《核酸研究》.2004年.第We期
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- EDITORIAL
- BLAST: at the core of a powerful and diverse set of sequence analysis
- PubCrawler: keeping up comfortably with PubMed and GenBank
- The web server of IBM's Bioinformatics and Pattern Discovery group: 20
- Public web-based services from the European Bioinformatics Institute
- 3DCoffee@igs: a web server for combining sequences and structures into
- DIALIGN: multiple DNA and protein sequence alignment at BiBiServ
- BLAST Filter and GraphAlign: rule-based formation and analysis of sets
- WAViS server for handling, visualization and presentation of multiple
- CVTree: a phylogenetic tree reconstruction tool based on whole genomes
- The CHAOS/DIALIGN WWW server for multiple alignment of genomic sequenc
- CRASP: a program for analysis of coordinated substitutions in multiple
- MAVL and StickWRLD: visually exploring relationships in nucleic acid s
- CHOP: visualization of ‘wobbling’ and isolation of highly conserved re
- Consensus alignment server for reliable comparative modeling with dist
- ProteMiner-SSM: a web server for efficient analysis of similar protein
- InterWeaver: interaction reports for discovering potential protein int
- ADVICE: Automated Detection and Validation of Interaction by Co-Evolut
- ClusPro: a fully automated algorithm for protein–protein docking
- WebInterViewer: visualizing and analyzing molecular interaction networ
- PathBLAST: a tool for alignment of protein interaction networks
- A web server for performing electronic PCR
- Qgrid: clustering tool for detecting charged and hydrophobic regions i
- CE-MC: a multiple protein structure alignment server
- siRNA Selection Server: an automated siRNA oligonucleotide prediction
- siDirect: highly effective, target-specific siRNA design software for
- TROD: T7 RNAi Oligo Designer
- DEQOR: a web-based tool for the design and quality control of siRNAs
- ILM: a web server for predicting RNA secondary structures with pseudok
- CARNAC: folding families of related RNAs
- Sfold web server for statistical folding and rational design of nuclei
- The ERPIN server: an interface to profile-based RNA motif identificati
- Riboswitch finder—a tool for identification of riboswitch RNAs
- RDfolder: a web server for prediction of RNA secondary structure
- Gene2Oligo: oligonucleotide design for in vitro gene synthesis
- The sequencing-based typing tool of dbMHC: typing highly polymorphic g
- SNPbox: web-based high-throughput primer design from gene to genome
- PDA: a pipeline to explore and estimate polymorphism in large DNA data
- PromoSer: improvements to the algorithm, visualization and accessibili
- RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrat
- ASmodeler: gene modeling of alternative splicing from genomic alignmen
- A suite of web-based programs to search for transcriptional regulatory
- Weeder Web: discovery of transcription factor binding sites in a set o
- MSCAN: identification of functional clusters of transcription factor b
- rVISTA 2.0: evolutionary analysis of transcription factor binding site
- CARRIE web service: automated transcriptional regulatory network infer
- SITECON: a tool for detecting conservative conformational and physicoc
- PupaSNP Finder: a web tool for finding SNPs with putative effect at tr
- SeqVISTA: a new module of integrated computational tools for studying
- Dragon TF Association Miner: a system for exploring transcription fact
- POBO, transcription factor binding site verification with bootstrappin
- BEARR: Batch Extraction and Analysis of cis-Regulatory Regions
- CREME: Cis-Regulatory Module Explorer for the human genome
- ConSite: web-based prediction of regulatory elements using cross-speci
- VISTA: computational tools for comparative genomics
- KCaM(KEGG Carbohydrate Matcher): a software tool for analyzing the st
- GlycoFragment and GlycoSearchMS: web tools to support the interpretati
- GFINDer: Genome Function INtegrated Discoverer through dynamic annotat
- IsoFinder: computational prediction of isochores in genome sequences
- ECR Browser: a tool for visualizing and accessing data from comparison
- AUGUSTUS: a web server for gene finding in eukaryotes
- AGenDA: gene prediction by cross-species sequence comparison
- e2g: an interactive web-based server for efficiently mapping large EST
- The PredictProtein server
- PredictRegulon: a web server for the prediction of the regulatory prot
- GOblet: a platform for Gene Ontology annotation of anonymous sequence
- ProSight PTM: an integrated environment for protein identification and
- Phydbac2: improved inference of gene function using interactive phylog
- MyHits: a new interactive resource for protein annotation and domain i
- CD-Search: protein domain annotations on the fly
- RECON: a program for prediction of nucleosome formation potential
- SDPMOD: an automated comparative modeling server for small disulfide-b
- CysView: protein classification based on cysteine pairing patterns
- GDAP: a web tool for genome-wide protein disulfide bond prediction
- PrediSi: prediction of signal peptides and their cleavage positions
- MITOPRED: a web server for the prediction of mitochondrial proteins
- Proteome Analyst: custom predictions with explanations in a web-based
- ConPred II: a consensus prediction method for obtaining transmembrane
- GPCRpred: an SVM-based method for prediction of families and subfamili
- PRED-GPCR: GPCR recognition and family classification server
- NRPS-PKS: a knowledge-based resource for analysis of NRPS/PKS megasynt
- PRED-TMBB: a web server for predicting the topology of ?-barrel outer
- BOMP: a program to predict integral ?-barrel outer membrane proteins e
- The Iccare web server: an attempt to merge sequence and mapping inform
- SDPpred: a tool for prediction of amino acid residues that determine d
- MotifViz: an analysis and visualization tool for motif discovery
- ESLpred: SVM-based method for subcellular localization of eukaryotic p
- ArrayProspector: a web resource of functional associations inferred fr
- KARMA: a web server application for comparing and annotating heterogen
- IMGT/V-QUEST, an integrated software program for immunoglobulin and T
- ArrayXPath: mapping and visualizing microarray gene-expression data wi
- ArrayPipe: a flexible processing pipeline for microarray data
- Onto-Tools: an ensemble of web-accessible, ontology-based tools for th
- CONFAC: automated application of comparative genomic promoter analysis
- ProbeLynx: a tool for updating the association of microarray probes to
- Expression Profiler: next generation—an online platform for analysis o
- BioInfo3D: a suite of tools for structural bioinformatics
- STRIDE: a web server for secondary structure assignment from known ato
- GOAL: automated Gene Ontology analysis of expression profiles
- New challenges in gene expression data analysis and the extended GEPAS
- LOCnet and LOCtarget: sub-cellular localization for structural genomic
- iMolTalk: an interactive, internet-based protein structure analysis se
- SCit: web tools for protein side chain conformation analysis
- Wurst: a protein threading server with a structural scoring function,
- Protein structure prediction and analysis using the Robetta server
- PROSPECT-PSPP: an automatic computational pipeline for protein structu
- SA-Search: a web tool for protein structure mining based on a Structur
- SledgeHMMER: a web server for batch searching the Pfam database
- FoldMiner and LOCK 2: protein structure comparison and motif discovery
- PepBuild: a web server for building structure data of peptides/protein
- pvSOAR: detecting similar surface patterns of pocket and void surfaces
- PDBSiteScan: a program for searching for active, binding and posttrans
- ProteinDBS: a real-time retrieval system for protein structure compari
- CHOP: parsing proteins into structural domains
- ONSTER: inferring non-covalent interactions in macromolecular structur
- LINKER: a web server to generate peptide sequences with extended confo
- COLORADO3D, a web server for the visual analysis of protein structures
- FATCAT: a web server for flexible structure comparison and structure s
- Detecting distant homology with Meta-BASIC
- iMOT: an interactive package for the selection of spatially interactin
- JavaProtein Dossier: a novel web-based data visualization tool for com
- SuperPose: a simple server for sophisticated structural superposition
- FAN: fingerprint analysis of nucleotide sequences
- MOLPROBITY: structure validation and all-atom contact analysis for nuc
- CaspR: a web server for automated molecular replacement using homology
- NLProt: extracting protein names and sequences from papers
- Complexity: an internet resource for analysis of DNA sequence complexi
- CSTminer: a web tool for the identification of coding and noncoding co
- ACMES: fast multiple-genome searches for short repeat sequences with c
- BSDD: Biomolecules Segment Display Device—a web-based interactive disp
- ProMoST(Protein Modification Screening Tool): a web-based tool for ma
- PDB2PQR: an automated pipeline for the setup of Poisson–Boltzmann elec
- PlasMapper: a web server for drawing and auto-annotating plasmid maps
- A web-based genotyping resource for viral sequences
- MoViES: molecular vibrations evaluation server for analysis of fluctua
- Isotopica: a tool for the calculation and viewing of complex isotopic
- DICHROWEB, an online server for protein secondary structure analyses f
- ElNémo: a normal mode web server for protein movement analysis and the