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Links tagged with 'europe'

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ArrayExpressDatabase Content

http://www.ebi.ac.uk/arrayexpress/

Expression > Transcript Expression Analysis

Public repository for microarray based gene expression data; contains several curated gene expression datasets.

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tagsalgorithms animals computational biology data collection database management systems europe gene expression profiling genetic databases information dissemination information systems oligonucleotide array sequence analysis proteins software design

BoxShadeTool Content

http://www.ch.embnet.org/software/BOX_form.html

DNA > DNA and Genomic Analysis
Protein > Presentation and Format
Sequence Comparison > Alignment Editing and Visualization

Printing and shading of multiple alignment files.

This content is being maintained by lfalquet.

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tagseurope protein databases protein sequence analysis sequence alignment

EBI patent sequence databaseDatabase Content

http://www.ebi.ac.uk/patentdata/nr/

DNA > Databases

The EBI Patent Sequence Database is a collection of non-redundant patent sequence databases, which cover the EMBL-Bank nucleotides patent class and the patent protein databases and contain value-added annotations from patent documents.

NAR Database Issue 2010
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tagsalgorithms animals biotechnology computational biology europe factual databases gene expression profiling genetic databases humans patents as topic protein databases
setsEuropean Bioinformatics Institute (EBI)

EBI ToolsTool Content

http://www.ebi.ac.uk/Tools/webservices/

Computer Related > Web Services
DNA > Sequence Retrieval and Submission
Education > Directories and Portals
Literature > Search Tools
Protein > 3-D Structure Comparison
Protein > Domains and Motifs
Protein > Sequence Retrieval
RNA > Sequence Retrieval
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Similarity Searching

EBI Tools is a project that aims to provide programmatic access to the various databases and retrieval and analysis services that the European Bioinformatics Institute (EBI) provides through Simple Object Access Protocol (SOAP) and other related web service technologies.

NAR Web Server Issue 2005NAR Web Server Issue 2007NAR Web Server Issue 2009
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tagsbibliographic databases biotechnology computational biology europe genetic databases nucleic acids protein sequence analysis proteins sequence alignment sequence analysis sequence homology systems integration

European Nucleotide ArchiveDatabase Content

http://www.ebi.ac.uk/ena

DNA > Databases

The European Nucleotide Archive (ENA) is Europe's nucleotide-sequence repository. The ENA consists of three main databases: the Sequence Read Archive (SRA), the Trace Archive and EMBL-Bank. New features include extended EMBL-Bank and SRA-data submission services, extended ENA Browser functionality, support for submitting data to the European Genome-phenome Archive (EGA) through SRA, and the launch of a new sequence similarity search service.

This content is being maintained by rasko.

NAR Database Issue 2010NAR Database Issue 2011
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tagsalgorithms animals base sequence computational biology dna europe genetic databases high-throughput nucleotide sequencing humans molecular sequence annotation nucleic acid databases

FlyBaseDatabase Content

http://flybase.bio.indiana.edu/

Model Organisms > Fly

FlyBase is a database of genetic and molecular data for Drosophila. FlyBase includes data on all species from the family Drosophilidae; the primary species represented is Drosophila melanogaster.

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tagsanimals bibliography as topic california chromosome mapping computational biology drosophila drosophila melanogaster drosophila proteins europe factual databases gene expression gene library genetic databases genetic models genetic transcription genome insect genes mutation phenotype publishing research

GXADatabase Content

http://www.ebi.ac.uk/gxa

Expression > Databases

The Gene Expression Atlas is an added-value database providing information about gene expression in different cell types, organism parts, developmental stages, disease states, sample treatments and other biological/experimental conditions. The content of this database derives from curation, re-annotation and statistical analysis of selected data from the ArrayExpress Archive of Functional Genomics Data. A simple interface allows the user to query for differential gene expression either (i) by gene names or attributes such as Gene Ontology terms, or (ii) by biological conditions, e.g. diseases, organism parts or cell types.

NAR Database Issue 2010
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tagsanimals computational biology europe gene expression profiling genetic databases humans nucleic acid databases statistical models

MIAMExpressTool Content

http://www.ebi.ac.uk/microarray/MIAMExpress/miamexpress.html

Expression > Transcript Expression Analysis

MIAME (minimum information about a microarray experiment) compliant microarray data submission tool.

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tagsanimals computational biology data collection europe gene expression profiling genetic databases oligonucleotide array sequence analysis software design

PDBeDatabase Content

http://wwpdb.org

Protein > Databases

The Protein Data Bank in Europe (PDBe) manages the international archive of biomacromolecular structure data as one of the partners in the Worldwide Protein Data Bank. PDBe has developed a browser to access and analyze the structural archive using classification systems. The PDBe web pages that describe individual PDB entries have plain-English summary pages and iconic representations of the contents of an entry (PDBprints). In addition, the information available for structures determined by means of NMR spectroscopy has been expanded. The SIFTS initiative provides extensive mapping data between proteins whose structures are available from the PDB and a host of other biomedical databases.

NAR Database Issue 2011
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tagsbiomolecular nuclear magnetic resonance europe protein conformation protein databases protein sequence analysis proteins

PDBe (formerly MSD)Database Content

http://www.ebi.ac.uk/pdbe/

Protein > Databases

The Protein Data Bank in Europe (PDBe) is the European resource for the collection, organisation and dissemination of data on biological macromolecular structures. The database infrastructure is based on the remediated PDB archive data and a specially designed database for storing information on interactions between proteins and bound molecules. The newly designed 'PDBeView Atlas pages' provide an overview of an individual PDB entry in a user-friendly layout and serves as a starting point to further explore the information available in the PDBe database. PDBe's active involvement with the X-ray crystallography, Nuclear Magnetic Resonance spectroscopy and cryo-Electron Microscopy communities have resulted in improved tools for structure deposition and analysis.

NAR Database Issue 2010
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tagsamino acid sequence amino acid sequence homology animals binding sites computational biology europe genetic databases humans ligands molecular sequence data protein databases tertiary protein structure

Swiss EMBnetTool Content

http://www.ch.embnet.org/

Education > Directories and Portals

Swiss EMBnet is a web portal with links and access to various bioinformatics tools and links to institutes that are involved in bioinformatics.

NAR Web Server Issue 2003
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tagseurope protein databases protein sequence analysis sequence alignment

The European Bioinformatics Institute (EBI)Database Content

http://www.ebi.ac.uk

DNA > Databases
DNA > Sequence Retrieval and Submission
Education > Community
Education > Directories and Portals
Expression > Databases
Expression > Transcript Expression Analysis
Human Genome > Databases
Literature > Databases
Model Organisms > Databases
Other Molecules > Databases
Protein > 3-D Structure Retrieval/Viewing
Protein > Annotation and Function
Protein > Databases
Protein > Domains and Motifs
Protein > Sequence Retrieval
RNA > Databases
Sequence Comparison > Multiple Sequence Alignments
Sequence Comparison > Similarity Searching

The European Bioinformatics Institute (EMBL-EBI) provides access to a comprehensive, integrated set of biological data. Resources include information on genes, genomes, proteins, expression, literature, and molecular interactions as well as many other useful resources.

NAR Database Issue 2010NAR Web Server Issue 2004
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tagsalgorithms animals biology computational biology europe gene expression profiling genetic databases humans nucleic acid databases nucleic acids phylogeny protein databases proteins sequence analysis sequence homology
setsEuropean Bioinformatics Institute (EBI)

Universal Protein Resource (UniProt)Database Content

http://www.uniprot.org

Protein > Databases

Universal Protein Resource (UniProt) maintains a stable, comprehensive, fully classified, richly and accurately annotated protein sequence knowledgebase, with extensive cross-references and querying interfaces freely accessible to the scientific community. UniProt is comprised of four major components, each optimized for different uses: the UniProt Archive, the UniProt Knowledgebase, the UniProt Reference Clusters and the UniProt Metagenomic and Environmental Sequence Database.

NAR Database Issue 2010NAR Database Issue 2011
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tagsalgorithms amino acid sequence animals computational biology europe fungal genome human genome humans nucleic acid databases protein databases protein isoforms protein sequence analysis proteins proteome proteomics systems integration viral genome