Core Facilities Heidelberg
Genomics and Proteomics Heidelberg
The DKFZ Genomics and Proteomics Core Facility (GPCF) is a central research infrastructure providing DKTK members access to sophisticated key technologies that serve the need of biomedical science and offering high quality solutions at reasonable costs. Trained and dedicated personnel ensure highest quality and reproducibility of our services.
The GPCF technology portfolio mostly covers the following areas:
- The genomics part of the facility operates one of Europe’s largest next-generation sequencing units offering Illumina HiSeq and MiSeq technologies, and the latest Illumina Hi-Seq X-Ten platform which was funded by DKTK. GPCF performs WGS, WGBS, exomes, ChIP-seq, mRNA-seq, smallRNA-seq etc. within several national and international cancer genome projects (e.g. International Cancer Genome Consortium, INFORM, DKTK), in addition to a variety of individual in-house projects. Gene and miRNA expression profiling (Illumina, Agilent, Affymetrix), genotyping (Illumina, Affymetrix) and methylation (Illumina MethylationEPIC BeadChip) analysis is carried out using array-based technologies.
- The proteomics part provides technologies to analyze proteins, protein modifications and small molecules covering mass spectrometry and NMR for qualitative and quantitative analysis.
- In the field of functional genomics the GPCF generates monoclonal antibodies on demand, some of which are by now used in diagnostics. Isogenic cell lines stably expressing recombinant proteins or shRNAs from a particular genomic locus are generated e.g., to assess phenotypes of proteins and mutants in in vitro as well as in vivo systems, e.g., in xenograft mouse models.
- The GPCF HUSAR unit offers bioinformatics support, in particular sequence analysis ranging from traditional analysis (like alignments, sequence annotation, structure analysis, etc.) to the analysis of deep-sequencing experiments (genomic sequencing, smallRNA, ChIP-seq, etc.).
The central infrastructure of the GPCF offers assisted access to costly instruments, and distributes the human ORF clone resource of the international ORFeome Collaboration for recombinant expression of encoded proteins, e.g., in isogenic cell lines.
Our mission is to always enable application of state-of-the-art technologies and to offer high quality solutions. We carry out joint projects with scientific groups within DKFZ to implement the latest technologies that serve the needs of science. In addition to providing full or assisted access to services, we are involved in the DKFZ teaching program, and organize tech-talks, seminars and practical courses where we inform interested scientists, predocs and technicians on the technological background of applications.
GPCF Homepage: www.dkfz.de/gpcf