EMBL-ALIGN: New Public Alignment Database

Evelyn Camon camon at ebi.ac.uk
Tue Jul 10 08:41:36 EST 2001


            European Bioinformatics Institute (EBI) 
                       Hinxton -JUL 10, 2001

        **New Public Alignment Database and Web Submission Tool**

===================================================================            
 *EMBL-Align Database - a repository for nucleotide and protein        
                        alignments generated from phylogenetic and      
                        population studies                             
                                                                        
                        http://srs.ebi.ac.uk/                         
                                                                      
 *WEBIN-Align Tool    - New web based tool for Submission, 
                        Annotation and Display of Sequence Alignment 
                        Data
            
                        http://www.ebi.ac.uk/embl/Submission/         
===================================================================

To satisfy a growing need for the permanent electronic storage of 
secondary alignment data from comparative genomics and phylogenetics,
the EMBL group are pleased to announce the launch of a new public 
alignment database, 'EMBL-Align' and web based alignment submission 
tool, 'WEBIN-Align'. 

This new tool and database has:

  * Interactive WEB BASED INTERFACE for NUCLEOTIDE and PROTEIN
    alignment data.

  * Common alignment formats are accepted including all Clustal,
    NEXUS (interleaved), Phylip, FASTA and MSF via a secure UPLOAD 
    FACILITY.

  * A CONSERVED FLAT FILE structure between alignment data (EMBL-Align)
    and primary sequence data (EMBL) facilitates consistent display, 
    storage and indexing of alignment data.  
    See example:
    ftp://ftp.ebi.ac.uk/pub/databases/embl/align/ALIGN_000018.dat
 
  * DYNAMIC LINKS TO PRIMARY DATA in EMBL/DDBJ/Genbank and SWISS-PROT  
   
  * FEATURE TABLE options for nucleotide sequence alignments allow 
    users to define boundaries of interest.
    See annotation examples:
    http://www3.ebi.ac.uk/Services/webin/help/webin-align/annotation/

  * CURATION of EMBL-Align is performed by the same biologists 
    as the EMBL database. 

  * UNIQUE ALIGNMENT ACCESSION NUMBERS are assigned for alignments 
    within 2 working days pending review by EMBL biologist 
    (eg. ALIGN_000001).

  * Data is downloadable as an EMBL-Align flat file or Clustal W 
    alignment only format.

  * Alignment data can be retrieved from EBI SRS Server in a variety of 
    Display formats eg. JalView (Java Multiple Alignment Editor)

This database and submission tool represent a systematic and universal 
method of dealing with alignment data from which conclusions 
are drawn thereby requiring long term storage.

If you have any questions about the EMBL-Align database and Webin-Align 
please e-mail the Webin-Align Administrators at align at ebi.ac.uk.

Kind regards
EMBL-Align Database team

This work was supported by EMBL and the European Commission.
============================================================================
Webin-Align Administrators: Evelyn Camon & Helen Parkinson
Webin-Align Developer:      Vincent Lombard




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