfgang Ernst, Janet Chusainow, Frank Eisenhaber, Marion Pokar, Klaus Fortschegger, Martin Grey, Angus I. Lamond, and Hermann Katinger p.6868-6883
PDF The polypyrimidine tract-binding protein stimulates HIF-1α IRES-mediated translation during hypoxia / Bert Schepens, Sandrine A. Tinton, Yanik Bruynooghe, Rudi Beyaert, and Sigrid Cornelis p.6884-6894
PDF Down-regulation of interferon regulatory factor 4 gene expression in leukemic cells due to hypermethylation of CpG motifs in the promoter region / Christina A. Ortmann, Andreas Burchert, Katharina Holzle, Andreas Nitsche, Burghardt Wittig, Andreas Neubauer, and Manuel Schmidt p.6895-6905
PDF Distinct roles for two RAD51-related genes in Trypanosoma brucei antigenic variation / Chris Proudfoot and Richard McCulloch p.6906-6919
PDF The naturally trans-acting ribozyme RNase P RNA has leadzyme properties / Ema Kikovska, Nils-Egil Mikkelsen, and Leif A. Kirsebom p.6920-6930
PDF Visualization of bidirectional initiation of chromosomal DNA replication in a human cell free system / Kathrin Marheineke, Olivier Hyrien, and Torsten Krude p.6931-6941
PDF Transcription regulation of the EcoRV restriction-modification system / Ekaterina Semenova, Leonid Minakhin, Ekaterina Bogdanova, Maxim Nagornykh, Anatoliy Vasilov, Tomasz Heyduk, Alexander Solonin, Marina Zakharova, and Konstantin Severinov p.6942-6951
PDF Faster quantitative real-time PCR protocols may lose sensitivity and show increased variability / Chelsey Hilscher, Wolfgang Vahrson, and Dirk P. Dittmer p.e182
PDF Allele quantification using molecular inversion probes (MIP) / Yuker Wang, Martin Moorhead, George Karlin-Neumann, Matthew Falkowski, Chunnuan Chen, Farooq Siddiqui, Ronald W. Davis, Thomas D. Willis, and Malek Faham p.e183
PDF Enhancing the efficiency of a PCR using gold nanoparticles / Min Li, Yu-Cheng Lin, Chao-Chin Wu, and Hsiao-Sheng Liu p.e184
PDF Rapid and efficient cDNA library screening by self-ligation of inverse PCR products (SLIP) / Roger A. Hoskins, Mark Stapleton, Reed A. George, Charles Yu, Kenneth H. Wan, Joseph W. Carlson, and Susan E. Celniker p.e185

Vol.33 No.20 2005年

所在 請求記号 資料ID 受入日 製本状態 状況 予約人数
1 電子化情報 4200602 2005/12/14 0
PDF A second look at cellular mRNA sequences said to function as internal ribosome entry sites / Marilyn Kozak p.6593-6602
PDF Role of the Bombyx mori R2 element N-terminal domain in the target-primed reverse transcription (TPRT) reaction / Shawn M. Christensen, Arkadiusz Bibillo, and Thomas H. Eickbush p.6461-6468
PDF Long-oligomer microarray profiling in Neurospora crassa reveals the transcriptional program underlying biochemical and physiological events of conidial germination / Takao Kasuga, Jeffrey P. Townsend, Chaoguang Tian, Luz B. Gilbert, Gertrud Mannhaupt, John W. Taylor, and N. Louise Glass p.6469-6485
PDF Kernel-based machine learning protocol for predicting DNA-binding proteins / Nitin Bhardwaj, Robert E. Langlois, Guijun Zhao, and Hui Lu p.6486-6493
PDF Gene identification in novel eukaryotic genomes by self-training algorithm / Alexandre Lomsadze, Vardges Ter-Hovhannisyan, Yury O. Chernoff, and Mark Borodovsky p.6494-6506
PDF The K-loop, a general feature of the Pyrococcus C/D guide RNAs, is an RNA structural motif related to the K-turn / Sophie Nolivos, Agamemnon J. Carpousis, and Beatrice Clouet-d'Orval p.6507-6514
PDF Synthesis of novel poly(dG)-poly(dG)poly(dC) triplex structure by Klenow exo- fragment of DNA polymerase I / Alexander Kotlyar, Natalia Borovok, Tatiana Molotsky, Dmitry Klinov, Benjamin Dwir, and Eli Kapon p.6515-6521
PDF The excess of 5' introns in eukaryotic genomes / Kui Lin and Da-Yong Zhang p.6522-6527
PDF Activation of Sp1-mediated transcription by Rta of Epstein-Barr virus via an interaction with MCAF1 / Li-Kwan Chang, Jian-Ying Chung, Yi-Ren Hong, Takaya Ichimura, Mitsuyoshi Nakao, and Shih-Tung Liu p.6528-6539
PDF StpA protein from Escherichia coli condenses supercoiled DNA in preference to linear DNA and protects it from digestion by DNase I and EcoKI / S. A. Keatch, P. G. Leonard, J. E. Ladbury, and D. T. F. Dryden p.6540-6546
PDF Chimeric peptide nucleic acid compounds modulate splicing of the bcl-x gene in vitro and in vivo / Jeremy E. Wilusz, Sean C. Devanney, and Massimo Caputi p.6547-6554
PDF Human Bex2 interacts with LMO2 and regulates the transcriptional activity of a novel DNA-binding complex / Chunyu Han, Hao Liu, Jin Liu, Kang Yin, Yi Xie, Xiao Shen, Yong Wang, Jiangang Yuan, Boqing Qiang, Yong-Jian Liu, and Xiaozhong Peng p.6555-6565
PDF SIP1/ZEB2 induces EMT by repressing genes of different epithelial cell-cell junctions / Cindy Vandewalle, Joke Comijn, Bram De Craene, Petra Vermassen, Erik Bruyneel, Henriette Andersen, Eugene Tulchinsky, Frans Van Roy, and Geert Berx p.6566-6578
PDF The PSEA promoter element of the Drosophila U1 snRNA gene is sufficient to bring DmSNAPc into contact with 20 base pairs of downstream DNA / Hsien-Tsung Lai, Hsiang Chen, Cheng Li, Kathleen J. McNamara-Schroeder, and William E. Stumph p.6579-6586
PDF A thermodynamic model of transcriptome formation / Tomokazu Konishi p.6587-6592
PDF Structure-specific binding of MeCP2 to four-way junction DNA through its methyl CpG-binding domain / Teca Calcagno Galvao and Jean O. Thomas p.6603-6609
PDF Minimal pre-mRNA substrates with natural and converted sites for full-round U insertion and U deletion RNA editing in trypanosomes / Catherine Cifuentes-Rojas, Kari Halbig, Anastasia Sacharidou, Monica De Nova-Ocampo, and Jorge Cruz-Reyes p.6610-6620
PDF Rotation of DNA around intact strand in human topoisomerase I implies distinct mechanisms for positive and negative supercoil relaxation / Levent Sari and Ioan Andricioaei p.6621-6634
PDF A haploid-specific transcriptional response to irradiation in Saccharomyces cerevisiae / G. Mercier, N. Berthault, N. Touleimat, F. Kepes, G. Fourel, E. Gilson, and M. Dutreix p.6635-6643
PDF AP endonuclease deficiency results in extreme sensitivity to thymidine deprivation / Ken Dornfeld and Monika Johnson p.6644-6653
PDF A retrocopy of a gene can functionally displace the source gene in evolution / Aleksey N. Krasnov, Maria M. Kurshakova, Vasily E. Ramensky, Pavel V. Mardanov, Elena N. Nabirochkina, and Sofia G. Georgieva p.6654-6661
PDF DNA end-directed and processive nuclease activities of the archaeal XPF enzyme / Jennifer A. Roberts and Malcolm F. White p.6662-6670
PDF Towards systematic identification of Plasmodium essential genes by transposon shuttle mutagenesis / Hiroshi Sakamoto, Sabine Thiberge, Susan Akerman, Chris J. Janse, Teresa Gil Carvalho, and Robert Menard p.e174
PDF Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data / Manhong Dai, Pinglang Wang, Andrew D. Boyd, Georgi Kostov, Brian Athey, Edward G. Jones, William E. Bunney, Richard M. Myers, Terry P. Speed, Huda Akil, Stanley J. Watson, and Fan Meng p.e175
PDF Footprinting of mammalian promoters: use of a CpG DNA methyltransferase revealing nucleosome positions at a single molecule level / Mehrnaz Fatemi, Martha M. Pao, Shinwu Jeong, Einav Nili Gal-Yam, Gerda Egger, Daniel J. Weisenberger, and Peter A. Jones p.e176
PDF Bis-aptazyme sensors for hepatitis C virus replicase and helicase without blank signal / Suhyung Cho, Ji-Eun Kim, Bo-Rahm Lee, June-Hyung Kim, and Byung-Gee Kim p.e177
PDF In vivo selection of engineered homing endonucleases using double-strand break induced homologous recombination / Patrick Chames, Jean-Charles Epinat, Sophie Guillier, Amelie Patin, Emmanuel Lacroix, and Frederic Paques p.e178
PDF Real-time quantification of microRNAs by stem-loop RT-PCR / Caifu Chen, Dana A. Ridzon, Adam J. Broomer, Zhaohui Zhou, Danny H. Lee, Julie T. Nguyen, Maura Barbisin, Nan Lan Xu, Vikram R. Mahuvakar, Mark R. Andersen, Kai Qin Lao, Kenneth J. Livak, and Karl J. Guegler p.e179
PDF Multiplexed tandem PCR: gene profiling from small amounts of RNA using SYBR Green detection / Keith K. Stanley and Elektra Szewczuk p.e180
PDF PCR inhibition by reverse transcriptase leads to an overestimation of amplification efficiency / Oleg Suslov and Dennis A. Steindler p.e181
PDF Abundance of correctly folded RNA motifs in sequence space, calculated on computational grids p.6671
創刊・終刊 : Vol. 1, no. 1 (Jan. 1974)-
形態 : v. ; 23-28 cm
別誌名 :

Nucleic acids res

Nucleic acids research

注記 :

Imprint varies: <19-->- Oxford : IRL Press at Oxford University Press

標題言語 : (eng)
本文言語 : (eng)
件名 :

Nucleic acids -- Periodicals

Nucleic Acids -- periodicals

ISSN : 03051048
NCID : AA00760269
番号 :


LCCN : 74641038

ULPN : 0N1051K