Surf these sites: AG BIODV: Software Development for Molecular Biology -- AG BIODV is a research group at the GSF National Research Center for Environment and Health. We develop software tools for sequence and promoter analysis. BLAST -- NCBI''s sequence similarity search tool designed to support analysis of nucleotide and protein databases. Bielefeld University Bioinformatics Server -- BiBiServ supports Internet-based collaborative research, software development and distance education in bioinformatics. BioMolecular Engineering Research Center -- Tools and methods for computational biology. Working on secondary protein structure prediction, providing reliable profiles, and developing new ways to study molecular biology through Bioinformatics. Bioinformatics WWW-Server -- Detection and assessment of similarity between distantly related sequences by means of ''Generalized Profiles'' with protein sequence analysis software - from the Swiss Inst. for Experimental Cancer Research. Bioinformatics and Biological Computing -- Comprehensive bioinformatics site, with access to multiple database searching & sequence analysis tools - from the Weizmann Inst. of Science. Bioinformatics for Molecular Genetics -- Downloadable programs for DNA sequence, evolutionary conservation, and restriction endonuclease analysis - from the City of Hope National Medical Center. Biology WorkBench -- A online interface for searching protein & nucleic acid sequence databases & analyzing sequence data - from the Univ. of Illinois. Brutlag Bioinformatics Group -- Online programs for predicting biological function of genes and proteins from their primary sequence, predicting structure of protein and DNA from its sequence motifs, and understanding how and when genes are expressed - from Stanford Univ. CUBIC: Columbia University Bioinformatics Center -- Services - PredictProtein for sequence analysis and protein structure prediction , META for single-page interface to validated sequence analysis, Links to WWW services for molecular biology, and analysing entire genomes Combinatorial Extension of Polypeptides -- Method for finding 3-D similarities in protein structures from the UCSD Supercomputer Center. DISCO Research Group -- Computational Biology and Natural Computing. DNA & Protein Analysis Toolkit -- Compendium of extremely useful computing services from The Rockefeller Univ. DoubleTwist, Inc. -- An application service provider/Internet portal devoted to empowering life scientists by providing genetic research environments that leverage information technology and the WWW to simplify and accelerate gene discovery. EBI, the European Bioinformatics Institute -- The one-stop portal to all your bioinformatics needs: the European Bioinformatics Institute (EMBL-EBI) is a centre for research and services in bioinformatics. EMBL 3D modeling -- biocomputing unit, 3d modeling on protein structure, project services and databases. Entrez Browser -- Retrieves molecular biology data and bibliographic citations from the NCBI''s integrated databases. GeneCards: Human Genes, Proteins, and Diseases -- Database of concise information about human genes (and their mouse homologs), focusing on their cellular functions and medical aspects - from the Weizmann Inst. of Science. GeneDoc -- a full featured Multiple Sequence Alignment Editor, Analyser and Shading Utility for Windows. Geneva Bioinformatics (GeneBio) S.A. -- GeneBio provides proteomics software tools and databases including SWISS-PROT, PROSITE, SWISS-2DPAGE and Melanie. We also offer a secure version of ExPASy molecular biology web server. HUJI Bioinformatics -- Bioinformatics Server - A Guide to Database Searching, Sequence Analysis, GCG Databases and Documentation Databases: Nucleic Acids, Proteins and Genomes, Useful Bioinformatics Sites on the web, Workshops, and Courses Human Genome Sequencing Center Search Launcher -- On-going project to organize molecular biology-related search and analysis services available on the WWW by function, providing a single point-of-entry for related searches - from the Baylor College of Medicine. INCBI Irish National Centre for BioInformatics -- Hosts Irish embnet node, Gives links to Database browsing and interrogation at SRS, European (EBI) servers, Blast server for parasite genomes (EBI), US (NCBI) servers, Protein structure prediction, PredictProtein Server in Heidelberg, Gene identification, splice sites, exons, introns and a list of gene structure prediction programs InterPro - The Integrated Resource of Protein Domains and Functional Sites. -- A database built from Pfam, PRINTS and PROSITE. Links to the Genetic World: Informatics -- A compilation of genetic informatics links (databases, data analysis) Linux Software Encyclopedia - Bioinformatics -- Page contains various links to Bioinformatics software for Linux. MOTIF Bioinformatics Resources -- Multiple Bioinformatic Resource links from the Brutlag Group @ Stanford Univ. MedMiner -- An Internet biomedical data-mining tool for organizing search info. gathered from textual or genetic databases - from the NIH National Cancer Inst. Melanie II 2-D Analysis Software -- Powerful, state-of-the-art, 2-D analysis software package with user-friendly interface from the Swiss Institute of Bioinformatics (SIB). Meta-MEME v2.0.1 -- Software toolkit for building & using motif-based hidden Markov models of DNA and proteins - from the Univ. of California-San Diego. Microarray Database Gateway -- Tools for managing, accessing, and analyzing cDNA microarray data generated by the NCI Div. of Clinical Sciences µArray Center - from the BioInformatics & Molecular Analysis Section of the NIH Center for Info. Technology. Molecular Biology Computation Resources (MBCR) -- Includes the MBCR Guide to Computer Aided Sequence Analysis, homology searching, databases, & lists of useful links for molecular biologists - from the Baylor College of Medicine. Molecular Informatics Resource for the Analysis of Gene Expression -- Information methodologies, tools, & technologies relating to the study of gene expression & signal transduction from the Institute for Transcriptional Informatics. NIH BioInformatics & Molecular Analysis Section -- Numerous computational tools & resources to unite advances in biology with those in computers, informatics, & networking for the genomic & genetic analysis fields of BioInformatics; division of the Computational Bioscience & Engineering Lab at the Center for Information Technology. Official REBASE Homepage -- The restriction enzyme database - from New England Biolabs. Proteomics Tools -- Online software for protein analysis from the Swiss Institute of Bioinformatics (SIB). Quaternary Structure Prediction -- This is an experimental bioinformatics server. Classifies protein sequences as homodimers or non-homodimers. Applications: metabolic reconstruction, protein structure and function assignment, drug-design, etc. SA National Bioinformatics Institute -- SANBI aims to bring genome information, computational biology, and analytical tools to the South African research community. Hosts SA National EMBNet Node, provides links to Sequence Retrieval System (SRS), GeneKraal, and TB Genomes Analysis Server. Research in Sequence Tag Alignment and Consensus Knowledgebase (STACK). Databases include BLAST search in Mycobacterium genome. SWISS-MODEL -- SWISS-MODEL is an Automated Protein Modelling Server running at the GlaxoWellcome Experimental Research in Geneva, Switzerland. SWISS-PROT + TrEMBL -- The SWISS-PROT database contains high-quality annotation, is non-redundant and cross-referenced to many other databases. SWISS-PROT is accompanied by TrEMBL, a computer-annotated supplement, which contains the translations of all coding sequences (CDS) present in the EMBL Nucleotide Sequence Database, which are not yet integrated into SWISS-PROT. Searching GenBank -- Text and similarity searching, provided by the National Center for Biotechnology Information (NCBI). Sequence Analysis Software -- Several basic software tools for DNA sequence analysis - from Attotron Biosensor Corp. Swiss Institute of Bioinformatics (SIB) -- An Institute working in state-of-the-art research, education and services in the field of bioinformatics in Switzerland with international collaborations. The SIB is operating the ExPASy proteomics server, as well as the Swiss node of EMBnet. Swiss-Pdb Viewer -- User-friendly interface allowing analysis of several proteins at once, including superimposition to deduce structural alignments, compare active sites, etc. From GlaxoWellcome Experimental Research, Geneva, Switzerland. TRANSFAC-The Transcription Factor Database -- Very thorough compilation of transcriptional regulatory protein factors & their cognate gene promoter elements along with DNA sequence search & analysis programs - from GBF, Braunschweig, Germany. The Bioperl Project -- International open source collaboration aimed at creating freely available perl software for computational biology and bioinformatics. The CMS-SDSC Molecular Biology Resource -- Excellent compendium of Internet-accessible analytical tools & resources for Molecular Biology, Biotechnology, Molecular Evolution, Biochemistry, and Biomolecular Modeling from the UCSD Supercomputer Center. The Functional Genomics Jump Station -- Information, links, and news on all aspects of functional genomic analysis - from the Istituto Scientifico-San Raffaele, IT. The PredictProtein Server -- Most widely used server for analysing protein sequences, searching protein databases, & predicting protein structure - from Columbia Univ. The Protein Information Resource -- The PIR, in collaboration with the Munich Information Center for Protein Sequences (MIPS) and the Japanese International Protein Sequence Database (JIPID) maintains the PIR-International Protein Sequence Database --- a comprehensive, annotated, and non-redundant set of protein sequence databases in which entries are classified into family groups and alignments of each group are available. National Biomedical Research Foundation is affiliated with Georgetown University Medical Center. Tools and Technology in Computational Biology -- Source code & research papers including protein & molecular modeling, genetic algorithms, force fields, & drug design. Transcription Element Search Software (TESS) -- Very helpful software for locating and displaying transcription factor binding sites within DNA sequences - from the Univ. of Penn. Virtual Genome Center -- Online computational resources for PCR primer selection, similarity searching, etc. - from the Univ. of Minnesota.
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