(Schw)Ehre, wem (Schw)Ehre gebührt : Festschrift zur Verabschiedung von Prof. Dr.-Ing. Dr. h.c. Bernhard Heck

Die Festschrift zur Verabschiedung von Prof. Bernhard Heck enthält 41 Beiträge aus dem Freundeskreis, der Kollegenschaft sowie von ehemaligen Promovierenden. Der Schwerpunkt der Arbeiten liegt auf den Gebieten der Physikalischen und Satellitengeodäsie sowie der Geodynamik und spiegelt das vielfältige Wirken von Bernhard Heck wider. Abgerundet wird die Schrift durch Beiträge zur Ausbildung am Geodätischen Institut des KIT und zur Stellung der Geodäsie im gesellschaftlichen Kontext

Analysis of ribosome biogenesis factor-modules in yeast cells depleted from pre-ribosomes

Formation of eukaryotic ribosomes requires more than 150 biogenesis factors which transiently interact with the nascent ribosomal subunits. Previously, many pre-ribosomal intermediates could be distinguished by their protein composition and rRNA precursor (pre-rRNA) content. We purified complexes of ribosome biogenesis factors from yeast cells in which de novo synthesis of rRNA precursors was down-regulated by genetic means. We compared the protein composition of these largely pre-rRNA free assemblies with the one of analogous pre-ribosomal preparations by semi-quantitative mass spectrometry. The experimental setup minimizes the possibility that the analysed pre-rRNA free protein modules were derived from (partially) disrupted pre-ribosomal particles and provides thereby strong evidence for their pre-ribosome independent existence. In support of the validity of this approach (i) the predicted composition of the analysed protein modules was in agreement with previously described rRNA-free complexes and (ii) in most of the cases we could identify new candidate members of reported protein modules. An unexpected outcome of these analyses was that free large ribosomal subunits are associated with a specific set of ribosome biogenesis factors in cells where neo-production of nascent ribosomes was blocked. The data presented strengthen the idea that assembly of eukaryotic pre-ribosomal particles can result from transient association of distinct building blocks

The cloud4health Project. Secondary use of clinical data with secure cloud-based text mining services

Advances in translational and personalized medicine require the integration of multiple patient related resources across different organizational bodies. Thus, secure cloud environments for huge data processing, storage and data integration are needed. Moreover, the integration of clinical patient data is indispensable for translational research. Although operational e-health record systems are established in most hospitals, many clinical and phenotypically relevant parameters can only be found in unstructured texts like medical records and reports. To meet these challenges, the cloud4health project established a cloud-based text mining platform to facilitate information extraction of biomedical texts in a secure cloud environment. In order to comply with privacy regulations, general tech nical demands and security rules for such a cloud installation were developed and have been implemented. Different clinical use cases show the wide spectrum of application of specific text mining services in a secure cloud environment. As application examples, two use cases utilizing text mining technologies to analyse pathology and surgery reports are analysed in detail

Systems approach for the selection of micro-RNAs as therapeutic biomarkers of anti-EGFR monoclonal antibody treatment in colorectal cancer

miRNA plays an important role in tumourgenesis by regulating expression of oncogenes and tumour suppressors. Thus affects cell proliferation and differentiation, apoptosis, invasion and angiogenesis. miRNAs are potential biomarkers for diagnosis, prognosis and therapies of different forms of cancer. However, relationship between response of cancer patients towards targeted therapy and the resulting modifications of the miRNA transcriptome in the context of pathway regulation is poorly understood. With ever-increasing pathways and miRNA-mRNA interaction databases, freely available mRNA and miRNA expression data in multiple cancer therapy have produced an unprecedented opportunity to decipher the role of miRNAs in early prediction of therapeutic efficacy in diseases. Efficient translation of -omics data and accumulated knowledge to clinical decision-making are of paramount scientific and public health interest. Well-structured translational algorithms are needed to bridge the gap from databases to decisions. Herein, we present a novel SMARTmiR algorithm to prospectively predict the role of miRNA as therapeutic biomarker for an anti-EGFR monoclonal antibody i.e. cetuximab treatment in colorectal cancer

A Blueprint for Semantically Lifting Field Trial Data: Enabling Exploration using Knowledge Graphs

Burkow D, Hollunder J, Heinrich J, et al. A Blueprint for Semantically Lifting Field Trial Data: Enabling Exploration using Knowledge Graphs. In: Cornet R, Waagmeester A, eds. 12th International Conference on Semantic Web Applications and Tools for Health Care and Life Sciences. {CEUR} Workshop Proceedings. Vol 2849. CEUR-WS.org; 2019: 64-73

Additional file 2: of NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease

The developed RDF models and the SPARQL queries used are made available at: http://www.scai.fraunhofer.de/en/business-research-areas/bioinformatics/downloads/neurordf.html . (ZIP 178 kb

Additional file 3: of NeuroRDF: semantic integration of highly curated data to prioritize biomarker candidates in Alzheimer's disease

Detailed count of literature evidences for prioritized candidates. This file contains the detailed count of number of evidences available for each prioritized candidate for each year since 2005 in context of Alzheimer's disease. These statistics were retrieved using SCAIView knowledge discovery tool (as of 18 May, 2016). (XLSX 35 kb