Online Services Bioinformatics Biology

Online Services

With the explosion in the amount of DNA and protein sequence available, many organizations offer web-based access to programs which process this information in some way. This category entails the many different services that are open for use by private or public organizations for the purpose of biological computation or services (i.e. informative bioinformatics databases).

• - Convert various aminoacid and nucleotide sequence data formats including FASTA, GenBank, Phylip and others.
  
• - Features PredictProtein service for sequence analysis and protein structure prediction, META for single-page interface to validated sequence analysis, PredictNLS for prediction and analysis of nuclear localization signals, EVA for evaluation of automatic
  
• - 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.
  
• - MINT is a database designed to store functional interactions between biological molecules (proteins, RNA, DNA).
  
• - A service that allows clinical laboratories to send test results to referring physicians over the internet. A help forum and FAQ pages are included.
  
• - Transterm - an 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.
  
• - DNA sequence assembly and contig formation.
  
• - BIND is a database designed to store full descriptions of interactions, molecular complexes and pathways.
  
• - Protein structure prediction (Protein Structural Classes, Secondary Structure Prediction), immunological methods (ProPred), genomics & proteomics (Genome Wise Sequence Similarity Search, Spectral Repeat Finder, 2D Gel Comparison, protein coding gene
  
• - Describes the families of structurally-related catalytic and carbohydrate-binding functional domains of enzymes that degrade, modify, or create glycosidic bonds.
  
• - Several genomics and proteomics tools, including multiple alignments, gene expression analysis, tandem repeat and motif discovery.
  
• - Powerful, state-of-the-art, 2-D analysis software package with user-friendly interface from the Swiss Institute of Bioinformatics (SIB).
  
• - Numerous computational tools and resources to unite advances in biology with those in computers, informatics, and networking for the genomic and genetic analysis fields of BioInformatics; division of the Computational Bioscience and Engineering Lab at the
  
• - SPORes is a website for protein structure prediction using the web browser as an interface to software that runs of web servers or other resources available over the world wide web.
  
• - Completely automatic and exhaustive analysis of protein sequence sets - from individual sequences to complete genomes
  
• - Bioinformatics portal which integrates protein information and many databases and research tools useful for researchers and students. Subscription based service.
  
• - The focus of the GBF project "Molecular Bioinformatics of Gene Regulation" are regulatory genomic signals and regions that govern transcriptional control based on TRANSFAC - The Transcription Factor Database. It compiles data about gene regulato
  
• - Online version of the program for populational genetics.
  
• - Retrieves molecular biology data and bibliographic citations from the NCBI's integrated databases.
  
• - A Suite of Online tools for analysis of DNA/RNA, Proteins, and Arrays.
  
• - 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.
  
• - Online computational resources for PCR primer selection, similarity searching- from the Univ. of Minnesota.
  
• - User guides and worked examples for software applications in structural and molecular biology - from Yale Univ.
  
• - 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,
  
• - 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. Resea
  
• - The DIP catalogs experimentally determined interactions between proteins while combining information from a variety of sources to create a single, consistent set of protein-protein interactions.
  
• - 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.
  
• - Finds novel transcription factor binding sites by searching for over-represented (most significant motifs) motifs in DNA sequences.
  
• - Information methodologies, tools, and technologies relating to the study of gene expression and signal transduction from the Institute for Transcriptional Informatics.
  
• - produces a comprehensive, non-redundant, and expertly annotated protein sequence database. PIR features integrated annotation search to support functional/structural genomics and proteomic research.
  
• - Text and similarity searching, provided by the National Center for Biotechnology Information (NCBI).
  
• - Scansite searches for motifs within proteins that are likely to be phosphorylated by specific protein kinases or bind to domains such as SH2 domains, 14-3-3 domains or PDZ domains.
  
• - An Internet biomedical data-mining tool for organizing search information gathered from textual or genetic databases - from the NIH National Cancer Inst.
  
• - Israel Biodiversity Information System (BioGIS) is a Geographical Information System established to create a national database of the flora and fauna of Israel. The system is open to the public and provides advanced tools for querying, analyzing, modeling
  
• - Search for motifs and paterns within amino acid and nucleotide databases
  
• - Gene sequence extraction of regions around the 5'-end (promoter) and/or the translation initiation site (TIS) of a gene.
  
• - Collection of sequence analysis tools.
  
• - 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 GRID is a database of genetic and physical interactions. It contains interaction data from many sources, including several genome/proteome-wide studies, the MIPS database, and BIND
  
• - XEMBL provides access to the EMBL/GenBank/DDBJ Nucleotide Sequence Database, providing output in various XML standards.
  
• - A protein phosphorylation database and phosphoproteomic dataset repository
  
• - Colorful visualization of Sequence Frequency. Includes Human and Mouse Genomic Sequences. Evaluate uniqueness of graphically.
  
  

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