Online Services Bioinformatics Biology

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.

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Gene Expression and Regulation Molecular Biology Tools Directories@ Homology Detection Phylogenetic Analysis

Phylogenetic Analysis Genome Databases Protein Analysis Ecological Databases Software@

Transcription Element Search Software (TESS) - Very helpful software for locating and displaying transcription factor binding sites within DNA sequences - from the Univ. of Penn.
Verbumculus Genetic Sequence Analyzer - An interesting tool to discover and visualize over- or under-represented words in genetic sequences. Requires Java support in browser. Also available as a downloadable program.

• Biomolecular Interaction Network Database (BIND) - BIND is a database designed to store full biology descriptions of interactions, molecular complexes and pathways.
• Systems Biology of Photosynthesis - Open web platform for modeling and reverse engineering biology of photosynthetic bioinformatics dynamism.
• Center Structural Biology: Programs and Tools - User guides and worked examples for software applications in structural and molecular biology - from Yale Univ.
• JustBio: Online Tool Set - A Suite of Online tools for analysis of DNA/RNA, Proteins, and Arrays.
• BioModels Database - Resource for storing, searching and retrieving published mathematical biology models of biological interests. Models present in BioModels biology Database are annotated and linked to relevant data biology resources, such as publications, databases of compounds and biology pathways, cont
• BioGRID - Database of genetic and physical interactions. It online services contains interaction data from many sources, including several online services genome/proteome-wide studies, the MIPS database, and BIND.
• Entrez Browser - Retrieves molecular biology data and bibliographic citations from online services the NCBI's integrated databases.
• ReadSeq - Converts amino acid and nucleotide sequence data formats including FASTA, online services GenBank, Phylip and others.
• Geneva Bioinformatics (GeneBio) S.A. - GeneBio provides proteomics software tools and databases including bioinformatics SWISS-PROT, PROSITE, SWISS-2DPAGE and Melanie. We also offer bioinformatics a secure version of ExPASy molecular biology web bioinformatics server.
• NIH BioInformatics and Molecular Analysis Section - Numerous computational tools and resources to unite advances in biology biology with those in computers, informatics, and networking for the genomic biology and genetic analysis fields of BioInformatics; division of the Computational biology Bioscience and Engineering Lab at the
• INCBI Irish National Centre for BioInformatics - Hosts Irish embnet node, Gives links to Database browsing and bioinformatics interrogation at SRS, European (EBI) servers, Blast server for parasite bioinformatics genomes (EBI), US (NCBI) servers, Protein structure prediction, PredictProtein Server bioinformatics in Heidelberg, Gene identification,
• Functional Human Gene Network - Consolidates evidence for gene-gene interactions from HPRD, BIND, Reactome, KEGG, GO, microarray co-expression and Y2H experiments. Beautiful site design.
• BioMolecular Engineering Research Center - Tools and methods for computational biology. Working on bioinformatics secondary protein biology structure prediction, providing reliable profiles, and bioinformatics developing new ways to biology study molecular biology through bioinformatics bioinformatics.
• PathCase: Pathways Database System - An integrated software system for storing, managing, analyzing, and querying online services metabolic pathways at genetic, molecular, biochemical and organism levels.
• LongTrace DNA Sequencing Service - A commercial service for improving the read length online services and quality of ABI 3730, 3130 and 3100 online services DNA sequencing traces. Works via reprocessing of the online services raw peak data before re-base calling. A free online services trial is provided.
• UEA Plant sRNA Toolkit - A suite of tools for the analysis of sRNA datasets online services from high-throughput sequencing experiments.
• YMF - DNA Motif Finding Program - Finds novel transcription factor binding sites by searching biology for over-represented online services (most significant motifs) motifs in DNA biology sequences.
• Information Génomique et Structurale (CNRS) - Online services including T-Coffee, El-Nemo, Casper and FeeBack.
• PubCrawler - An online service for periodically performing predefined searches at NCBI, reporting new results by email or on the web.
• CUBIC: Columbia University Bioinformatics Center - Features PredictProtein service for sequence analysis and protein structure prediction, online services META for single-page interface to validated sequence analysis, PredictNLS for online services prediction and analysis of nuclear localization signals, EVA for evaluation online services of automatic
• Bacterial Identification - Service for the identification of bacteria and fungi online services sequences by sequence alignment.
• QGRS Mapper - Generates information on composition and distribution of putative biology Quadruplex forming G-Rich Sequences (QGRS) in nucleotide sequences biology and NCBI genes.
• ERGO - Online service integrating biological data from genomics, biochemistry, biology genetics and high-throughput expression profiling, to achieve a biology pattern-based analysis of genes and genomes.
• Searching GenBank - Text and similarity searching, provided by the National biology Center for bioinformatics Biotechnology Information (NCBI).
• Genepop on the Web - Online version of the program for populational genetics.
• Mobyle - Framework and web portal specifically designed for the biology integration of bioinformatics bioinformatics software and databanks. Provides biology a tutorial and an bioinformatics interactive guided tour.
• Broad Institute: Software - Scientists at the Broad Institute have developed a biology range of biology software tools for the analysis of biology increasingly large genome-related datasets. biology These are openly available biology to the scientific community.
• GenOuest Bioinformatics Platform - Provides a complete set of bioinformatics tools and biology public databanks updated daily, and a range of biology links to seminars, training courses and platform news.
• SA National Bioinformatics Institute - SANBI aims to bring genome information, computational biology, and analytical online services tools to the South African research community. Hosts SA National online services EMBNet Node, provides links to Sequence Retrieval System (SRS), GeneKraal, online services and TB Genomes Analysis Server. Resea
• Ligand-Gated Ion Channel Database - LGICdb is a curated repository of genes coding bioinformatics for subunits of Ligand-Gated Ion Channels.
• Molecular Interactions Database (MINT) - MINT is a database designed to store functional interactions between bioinformatics biological molecules (proteins, RNA, DNA).
• Simulation Programs for Teaching Population Dynamics - Offers a number of educational programs including LESLIE, LOGIST, CHAOS, online services CELLS, WITCOM, PRED and LEWONTIN.
• Silva: Comprehensive Ribosomal RNA Databases - The provided databases comprise SSU and LSU sequences of all biology three domains. Online search and alignment tools are available and biology the results can be exported in ARB and FASTA format.
• ParAlign - Service using the ParAlign algorithm to compare genetic sequences. Apparently it is as fast as BLAST and as sensitive as Smith-Waterman.
• iHOP - Uses the network of genes and proteins as a natural biology way of accessing the millions of biomedical abstracts in PubMed.
• Gene and Protein Synonyms DataBase - Free service for retrieving all synonyms for a biology given gene bioinformatics or protein name.
• DBD: Transcription Factor Prediction Database - DBD is a database of predicted transcription factors in completely online services sequenced genomes. The predicted transcription factors all contain assignments to online services sequence specific DNA-binding domain families.
• PlasMapper - Online service to generate annotated plasmid maps up online services to online services 20 kbp. Outputs in PNG, JPG, SVG online services or SVGZ online services format.
• Splice Miner - Tool for querying Evidence Viewer Database (EVDB), a online services comprehensive, biology non-redundant collection of splice variant data for online services human genes.
• Your Lab Data - A free web-based Laboratory Information Management System (LIMS), bioinformatics aimed at a typical small molecular biology laboratory bioinformatics allowing members to have their own private forum, bioinformatics events, Electronic Lab Notebook (ELN) and a LIMS bioinformatics area.
• ProPred-I - An online service for predicting MHC binding regions in antigens. It also offers the proteasomal and immunoproteasomal filters to improve the applicability of results.
• Canadian Bioinformatics Help Desk - We provide bioinformatics support, services, servers, and software to Canadian biology researchers.
• QualTrace DNA Sequencing - A free online version of the QualTrace DNA biology sequencing software bioinformatics for quality control analysis of ABI biology 3730 and 3730xl traces bioinformatics files.
• Carnac - A free software tool for analysing the hypothetical secondary structure bioinformatics of a family of homologous RNA.
• My Genomics Resource Centre - A Malaysian Genomics toolset for high-throughput analysis of online services biological bioinformatics data. Must register to use.
• GenePattern - This platform provides over 100 methods for the bioinformatics analysis and bioinformatics visualization of gene expression, copy number, bioinformatics proteomic and other data. bioinformatics It enables biologists to bioinformatics add new analyses and create workflows bioinformatics that can bioinformatics be shared, edited and published.
• gp2fasta - Converts gp files from NCBI GenPept format to online services fasta. Its main purpose is to create fasta online services files with short, but still accurate headers for online services sequence.
• IBM Bioinformatics Group - Tools & Content - Several genomics and proteomics tools, including multiple alignments, biology gene expression analysis, tandem repeat and motif discovery.
• Transterm - Interactive database of mRNA regions and motifs from all species and genomes. Users can browse the pre-computed data tables, search the sequence databases or search their own sequences.
• Mulan - Performs single-coverage local multiple DNA sequence alignments of finished and bioinformatics draft-quality genome sequences. It also provides with an option to bioinformatics predict transcription factor binding sites evolutionarily conserved across multiple species.
• PANDORA - Protein ANnotation Diagram ORiented Analysis service that bioinformatics extracts biological online services information from user supplied sequences.
• Zinc Finger Tools - Helps users design zinc finger transcription factors.
• PIR-International Protein Sequence Database - Produces a non-redundant annotated protein sequence database. biology PIR features online services integrated annotation search to support functional/structural biology genomics and proteomic research.
• Bioverse - Provides a framework for exploring the relationships among the molecular, bioinformatics genomic, proteomic, systems, and organismal worlds.
• Sequence Analysis (Bielefeld University Bioinformatics Server) - Collection of sequence analysis tools.
• Center for Biological Sequence Analysis - Offers more than 30 online services for DNA and protein bioinformatics analysis.
• ProteinLounge - Bioinformatics portal which integrates protein information and many databases and research tools useful for researchers and students. Subscription based service.
• Gene Expression Data Analysis - Normalization tests for differentially expressed genes, clustering, bootstrapping, leave-one-out validation, cross-fold validation.
• Advanced Genetics Wizard - Online program that calculates the distribution of offspring genotypes from online services dominant, codominant and recessive gene crosses, for up to 6 online services genes.
• WebACT - A database of sequence comparisons between all publicly bioinformatics available prokaryotic online services genome sequences, allowing the on-line visualisation bioinformatics of comparisons between up online services to five genomic sequences, bioinformatics using the Artemis Comparison Tool. User online services can perform bioinformatics their comparisons o
• Molecular Informatics Resource for the Analysis of Gene Expression - Information methodologies, tools, and technologies relating to the online services study online services of gene expression and signal transduction from online services the Institute online services for Transcriptional Informatics.
• Docking Server - Provides an internet service that calculates the site, online services geometry biology and energy of small molecules interacting with online services proteins.
• BiNCO-wiki - Provides a collection of information on data sources for biological networks, file formats that save biological networks and software to analyze the information of these sources.
• Scansite - Scansite searches for motifs within proteins that are online services likely to be phosphorylated by specific protein kinases online services or bind to domains such as SH2 domains, online services 14-3-3 domains or PDZ domains.
• BIOBASE - The focus of the GBF project "Molecular Bioinformatics of Gene online services Regulation" are regulatory genomic signals and regions that govern transcriptional online services control based on TRANSFAC - The Transcription Factor Database. It online services compiles data about gene regulato
• Splice Center - Suite of user-friendly tools that evaluate the impact online services of bioinformatics gene splicing variation on specific molecular biology online services techniques.
• PEDANT - Completely automatic and exhaustive analysis of protein sequence online services sets online services - from individual sequences to complete genomes
• TFM Explorer - Scans sequences for potential Transcription Factor binding sites using Patser biology and TRANSFAC.
• InstaSeq - Google-based search engine for DNA, RNA or Protein sequences.

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