[Bionews] UniProt release 12

Cecilia Arighi via bionews%40net.bio.net (by cna5 from georgetown.edu)
Wed Jul 25 12:14:30 EST 2007


Dear Subscriber,

 

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                  UniProt Release 12 Note

                        24-Jul-2007

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CONTENTS

1. Introduction

2. Database description

3. Current release contents

4. Description of changes made to UniProt since release 11.0

5. Forthcoming changes

6. How to link to UniProt

7. Feedback

8. Acknowledgements

9. Terms of use

10. Citation

11. Contact

 

1. INTRODUCTION

The UniProt Consortium--European Bioinformatics Institute (EBI), Swiss 
Institute of Bioinformatics (SIB) and Protein Information Resource 
(PIR)--is pleased to announce UniProt Release 12 (24-Jul-2007). UniProt 
is updated bi-weekly, and can be accessed online for searches or 
download at http://www.uniprot.org.

 

2. DATABASE DESCRIPTION

The Universal Protein Resource (UniProt), a collaboration between the 
European Bioinformatics Institute (EBI), the Swiss Institute of 
Bioinformatics (SIB), and the Protein Information Resource (PIR), is 
comprised of four databases, each optimized for different uses. The 
UniProt Knowledgebase (UniProtKB) is the central access point for 
extensively curated protein information, including function, 
classification and cross-references. The UniProt Reference Clusters 
(UniRef) combine closely related sequences into a single record to speed 
up sequence similarity searches. The UniProt Archive (UniParc) is a 
comprehensive repository of all protein sequences, consisting only of 
unique identifiers and

sequences. The UniProt Metagenomic and Environmental Sequences (UniMES) 
database is a repository specifically developed for metagenomic and 
environmental data. Additional information on UniProt is available at 
ftp://ftp.uniprot.org/pub/databases/uniprot/README and in the UniProt 
Knowledgebase user manual (http://expasy.org/sprot/userman.html).

 

3. CURRENT RELEASE CONTENTS

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UniProt Release 12

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Database -- Entries

-------------------------------------------------------------

UniProtKB -- 4,949,164 entries (UniProtKB/Swiss-Prot section: 276,256; 
UniProtKB/TrEMBL section: 4,672,908)

UniRef100 -- 4,910,948

UniRef90 -- 3,145,989

UniRef50 -- 1,555,946

UniParc -- 15,345,639

UniMES -- 6,028,191

-------------------------------------------------------------

Detailed release statistics for UniProtKB/Swiss-Prot and 
UniProtKB/TrEMBL sections of the UniProt Knowledgebase can be viewed at 
http://www.expasy.org/sprot/relnotes/relstat.html and 
http://www.ebi.ac.uk/swissprot/sptr_stats/index.html, respectively.

 

4. DESCRIPTION OF CHANGES MADE TO UNIPROT SINCE RELEASE 11.0

UniProt Knowledgebase - To learn about the changes since the last major 
release please read the UniProtKB/Swiss-Prot and UniProtKB/TrEMBL 
release notes (http://expasy.org/sprot/relnotes/) and the recent changes 
document (http://expasy.org/sprot/relnotes/sp_news.html).

 

5. FORTHCOMING CHANGES

Forthcoming changes concerning the UniProt Knowledgebase are described 
in http://expasy.org/sprot/relnotes/sp_soon.html.

 

6. HOW TO LINK TO UNIPROT ENTRIES

How to link to UniProt entries can be found at 
http://www.uniprot.org/support/docs/linkUniProt.html

 

7. FEEDBACK

We are constantly trying to improve our database in terms of accuracy 
and representation and hence, consider your feedback extremely valuable. 
Please contact us if you have any questions 
(http://www.uniprot.org/support/helpdesk.shtml) or comments 
(http://www.uniprot.org/support/feedback.shtml). You can also subscribe 
to e-mail alerts (http://www.uniprot.org/support/alerts.shtml) for the 
latest information on UniProt databases.

 

Submit new sequence data, updates and corrections at 
http://www.uniprot.org/support/submissions.shtml

 

8. ACKNOWLEDGEMENTS

UniProt is mainly supported by the National Institutes of Health (NIH) 
grant 1 U01 HG02712-01. Additional support for the EBI's involvement in 
UniProt comes from the European Commission (EC)'s FELICS grant 
(021902RII3) and from the NIH grant 1R01HGO2273-01. UniProtKB/Swiss-Prot 
activities at the SIB are supported by the Swiss Federal Government 
through the Federal Office of Education and Science. PIR activities are 
also supported by the NIH grants for NIAID proteomic resource 
(HHSN266200400061C) and grid enablement (NCI-caBIGICR-10-10-01) and 
BioThesaurus (ITR-0205470).

 

9. TERMS OF USE

UniProt is available for both commercial and non-commercial use. Please 
see http://www.uniprot.org/terms for details.

 

10. CITATION

If you want to cite UniProt in a publication please use the following 
reference:

The UniProt Consortium. The Universal Protein Resource (UniProt). 
Nucleic Acids Res. 2007 Jan;35(Database issue):D193-7.

 

11. CONTACT

EMBL Outstation

European Bioinformatics Institute (EBI)

Wellcome Trust Genome Campus

Hinxton

Cambridge CB10 1SD

United Kingdom

Telephone: (+44 1223) 494 444

Fax: (+44 1223) 494 468

Electronic mail address: datalib from ebi.ac.uk / swissprot from ebi.ac.uk

WWW server: http://www.ebi.ac.uk/

 

Swiss Institute of Bioinformatics (SIB)

Centre Medical Universitaire

1, rue Michel Servet

1211 Geneva 4

Switzerland

Telephone: (+41 22) 702 50 50

Fax: (+41 22) 702 58 58

Electronic mail address: swiss-prot from expasy.org

WWW server: http://www.expasy.org/

 

Protein Information Resource (PIR)

Georgetown University Medical Center

3300 Whitehaven Street NW

Suite 1200

Washington, DC 20007

United States of America

Telephone: (+1 202) 687 1039

Fax: (+1 202) 687 0057

Electronic mail address: pirmail from georgetown.edu

WWW server: http://pir.georgetown.edu

 

Sincerely,

 

UniProt Help Desk

 

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