ESGI provides access to new genomic technologies and analytic tools, including
* DNA analysis
* Long Read analysis
* Transcriptome Analysis
*3D genomics
*single cell analysis
*Epigenomic Analysis
Technologies & Facilities
Genomics and Proteomics core facility
Provided by GERMAN CANCER RESEARCH CENTER GENOMICS & PROTEOMICS CORE FACILITY
Genomics and Proteomics Core Facility has integrated Many different services:
The Microarray Unit performs expression profiling of mRNA and miRNA, Genotyping and genome-wide methylation analysis.
High-Throughput sequencing is offered and monoclonal antibodies, stable isogenic recombinant cell lines and a clone and vector repository are available.
Additionally we provide booking of central GPCF equipment like Real Time PCR machines, sample preparation robots or SilverQuant scanning systems or the wetlab wiki, which allows you to share and discuss protocols with your colleagues at DKFZ.
The center offers high-throughput sequencing services on the latest Illumina Next Generation Sequencer NovaSeq6000, Oxford Nanopore Technologies Sequencer PromethION and Pacific Bioscience Sequel.
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Centralized Next Generation Sequencing (NGS) services are complemented with existing decentralized NGS and bioinformatics expertise of the WGGC partners. Such expertise covers most aspects of NGS research, encompassing capabilities in human and medical genetics as well as onco and plant genomics.
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Sample preparation is an essential prelude for structural and molecular biology studies, as well as for biotechnology and drug discovery application, which can be particularly challenging in the case of eukaryotic proteins and complexes. Instruct offer state-of-the-art infrastructures for the expression and production of biomolecules and their complexes in prokaryotic and eukaryotic systems .
Sample Preparation: Crystallisation, Nanobody Discovery, Protein Production;
Biomolecular Analysis: Imaging, Mass Spectrometry, Molecular Biophysics;
3D Structural Analysis: Electron Microscopy, Magnetic Resonance Techniques, X-ray Techniques;
HPO provides an ontology of medically relevant phenotypes, disease-phenotype annotations, and the algorithms that operate on these to allow large-scale computational analysis of the human phenome. The HPO can be used to support differential diagnostics, translational research, and a number of applications in computational biology by providing the means to compute over the clinical phenotype. The HPO is being used for computational deep phenotyping and precision medicine as well as integration of clinical data into translational research. Although initially focused on rare, mainly Mendelian diseases, the focus of the HPO will be extended to other areas of medicine in coming years.
Tools:
* Exomiser: evaluate variants based on the predicted pathogenicity
*genomiser: analyze genome sequence data for non-coding variants
* phenomizer: rank disease differential diagnosis by clinical features
*profile search: discover diseases with a phenotype profile
METABOLOMICS FACILITY (Free or charged)
With the Metabolomics facility you can explore the metabolic profiles of your samples, identify the most interesting variation between conditions, and see the metabolic flux in action. The Metabolomics Facility includes:
*A complete metabolomics platform (GC-QTOF, LC-QTOF, and specific software)
*Seahorse XF24 Analyzer
*YSI 2950D Biochemistry Analyzer
Each instrument is available for specific and diverse analyses, from deep metabolomics analysis to simpler indication about the most important metabolic species (e.g. lactate, oxygen, glutamine, etc.).
Fluorescence-Activated Cell Sorting (FACS) Core Unit
Provided by CCRI (Children's Cancer Research Institute)
The CCRI flow cytometry core unit provides state-of-the-art instrumentation and services for diagnostic and research applications to intra -and -extramural users. The unique strength of flow cytometry lies in the rapid multi-parameter assessment of cells or particles in suspension. Heterogenous samples can be analysed in detail at single cell level. The core unit currently runs four flow cytometers for 18 to 30 parameter measurements. We offer flow cytometric analysis of multicolour samples and sorting of up to 4 target populations simultaneously from a single sample.
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