EMBL Nucleotide Sequence Database: developments in 2005

The EMBL Nucleotide Sequence Database () at the EMBL European Bioinformatics Institute, UK, offers a comprehensive set of publicly available nucleotide sequence and annotation, freely accessible to all. Maintained in collaboration with partners DDBJ and GenBank, coverage includes whole genome sequencing project data, directly submitted sequence, sequence recorded in support of patent applications and much more. The database continues to offer submission tools, data retrieval facilities and user support. In 2005, the volume of data offered has continued to grow exponentially. In addition to the newly presented data, the database encompasses a range of new data types generated by novel technologies, offers enhanced presentation and searchability of the data and has greater integration with other data resources offered at the EBI and elsewhere. In stride with these developing data types, the database has continued to develop submission and retrieval tools to maximise the information content of submitted data and to offer the simplest possible submission routes for data producers. New developments, the submission process, data retrieval and access to support are presented in this paper, along with links to sources of further information.

[1]  T. Matise,et al.  Nucleotide Sequence Database Policies , 2002, Science.

[2]  Cathy H. Wu,et al.  The Universal Protein Resource (UniProt): an expanding universe of protein information , 2005, Nucleic Acids Res..

[3]  Rodrigo Lopez,et al.  Public web-based services from the European Bioinformatics Institute , 2004, Nucleic Acids Res..

[4]  Philipp Bucher,et al.  HTPSELEX—a database of high-throughput SELEX libraries for transcription factor binding sites , 2006, Nucleic Acids Res..

[5]  Emily Dimmer,et al.  The Gene Ontology Annotation (GOA) Database: sharing knowledge in Uniprot with Gene Ontology , 2004, Nucleic Acids Res..

[6]  Vincent Lombard,et al.  EMBL-Align: a new public nucleotide and amino acid multiple sequence alignment database , 2002, Bioinform..

[7]  Martin Vingron,et al.  IntAct: an open source molecular interaction database , 2004, Nucleic Acids Res..

[8]  David L. Wheeler,et al.  GenBank , 2015, Nucleic Acids Res..

[9]  Ingmar Reuter,et al.  Integr8 and Genome Reviews: integrated views of complete genomes and proteomes , 2004, Nucleic Acids Res..

[10]  Cathy H. Wu,et al.  InterPro, progress and status in 2005 , 2004, Nucleic Acids Res..

[11]  Hideaki Sugawara,et al.  DDBJ in preparation for overview of research activities behind data submissions , 2005, Nucleic Acids Res..

[12]  Kim Rutherford,et al.  Artemis: sequence visualization and annotation , 2000, Bioinform..

[13]  Catherine Brooksbank,et al.  The European Bioinformatics Institute's data resources: towards systems biology , 2004, Nucleic Acids Res..

[14]  Heather J Munden,et al.  The Genome of the Kinetoplastid Parasite, Leishmania major , 2005, Science.