Journals in DBLP
Nicola Harte , Ville Silventoinen , Emmanuel Quevillon , Stephen Robinson , Kimmo Kallio , Xavier Fustero , Pravin Patel , Petteri Jokinen , Rodrigo Lopez Public web-based services from the European Bioinformatics Institute. [Citation Graph (0, 0)][DBLP ] Journal ] Tien Huynh , Isidore Rigoutsos The web server of IBM's Bioinformatics and Pattern Discovery group: 2004 update. [Citation Graph (0, 0)][DBLP ] Journal ] Karsten Hokamp , Kenneth H. Wolfe PubCrawler: keeping up comfortably with PubMed and GenBank. [Citation Graph (0, 0)][DBLP ] Journal ] Scott McGinnis , Thomas L. Madden BLAST: at the core of a powerful and diverse set of sequence analysis tools. [Citation Graph (0, 0)][DBLP ] Journal ] John B. Spalding , Peter J. Lammers BLAST Filter and GraphAlign: rule-based formation and analysis of sets of related DNA and protein sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Burkhard Morgenstern DIALIGN: multiple DNA and protein sequence alignment at BiBiServ. [Citation Graph (0, 0)][DBLP ] Journal ] Olivier Poirot , Karsten Suhre , Chantal Abergel , Eamonn O'Toole , Cédric Notredame 3DCoffee@igs: a web server for combining sequences and structures into a multiple sequence alignment. [Citation Graph (0, 0)][DBLP ] Journal ] Michael Brudno , Rasmus Steinkamp , Burkhard Morgenstern The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Ji Qi , Hong Luo , Bailin Hao CVTree: a phylogenetic tree reconstruction tool based on whole genomes. [Citation Graph (0, 0)][DBLP ] Journal ] Radek Zika , Jan Paces , Adam Pavlícek , Václav Paces WAViS server for handling, visualization and presentation of multiple alignments of nucleotide or amino acids sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Jahnavi C. Prasad , Sandor Vajda , Carlos J. Camacho Consensus alignment server for reliable comparative modeling with distant templates. [Citation Graph (0, 0)][DBLP ] Journal ] Masato Ohtsuka , Shohei Horiuchi , Jerzy K. Kulski , Minoru Kimura , Hidetoshi Inoko CHOP: visualization of #wobbling' and isolation of highly conserved regions from aligned DNA sequences. [Citation Graph (0, 0)][DBLP ] Journal ] William C. Ray MAVL and StickWRLD: visually exploring relationships in nucleic acid sequence alignments. [Citation Graph (0, 0)][DBLP ] Journal ] Dmitry A. Afonnikov , Nikolay A. Kolchanov CRASP: a program for analysis of coordinated substitutions in multiple alignments of protein sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Soon-Heng Tan , Zhuo Zhang , See-Kiong Ng ADVICE: Automated Detection and Validation of Interaction by Co-Evolution. [Citation Graph (0, 0)][DBLP ] Journal ] Zhuo Zhang , See-Kiong Ng InterWeaver: interaction reports for discovering potential protein interaction partners with online evidence. [Citation Graph (0, 0)][DBLP ] Journal ] Darby Tien-Hau Chang , Chien-Yu Chen , Wen-Chin Chung , Yen-Jen Oyang , Hsueh-Fen Juan , Hsuan-Cheng Huang ProteMiner-SSM: a web server for efficient analysis of similar protein tertiary substructures. [Citation Graph (0, 0)][DBLP ] Journal ] Brian P. Kelley , Bingbing Yuan , Fran Lewitter , Roded Sharan , Brent R. Stockwell , Trey Ideker PathBLAST: a tool for alignment of protein interaction networks. [Citation Graph (0, 0)][DBLP ] Journal ] Kyungsook Han , Byong-Hyon Ju , Haemoon Jung WebInterViewer: visualizing and analyzing molecular interaction networks. [Citation Graph (0, 0)][DBLP ] Journal ] Stephen R. Comeau , David W. Gatchell , Sandor Vajda , Carlos J. Camacho ClusPro: a fully automated algorithm for protein-protein docking. [Citation Graph (0, 0)][DBLP ] Journal ] Chittibabu Guda , Sifang Lu , Eric D. Scheeff , Philip E. Bourne , Ilya N. Shindyalov CE-MC: a multiple protein structure alignment server. [Citation Graph (0, 0)][DBLP ] Journal ] Shandar Ahmad , Akinori Sarai Qgrid: clustering tool for detecting charged and hydrophobic regions in proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Kirill Rotmistrovsky , Wonhee Jang , Gregory D. Schuler A web server for performing electronic PCR. [Citation Graph (0, 0)][DBLP ] Journal ] Andreas Henschel , Frank Buchholz , Bianca Habermann DEQOR: a web-based tool for the design and quality control of siRNAs. [Citation Graph (0, 0)][DBLP ] Journal ] Peter Dudek , Didier Picard TROD: T7 RNAi Oligo Designer. [Citation Graph (0, 0)][DBLP ] Journal ] Yuki Naito , Tomoyuki Yamada , Kumiko Ui-Tei , Shinichi Morishita , Kaoru Saigo siDirect: highly effective, target-specific siRNA design software for mammalian RNA interference. [Citation Graph (0, 0)][DBLP ] Journal ] Bingbing Yuan , Robert Latek , Markus Hossbach , Thomas Tuschl , Fran Lewitter siRNA Selection Server: an automated siRNA oligonucleotide prediction server. [Citation Graph (0, 0)][DBLP ] Journal ] Ye Ding , Chi Yu Chan , Charles E. Lawrence Sfold web server for statistical folding and rational design of nucleic acids. [Citation Graph (0, 0)][DBLP ] Journal ] Hélène Touzet , Olivier Perriquet CARNAC: folding families of related RNAs. [Citation Graph (0, 0)][DBLP ] Journal ] Jianhua Ruan , Gary D. Stormo , Weixiong Zhang ILM: a web server for predicting RNA secondary structures with pseudoknots. [Citation Graph (0, 0)][DBLP ] Journal ] Xiaomin Ying , Hong Luo , Jingchu Luo , Wuju Li RDfolder: a web server for prediction of RNA secondary structure. [Citation Graph (0, 0)][DBLP ] Journal ] Peter Bengert , Thomas Dandekar Riboswitch finder tool for identification of riboswitch RNAs. [Citation Graph (0, 0)][DBLP ] Journal ] André Lambert , Jean-Fred Fontaine , Matthieu Legendre , Fabrice Leclerc , Emmanuelle Permal , François Major , Harald Putzer , Olivier Delfour , Bernard Michot , Daniel Gautheret The ERPIN server: an interface to profile-based RNA motif identification. [Citation Graph (0, 0)][DBLP ] Journal ] Sònia Casillas , Antonio Barbadilla PDA: a pipeline to explore and estimate polymorphism in large DNA databases. [Citation Graph (0, 0)][DBLP ] Journal ] Stefan Weckx , Peter De Rijk , Christine Van Broeckhoven , Jurgen Del-Favero SNPbox: web-based high-throughput primer design from gene to genome. [Citation Graph (0, 0)][DBLP ] Journal ] Wolfgang Helmberg , Raymond Dunivin , Michael Feolo The sequencing-based typing tool of dbMHC: typing highly polymorphic gene sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Jean-Marie Rouillard , Woonghee Lee , Gilles Truan , Xiaolian Gao , Xiaochuan Zhou , Erdogan Gulari Gene2Oligo: oligonucleotide design for in vitro gene synthesis. [Citation Graph (0, 0)][DBLP ] Journal ] Namshin Kim , Seokmin Shin , Sanghyuk Lee ASmodeler: gene modeling of alternative splicing from genomic alignment of mRNA, EST and protein sequences. [Citation Graph (0, 0)][DBLP ] Journal ] William G. Fairbrother , Gene W. Yeo , Rufang Yeh , Paul Goldstein , Matthew Mawson , Phillip A. Sharp , Christopher B. Burge RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrate exons. [Citation Graph (0, 0)][DBLP ] Journal ] Anason S. Halees , Zhiping Weng PromoSer: improvements to the algorithm, visualization and accessibility. [Citation Graph (0, 0)][DBLP ] Journal ] Wynand Alkema , Öjvind Johansson , Jens Lagergren , Wyeth W. Wasserman MSCAN: identification of functional clusters of transcription factor binding sites. [Citation Graph (0, 0)][DBLP ] Journal ] Giulio Pavesi , Paolo Mereghetti , Giancarlo Mauri , Graziano Pesole Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes. [Citation Graph (0, 0)][DBLP ] Journal ] Yueyi Liu , Liping Wei , Serafim Batzoglou , Douglas L. Brutlag , Jun S. Liu , X. Shirley Liu A suite of web-based programs to search for transcriptional regulatory motifs. [Citation Graph (0, 0)][DBLP ] Journal ] D. Y. Oshchepkov , E. E. Vityaev , Dmitry A. Grigorovich , Elena V. Ignatieva , T. M. Khlebodarova SITECON: a tool for detecting conservative conformational and physicochemical properties in transcription factor binding site alignments and for site recognition. [Citation Graph (0, 0)][DBLP ] Journal ] Peter M. Haverty , Martin C. Frith , Zhiping Weng CARRIE web service: automated transcriptional regulatory network inference and interactive analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Gabriela G. Loots , Ivan Ovcharenko rVISTA 2.0: evolutionary analysis of transcription factor binding sites. [Citation Graph (0, 0)][DBLP ] Journal ] Matti Kankainen , Liisa Holm POBO, transcription factor binding site verification with bootstrapping. [Citation Graph (0, 0)][DBLP ] Journal ] Hong Pan , Li Zuo , Vidhu Choudhary , Zhuo Zhang , Shoi Houi Leow , Fui Teen Chong , Yingliang Huang , Victor Wui Siong Ong , Bijayalaxmi Mohanty , Sin Lam Tan , S. P. T. Krishnan , Vladimir B. Bajic Dragon TF Association Miner: a system for exploring transcription factor associations through text-mining. [Citation Graph (0, 0)][DBLP ] Journal ] Zhenjun Hu , Yutao Fu , Anason S. Halees , Szymon M. Kielbasa , Zhiping Weng SeqVISTA: a new module of integrated computational tools for studying transcriptional regulation. [Citation Graph (0, 0)][DBLP ] Journal ] Lucía Conde , Juan M. Vaquerizas , Javier Santoyo , Fátima Al-Shahrour , Sergio Ruiz-Llorente , Mercedes Robledo , Joaquín Dopazo PupaSNP Finder: a web tool for finding SNPs with putative effect at transcriptional level. [Citation Graph (0, 0)][DBLP ] Journal ] Albin Sandelin , Wyeth W. Wasserman , Boris Lenhard ConSite: web-based prediction of regulatory elements using cross-species comparison. [Citation Graph (0, 0)][DBLP ] Journal ] Roded Sharan , Asa Ben-Hur , Gabriela G. Loots , Ivan Ovcharenko CREME: Cis-Regulatory Module Explorer for the human genome. [Citation Graph (0, 0)][DBLP ] Journal ] Vinsensius B. Vega , Dhinoth Kumar Bangarusamy , Lance D. Miller , Edison T. Liu , Chin-Yo Lin BEARR: Batch Extraction and Analysis of cis-Regulatory Regions. [Citation Graph (0, 0)][DBLP ] Journal ] Klaus Karl Lohmann , Claus-Wilhelm von der Lieth GlycoFragment and GlycoSearchMS: web tools to support the interpretation of mass spectra of complex carbohydrates. [Citation Graph (0, 0)][DBLP ] Journal ] Kiyoko F. Aoki , Atsuko Yamaguchi , Nobuhisa Ueda , Tatsuya Akutsu , Hiroshi Mamitsuka , Susumu Goto , Minoru Kanehisa KCaM (KEGG Carbohydrate Matcher): a software tool for analyzing the structures of carbohydrate sugar chains. [Citation Graph (0, 0)][DBLP ] Journal ] Kelly A. Frazer , Lior Pachter , Alexander Poliakov , Edward M. Rubin , Inna Dubchak VISTA: computational tools for comparative genomics. [Citation Graph (0, 0)][DBLP ] Journal ] Ivan Ovcharenko , Marcelo A. Nobrega , Gabriela G. Loots , Lisa Stubbs ECR Browser: a tool for visualizing and accessing data from comparisons of multiple vertebrate genomes. [Citation Graph (0, 0)][DBLP ] Journal ] José L. Oliver , Pedro Carpena , Michael Hackenberg , Pedro Bernaola-Galván IsoFinder: computational prediction of isochores in genome sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Marco Masseroli , Dario Martucci , Francesco Pinciroli GFINDer: Genome Function INtegrated Discoverer through dynamic annotation, statistical analysis, and mining. [Citation Graph (0, 0)][DBLP ] Journal ] Jan Krüger , Alexander Sczyrba , Stefan Kurtz , Robert Giegerich e2g: an interactive web-based server for efficiently mapping large EST and cDNA sets to genomic sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Leila Taher , Oliver Rinner , Saurabh Garg , Alexander Sczyrba , Burkhard Morgenstern AGenDA: gene prediction by cross-species sequence comparison. [Citation Graph (0, 0)][DBLP ] Journal ] Mario Stanke , Rasmus Steinkamp , Stephan Waack , Burkhard Morgenstern AUGUSTUS: a web server for gene finding in eukaryotes. [Citation Graph (0, 0)][DBLP ] Journal ] Detlef Groth , Hans Lehrach , Steffen Hennig GOblet: a platform for Gene Ontology annotation of anonymous sequence data. [Citation Graph (0, 0)][DBLP ] Journal ] Sailu Yellaboina , Jayashree Seshadri , M. Senthil Kumar , Akash Ranjan PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes. [Citation Graph (0, 0)][DBLP ] Journal ] Burkhard Rost , Guy Yachdav , Jinfeng Liu The PredictProtein server. [Citation Graph (0, 0)][DBLP ] Journal ] Aron Marchler-Bauer , Stephen H. Bryant CD-Search: protein domain annotations on the fly. [Citation Graph (0, 0)][DBLP ] Journal ] Marco Pagni , Vassilios Ioannidis , Lorenzo Cerutti , Monique Zahn-Zabal , C. Victor Jongeneel , Laurent Falquet MyHits: a new interactive resource for protein annotation and domain identification. [Citation Graph (0, 0)][DBLP ] Journal ] François Enault , Karsten Suhre , Olivier Poirot , Chantal Abergel , Jean-Michel Claverie Phydbac2: improved inference of gene function using interactive phylogenomic profiling and chromosomal location analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Richard D. LeDuc , Gregory K. Taylor , Yong-Bin Kim , Thomas E. Januszyk , Lee H. Bynum , Joseph V. Sola , John S. Garavelli , Neil L. Kelleher ProSight PTM: an integrated environment for protein identification and characterization by top-down mass spectrometry. [Citation Graph (0, 0)][DBLP ] Journal ] Victor G. Levitsky RECON: a program for prediction of nucleosome formation potential. [Citation Graph (0, 0)][DBLP ] Journal ] Johann Lenffer , Paulo Lai , Wafaa El Mejaber , Asif M. Khan , Judice L. Y. Koh , Paul T. J. Tan , Seng Hong Seah , Vladimir Brusic CysView: protein classification based on cysteine pairing patterns. [Citation Graph (0, 0)][DBLP ] Journal ] Lesheng Kong , Bernett Teck Kwong Lee , Joo Chuan Tong , Tin Wee Tan , Shoba Ranganathan SDPMOD: an automated comparative modeling server for small disulfide-bonded proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Brian D. O'Connor , Todd O. Yeates GDAP: a web tool for genome-wide protein disulfide bond prediction. [Citation Graph (0, 0)][DBLP ] Journal ] Duane Szafron , Paul Lu , Russell Greiner , David S. Wishart , Brett Poulin , Roman Eisner , Zhiyong Lu , John Anvik , Cam Macdonell , Alona Fyshe , David Meeuwis Proteome Analyst: custom predictions with explanations in a web-based tool for high-throughput proteome annotations. [Citation Graph (0, 0)][DBLP ] Journal ] Chittibabu Guda , Purnima Guda , Eoin Fahy , Shankar Subramaniam MITOPRED: a web server for the prediction of mitochondrial proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Karsten Hiller , Andreas Grote , Maurice Scheer , Richard Münch , Dieter Jahn PrediSi: prediction of signal peptides and their cleavage positions. [Citation Graph (0, 0)][DBLP ] Journal ] Panagiotis K. Papasaikas , Pantelis G. Bagos , Zoi I. Litou , Vassilis J. Promponas , Stavros J. Hamodrakas PRED-GPCR: GPCR recognition and family classification server. [Citation Graph (0, 0)][DBLP ] Journal ] Manoj Bhasin , G. P. S. Raghava GPCRpred: an SVM-based method for prediction of families and subfamilies of G-protein coupled receptors. [Citation Graph (0, 0)][DBLP ] Journal ] Masafumi Arai , Hironori Mitsuke , Masami Ikeda , Jun-Xiong Xia , Takashi Kikuchi , Masanobu Satake , Toshio Shimizu ConPred II: a consensus prediction method for obtaining transmembrane topology models with high reliability. [Citation Graph (0, 0)][DBLP ] Journal ] Frode S. Berven , Kristian Flikka , Harald B. Jensen , Ingvar Eidhammer BOMP: a program to predict integral ?barrel outer membrane proteins encoded within genomes of Gram-negative bacteria. [Citation Graph (0, 0)][DBLP ] Journal ] Pantelis G. Bagos , Theodore Liakopoulos , Ioannis C. Spyropoulos , Stavros J. Hamodrakas PRED-TMBB: a web server for predicting the topology of ?barrel outer membrane proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Mohd. Zeeshan Ansari , Gitanjali Yadav , Rajesh S. Gokhale , Debasisa Mohanty NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynthases. [Citation Graph (0, 0)][DBLP ] Journal ] Manoj Bhasin , G. P. S. Raghava ESLpred: SVM-based method for subcellular localization of eukaryotic proteins using dipeptide composition and PSI-BLAST. [Citation Graph (0, 0)][DBLP ] Journal ] Yutao Fu , Martin C. Frith , Peter M. Haverty , Zhiping Weng MotifViz: an analysis and visualization tool for motif discovery. [Citation Graph (0, 0)][DBLP ] Journal ] Olga V. Kalinina , Pavel S. Novichkov , Andrey A. Mironov , Mikhail S. Gelfand , Aleksandra B. Rakhmaninova SDPpred: a tool for prediction of amino acid residues that determine differences in functional specificity of homologous proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Cédric Muller , Mathieu Denis , Laurent Gentzbittel , Thomas Faraut The Iccare web server: an attempt to merge sequence and mapping information for plant and animal species. [Citation Graph (0, 0)][DBLP ] Journal ] Véronique Giudicelli , Denys Chaume , Marie-Paule Lefranc IMGT/V-QUEST, an integrated software program for immunoglobulin and T cell receptor VJ and VDJrearrangement analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Kei-Hoi Cheung , Janet Hager , Deyun Pan , Ranjana Srivastava , Shrikant Mane , Yuli Li , Perry L. Miller , Kenneth R. Williams KARMA: a web server application for comparing and annotating heterogeneous microarray platforms. [Citation Graph (0, 0)][DBLP ] Journal ] Lars Juhl Jensen , Julien Lagarde , Christian von Mering , Peer Bork ArrayProspector: a web resource of functional associations inferred from microarray expression data. [Citation Graph (0, 0)][DBLP ] Journal ] Purvesh Khatri , Pratik Bhavsar , Gagandeep Bawa , Sorin Draghici Onto-Tools: an ensemble of web-accessible, ontology-based tools for the functional design and interpretation of high-throughput gene expression experiments. [Citation Graph (0, 0)][DBLP ] Journal ] Karsten Hokamp , Fiona M. Roche , Michael Acab , Marc-Etienne Rousseau , Byron Kuo , David Goode , Dana Aeschliman , Jenny Bryan , Lorne A. Babiuk , Robert E. W. Hancock , Fiona S. L. Brinkman ArrayPipe: a flexible processing pipeline for microarray data. [Citation Graph (0, 0)][DBLP ] Journal ] Hee-Joon Chung , Mingoo Kim , Chan Hee Park , Jihoon Kim , Ju Han Kim ArrayXPath: mapping and visualizing microarray gene-expression data with integrated biological pathway resources using Scalable Vector Graphics. [Citation Graph (0, 0)][DBLP ] Journal ] Misha Kapushesky , Patrick Kemmeren , Aedín C. Culhane , Steffen Durinck , Jan Ihmels , Christine Körner , Meelis Kull , Aurora Torrente , Ugis Sarkans , Jaak Vilo , Alvis Brazma Expression Profiler: next generation - an online platform for analysis of microarray data. [Citation Graph (0, 0)][DBLP ] Journal ] Fiona M. Roche , Karsten Hokamp , Michael Acab , Lorne A. Babiuk , Robert E. W. Hancock , Fiona S. L. Brinkman ProbeLynx: a tool for updating the association of microarray probes to genes. [Citation Graph (0, 0)][DBLP ] Journal ] Suresh Karanam , Carlos S. Moreno CONFAC: automated application of comparative genomic promoter analysis to DNA microarray datasets. [Citation Graph (0, 0)][DBLP ] Journal ] Javier Herrero , Juan M. Vaquerizas , Fátima Al-Shahrour , Lucía Conde , Álvaro Mateos , Javier Santoyo , Ramón Díaz-Uriarte , Joaquín Dopazo New challenges in gene expression data analysis and the extended GEPAS. [Citation Graph (0, 0)][DBLP ] Journal ] Stefano Volinia , Rita Evangelisti , Francesca Francioso , Diego Arcelli , Massimo Carella , Paolo Gasparini GOAL: automated Gene Ontology analysis of expression profiles. [Citation Graph (0, 0)][DBLP ] Journal ] Matthias Heinig , Dmitrij Frishman STRIDE: a web server for secondary structure assignment from known atomic coordinates of proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Maxim Shatsky , Oranit Dror , Dina Schneidman-Duhovny , Ruth Nussinov , Haim J. Wolfson BioInfo3D: a suite of tools for structural bioinformatics. [Citation Graph (0, 0)][DBLP ] Journal ] R. Gautier , Anne-Claude Camproux , Pierre Tufféry SCit: web tools for protein side chain conformation analysis. [Citation Graph (0, 0)][DBLP ] Journal ] Alexander V. Diemand , Holger Scheib iMolTalk: an interactive, internet-based protein structure analysis server. [Citation Graph (0, 0)][DBLP ] Journal ] Rajesh Nair , Burkhard Rost LOCnet and LOCtarget: sub-cellular localization for structural genomics targets. [Citation Graph (0, 0)][DBLP ] Journal ] Jun-tao Guo , Kyle Ellrott , Won Jae Chung , Dong Xu , Sergei Passovets , Ying Xu PROSPECT-PSPP: an automatic computational pipeline for protein structure prediction. [Citation Graph (0, 0)][DBLP ] Journal ] David E. Kim , Dylan Chivian , David Baker Protein structure prediction and analysis using the Robetta server. [Citation Graph (0, 0)][DBLP ] Journal ] Andrew E. Torda , James B. Procter , Thomas Huber Wurst: a protein threading server with a structural scoring function, sequence profiles and optimized substitution matrices. [Citation Graph (0, 0)][DBLP ] Journal ] Jessica Shapiro , Douglas L. Brutlag FoldMiner and LOCK 2: protein structure comparison and motif discovery on the web. [Citation Graph (0, 0)][DBLP ] Journal ] Giridhar Chukkapalli , Chittibabu Guda , Shankar Subramaniam SledgeHMMER: a web server for batch searching the Pfam database. [Citation Graph (0, 0)][DBLP ] Journal ] Frédéric Guyon , Anne-Claude Camproux , Joëlle Hochez , Pierre Tufféry SA-Search: a web tool for protein structure mining based on a Structural Alphabet. [Citation Graph (0, 0)][DBLP ] Journal ] Vladimir A. Ivanisenko , Sergey S. Pintus , Dmitry A. Grigorovich , Nikolay A. Kolchanov PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins. [Citation Graph (0, 0)][DBLP ] Journal ] T. Andrew Binkowski , Patrick Freeman , Jie Liang pvSOAR: detecting similar surface patterns of pocket and void surfaces of amino acid residues on proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Balvinder Singh PepBuild: a web server for building structure data of peptides/proteins. [Citation Graph (0, 0)][DBLP ] Journal ] Fan Xue , Zhong Gu , Jin-An Feng LINKER: a web server to generate peptide sequences with extended conformation. [Citation Graph (0, 0)][DBLP ] Journal ] William J. Salerno , Samuel M. Seaver , Brian R. Armstrong , Ishwar Radhakrishnan MONSTER: inferring non-covalent interactions in macromolecular structures from atomic coordinate data. [Citation Graph (0, 0)][DBLP ] Journal ] Jinfeng Liu , Burkhard Rost CHOP: parsing proteins into structural domains. [Citation Graph (0, 0)][DBLP ] Journal ] Chi-Ren Shyu , Pin-Hao Chi , Grant J. Scott , Dong Xu ProteinDBS: a real-time retrieval system for protein structure comparison. [Citation Graph (0, 0)][DBLP ] Journal ] Krzysztof Ginalski , Marcin von Grotthuss , Nick V. Grishin , Leszek Rychlewski Detecting distant homology with Meta-BASIC. [Citation Graph (0, 0)][DBLP ] Journal ] Yuzhen Ye , Adam Godzik FATCAT: a web server for flexible structure comparison and structure similarity searching. [Citation Graph (0, 0)][DBLP ] Journal ] Joanna M. Sasin , Janusz M. Bujnicki COLORADO3D, a web server for the visual analysis of protein structures. [Citation Graph (0, 0)][DBLP ] Journal ] Rajarshi Maiti , Gary H. Van Domselaar , Haiyan Zhang , David S. Wishart SuperPose: a simple server for sophisticated structural superposition. [Citation Graph (0, 0)][DBLP ] Journal ] Goran Neshich , Walter Rocchia , Adauto L. Mancini , Michel E. B. Yamagishi , Paula R. Kuser , Renato Fileto , Christian Baudet , Ivan P. Pinto , Arnaldo J. Montagner , Juliana F. Palandrani , João N. Krauchenco , Renato C. Torres , Savio Souza , Roberto C. Togawa , Roberto H. Higa Java Protein Dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure.Citation Graph (0, 0)][DBLP ] Journal ] Anirban Bhaduri , Ganesan Pugalenthi , N. Gupta , Ramanathan Sowdhamini iMOT: an interactive package for the selection of spatially interacting motifs. [Citation Graph (0, 0)][DBLP ] Journal ] Jean-Baptiste Claude , Karsten Suhre , Cédric Notredame , Jean-Michel Claverie , Chantal Abergel CaspR: a web server for automated molecular replacement using homology modelling. [Citation Graph (0, 0)][DBLP ] Journal ] Karsten Suhre , Yves-Henri Sanejouand ElNémo: a normal mode web server for protein movement analysis and the generation of templates for molecular replacement. [Citation Graph (0, 0)][DBLP ] Journal ] Ian W. Davis , Laura Weston Murray , Jane S. Richardson , David C. Richardson MOLPROBITY: structure validation and all-atom contact analysis for nucleic acids and their complexes. [Citation Graph (0, 0)][DBLP ] Journal ] Neil Maudling , Terri K. Attwood FAN: fingerprint analysis of nucleotide sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Tiziana Castrignanò , Alessandro Canali , Giorgio Grillo , Sabino Liuni , Flavio Mignone , Graziano Pesole CSTminer: a web tool for the identification of coding and noncoding conserved sequence tags through cross-species genome comparison. [Citation Graph (0, 0)][DBLP ] Journal ] Yuri L. Orlov , V. N. Potapov Complexity: an internet resource for analysis of DNA sequence complexity. [Citation Graph (0, 0)][DBLP ] Journal ] Sven Mika , Burkhard Rost NLProt: extracting protein names and sequences from papers. [Citation Graph (0, 0)][DBLP ] Journal ] Brian D. Halligan , Victor Ruotti , Weihong Jin , Scott Laffoon , Simon N. Twigger , Edward A. Dratz ProMoST (Protein Modification Screening Tool): a web-based tool for mapping protein modifications on two-dimensional gels. [Citation Graph (0, 0)][DBLP ] Journal ] P. Selvarani , V. Shanthi , C. K. Rajesh , S. Saravanan , Krishna Sekar BSDD: Biomolecules Segment Display Device's web-based interactive display tool. [Citation Graph (0, 0)][DBLP ] Journal ] Jeff Reneker , Chi-Ren Shyu , Peiyu Zeng , Joseph C. Polacco , Walter Gassmann ACMES: fast multiple-genome searches for short repeat sequences with concurrent cross-species information retrieval. [Citation Graph (0, 0)][DBLP ] Journal ] Mikhail Rozanov , Uwe Plikat , Colombe Chappey , Andrey Kochergin , Tatiana A. Tatusova A web-based genotyping resource for viral sequences. [Citation Graph (0, 0)][DBLP ] Journal ] Xiaoli Dong , Paul Stothard , Ian J. Forsythe , David S. Wishart PlasMapper: a web server for drawing and auto-annotating plasmid maps. [Citation Graph (0, 0)][DBLP ] Journal ] Todd J. Dolinsky , Jens E. Nielsen , James Andrew McCammon , Nathan A. Baker PDB2PQR: an automated pipeline for the setup of Poisson-Boltzmann electrostatics calculations. [Citation Graph (0, 0)][DBLP ] Journal ] Lee Whitmore , B. A. Wallace DICHROWEB, an online server for protein secondary structure analyses from circular dichroism spectroscopic data. [Citation Graph (0, 0)][DBLP ] Journal ] Jorge Fernandez-de-Cossio , Luis Javier Gonzalez , Yoshinori Satomi , Lazaro Betancourt , Yassel Ramos , Vivian Huerta , Abel Amaro , Vladimir Besada , Gabriel Padron , Naoto Minamino , Toshifumi Takao Isotopica: a tool for the calculation and viewing of complex isotopic envelopes. [Citation Graph (0, 0)][DBLP ] Journal ] Z. W. Cao , Y. Xue , L. Y. Han , B. Xie , H. Zhou , C. J. Zheng , H. H. Lin , Y. Z. Chen MoViES: molecular vibrations evaluation server for analysis of fluctuational dynamics of proteins and nucleic acids. [Citation Graph (0, 0)][DBLP ] Journal ] 