From ORFeome to biology: a functional genomics pipeline.
As several model genomes have been sequenced, the elucidation of protein function is the next challenge toward the understanding of biological processes in health and disease. We have generated a human ORFeome resource and established a functional genomics and proteomics analysis pipeline to address the major topics in the post-genome-sequencing era: the identification of human genes and splice forms, and the determination of protein localization, activity, and interaction. Combined with the understanding of when and where gene products are expressed in normal and diseased conditions, we create information that is essential for understanding the interplay of genes and proteins in the complex biological network. We have implemented bioinformatics tools and databases that are suitable to store, analyze, and integrate the different types of data from high-throughput experiments and to include further annotation that is based on external information. All information is presented in a Web database (http://www.dkfz.de/LIFEdb). It is exploited for the identification of disease-relevant genes and proteins for diagnosis and therapy.
Wiemann
Stefan
S
Molecular Genome Analysis, German Cancer Research Center, 69120 Heidelberg, Germany. s.wiemann@dkfz.de
Arlt
Dorit
D
Huber
Wolfgang
W
Wellenreuther
Ruth
R
Schleeger
Simone
S
Mehrle
Alexander
A
Bechtel
Stephanie
S
Sauermann
Mamatha
M
Korf
Ulrike
U
Pepperkok
Rainer
R
Sültmann
Holger
H
Poustka
Annemarie
A
D000818:Animals; D019295:Computational Biology; D018076:DNA, Complementary / Q000235:genetics*; D030541:Databases, Genetic; D020869:Gene Expression Profiling; D023281:Genomics; D006801:Humans; D016247:Information Storage and Retrieval; D051379:Mice; D020411:Oligonucleotide Array Sequence Analysis; D016366:Open Reading Frames / Q000502:physiology*; D025941:Protein Interaction Mapping; D040901:Proteomics; D013347:Subcellular Fractions
D018076:DNA, Complementary