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PMID: 14681468 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

LIFEdb: a database for functional genomics experiments integrating information from external sources, and serving as a sample tracking system.

Nucleic acids research ·Vol. 32 ·No. Database issue ·2004-01-01 ·Pages D505-8

Bannasch D, Mehrle A, Glatting KH, Pepperkok R, Poustka A, Wiemann S

Abstract

We have implemented LIFEdb (http://www.dkfz.de/LIFEdb) to link information regarding novel human full-length cDNAs generated and sequenced by the German cDNA Consortium with functional information on the encoded proteins produced in functional genomics and proteomics approaches. The database also serves as a sample-tracking system to manage the process from cDNA to experimental read-out and data interpretation. A web interface enables the scientific community to explore and visualize features of the annotated cDNAs and ORFs combined with experimental results, and thus helps to unravel new features of proteins with as yet unknown functions.

MeSH Terms
Automation Computational Biology DNA, Complementary/genetics Databases, Genetic Genomics Germany Humans Information Storage and Retrieval Internet Open Reading Frames/genetics Proteins/genetics,metabolism Proteomics
Chemicals
DNA, Complementary Proteins
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Bannasch Detlev
German Cancer Research Center (DKFZ), Division of Molecular Genome Analysis, Im Neuenheimer Feld 580, D-69120 Heidelberg, Germany. [email protected]
Mehrle Alexander
Glatting Karl-Heinz
Pepperkok Rainer
Poustka Annemarie
Wiemann Stefan
References (21)
21 references, click to expand
  1. TRIPLES: a database of gene function in Saccharomyces cerevisiae.
    Nucleic Acids Res. 2000 Jan 1;28(1):81-4 PMID: 10592187
  2. The sequence of the human genome.
    Science. 2001 Feb 16;291(5507):1304-51 PMID: 11181995
  3. Initial sequencing and analysis of the human genome.
    Nature. 2001 Feb 15;409(6822):860-921 PMID: 11237011
  4. Systematic subcellular localization of novel proteins identified by large-scale cDNA sequencing.
    EMBO Rep. 2000 Sep;1(3):287-92 PMID: 11256614
  5. Microarrays of cells expressing defined cDNAs.
    Nature. 2001 May 3;411(6833):107-10 PMID: 11333987
  6. Prediction of the coding sequences of unidentified human genes. XX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro.
    DNA Res. 2001 Apr 27;8(2):85-95 PMID: 11347906
  7. Large-scale identification of mammalian proteins localized to nuclear sub-compartments.
    Hum Mol Genet. 2001 Sep 1;10(18):1995-2011 PMID: 11555636
  8. Being in the right location at the right time.
    Genome Biol. 2001;2(9):REVIEWS1024 PMID: 11574061
  9. The EMBL Nucleotide Sequence Database.
    Nucleic Acids Res. 2002 Jan 1;30(1):21-6 PMID: 11752244
  10. YPL.db: the Yeast Protein Localization database.
    Nucleic Acids Res. 2002 Jan 1;30(1):80-3 PMID: 11752260
  11. PROSITE: a documented database using patterns and profiles as motif descriptors.
    Brief Bioinform. 2002 Sep;3(3):265-74 PMID: 12230035
  12. Ensembl 2002: accommodating comparative genomics.
    Nucleic Acids Res. 2003 Jan 1;31(1):38-42 PMID: 12519943
  13. The UCSC Genome Browser Database.
    Nucleic Acids Res. 2003 Jan 1;31(1):51-4 PMID: 12519945
  14. Human Gene-Centric Databases at the Weizmann Institute of Science: GeneCards, UDB, CroW 21 and HORDE.
    Nucleic Acids Res. 2003 Jan 1;31(1):142-6 PMID: 12519968
  15. The Nuclear Protein Database (NPD): sub-nuclear localisation and functional annotation of the nuclear proteome.
    Nucleic Acids Res. 2003 Jan 1;31(1):328-30 PMID: 12520015
  16. The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003.
    Nucleic Acids Res. 2003 Jan 1;31(1):365-70 PMID: 12520024
  17. A task framework for the web interface W2H.
    Bioinformatics. 2003 Jan 22;19(2):278-82 PMID: 12538250
  18. X-HUSAR, an X-based graphical interface for the analysis of genomic sequences.
    Comput Methods Programs Biomed. 1995 Feb;46(2):131-41 PMID: 7796582
  19. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
    Nucleic Acids Res. 1997 Sep 1;25(17):3389-402 PMID: 9254694
  20. PSORT: a program for detecting sorting signals in proteins and predicting their subcellular localization.
    Trends Biochem Sci. 1999 Jan;24(1):34-6 PMID: 10087920
  21. Toward a catalog of human genes and proteins: sequencing and analysis of 500 novel complete protein coding human cDNAs.
    Genome Res. 2001 Mar;11(3):422-35 PMID: 11230166
Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gkh022
Email
[email protected]
Published
2004-01-01
Pages
D505-8
Language
English
Region
England
NLM ID
0411011
PMCID
PMC314201
Subset
IM
External Links
PubMed source DOI: 10.1093/nar/gkh022 PMC Full Text View journal details
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