The public iCHIP instance is no longer online.
Please contact persons mentioned below to download RNAi screens your are interested in:
Neuroblastoma RNAi: Prof. Dr. Rainer Koenig, Rainer.Koenig[at]uni-jena.de
HIV screens: Dr. Kathleen Boerner, kathleen.boerner[at]med.uni-heidelberg.de
Plasma Membrane Targeting of Src Kinases: Dr. Julia Ritzerfeld, j.ritzerfeld[at]dkfz.de
iCHIP-Bioquant public instance
From the beginning of the German National Network for Genome Research (Nationales Genomforschungsnetzes NGFN) onwards we have organized data for different networks. The backing of NGFN has been fundamental for the construction of the professional and mature data centre at DKFZ. Within the last 12 years the requirements needed to sustain service structures have increased substantially with regards to expenses and complexity.
The data management system iCHIP (www.ichip.de) has been enhanced as the central database for different consortia. Over the NGFN time span we have managed the data of various NGFN projects such as ENGINE, Neuroblastoma, CancerNet, NeuroNet, Brain Tumor Net, Cardiovascular, Infection/Inflammation, PaCaNet, SMP Bioinformatics, SMP RNAi, SMP Cell and SMP cDNA. In the beginning, we covered two dimensional experiments in the field of transcriptomics. Subsequently, we included e.g., proteomics data and RNAi microscopy images. Next-generation sequencing (NGS) has now superseded the microarray approach as the main technology for genome analysis.
The wealth of data gathered in the clinical context serves for the characterization of diseases, for their chronological progression or for the efficiency of therapeutic strategies. The integrative framework iCHIP is additionally organizing patient related clinical data and corresponding biomaterial samples. In this regard, iCHIP operates different cancer entities.
iCHIP is the central clinical node for the ICGC projects PedBrain Tumor, Malignant Lymphoma as well as Early Onset Prostate Cancer.
RNA interference (RNAi) is a biological process inhibiting gene expression and has become an important research tool in the past years. Applying high-throughput technologies to RNAi screens allows for systematic gene knockdown on a whole genome scale. iCHIP is a central database for the storage of the results of this kind of experiments. Publicly available RNAi Screens can be accessed via iCHIP-Bioquant public instance.
The PacaNet-Biobanking is an Amazon-like platform implementing web-based registration, management of clinical specifications, specimen quality assessment, and distribution of biospecimen according to the SOPs. It allows remote searches of the database by collaboration partners and provides them with differentially stained images of collected tissues, and thus information about cellular composition of samples — one of the most decisive aspects in the interpretation of the HTS data.
The research bio-database, PancoBank, utilizes DKFZ iCHIP-technology linking the collection of biopsies and biofluids with clinico-pathological data comprising results of genome-wide screenings in order to elucidate pancreatic pathogenesis and to develop molecular signatures enabling stratification of the patients for novel treatments.
iCHIP will also be the central storage database for DKTK.