A5067253504- Cancer Genomics and Diagnostics
- Semantic Web and Ontologies
- Scientific Computing and Data Management
- Biomedical Text Mining and Ontologies
- Genomics and Phylogenetic Studies
- Research Data Management Practices
- Evolution and Genetic Dynamics
- Bioinformatics and Genomic Networks
- Genomics and Chromatin Dynamics
- Chromosomal and Genetic Variations
- RNA modifications and cancer
- Genetics, Bioinformatics, and Biomedical Research
- Gene expression and cancer classification
- Cancer-related molecular mechanisms research
- Genetic factors in colorectal cancer
- Genomics and Rare Diseases
- Topic Modeling
- Data Quality and Management
- Epigenetics and DNA Methylation
- Nutrition, Genetics, and Disease
- Mitochondrial Function and Pathology
- Telomeres, Telomerase, and Senescence
- RNA Research and Splicing
- Genomic variations and chromosomal abnormalities
- Lung Cancer Treatments and Mutations
Technische Informationsbibliothek (TIB)
2018-2025
German Cancer Research Center
2017-2023
Heidelberg University
2017-2023
PRG S&Tech (South Korea)
2019
University of Duisburg-Essen
2011
In addition to endocytosis-mediated cellular uptake, hydrophilic cell-penetrating peptides are able traverse biological membranes in a non-endocytic mode termed transduction, resulting immediate bioavailability. Here we analysed structural requirements for the uptake of arginine-rich peptides, by combination live-cell microscopy, molecular dynamics simulations and analytical ultracentrifugation. We demonstrate that transduction efficiency increases with higher peptide rigidity. Consequently,...
Despite improved digital access to scholarly knowledge in recent decades, communication remains exclusively document-based. In this form, is hard process automatically. We present the first steps towards a graph based infrastructure that acquires machine actionable form thus enabling new possibilities for curation, publication and processing. The primary contribution present, evaluate discuss multi-modal acquisition, combining crowdsourced automated techniques. results of user evaluation...
The document-centric workflows in science have reached (or already exceeded) the limits of adequacy. This is emphasized by recent discussions on increasing proliferation scientific literature and reproducibility crisis. presents an opportunity to rethink dominant paradigm scholarly information communication transform it into knowledge-based flows representing expressing through semantically rich, interlinked knowledge graphs. At core creation evolution models that establish a common...
The Open Research Knowledge Graph is an infrastructure for the production, curation, publication and use of FAIR scientific information. Its mission to shape a future scholarly publishing communication where contents articles are research data.
Abstract The transfer of knowledge has not changed fundamentally for many hundreds years: It is usually document-based-formerly printed on paper as a classic essay and nowadays PDF. With around 2.5 million new research contributions every year, researchers drown in flood pseudo-digitized PDF publications. As result seriously weakened. In this article, we argue representing scholarly structured semantic way graph. advantage that information represented graph readable by machines humans. an...
Abstract The International Cancer Genome Consortium (ICGC)’s Pan-Cancer Analysis of Whole Genomes (PCAWG) project aimed to categorize somatic and germline variations in both coding non-coding regions over 2,800 cancer patients. To provide this dataset the research working groups for downstream analysis, PCAWG Technical Working Group marshalled ~800TB sequencing data from distributed geographical locations; developed portable software uniform alignment, variant calling, artifact filtering...
FAIR data presupposes their successful communication between machines and humans while preserving meaning reference, requiring all parties involved to share the same background knowledge. Inspired by English as a natural language, we investigate linguistic structure that ensures reliable of information draw parallels with structures, understanding both models systems interest. We conceptualize semantic interoperability comprising terminological propositional interoperability. The former...
Abstract FAIR (meta)data presuppose their successful communication between machines and humans while preserving meaning reference. The Guiding Principles lack specificity regarding semantic interoperability. We adopt a linguistic perspective on interoperability investigate the structures conventions ensuring reliable of textual information, drawing parallels with data by understanding both as models. propose conceptual model interoperability, comprising intensional extensional terminological...
The reuse of data from electronic health records (EHRs) for research purposes promises to improve the foundation clinical trials and may even support enable them. Nevertheless, EHRs are characterized by both, heterogeneous structure semantics. To standardize this research, Observational Medical Outcomes Partnership (OMOP) Common Data Model (CDM) standard has recently seen an increase in use. However, conversion these into OMOP CDM requires complex resource intensive Extract Transform Load...
The academic de.NBI Cloud offers compute resources for life science research in Germany. At the beginning of 2017, started to implement a federated cloud consisting five centers, with aim acting as one resource their users. A introduces multiple challenges, such central access and project management point, unified account across all sites an interchangeable setup federation. In order federation concept, integrated ELIXIR authentication authorization infrastructure system (ELIXIR AAI)...
Abstract We present Butler, a computational tool that facilitates large-scale genomic analyses on public and academic clouds. Butler includes innovative anomaly detection self-healing functions improve the efficiency of data processing analysis by 43% compared with current approaches. enabled 725-terabyte cancer genome dataset from Pan-Cancer Analysis Whole Genomes (PCAWG) project in time-efficient uniform manner.
Scholarly knowledge graphs provide researchers with a novel modality of information retrieval, and their wider use in academia is beneficial for the digitalization published works development scholarly communication. To increase acceptance graphs, we present dashboard, which visualizes research contributions on an educational science topic frame Open Research Knowledge Graph (ORKG). As dashboards are created at intersection computer science, graphic design, human-technology interaction, used...
Sustainable noncommercial bioinformatics infrastructures are a prerequisite to use and take advantage of the potential big data analysis for research economy. Consequently, funders, universities institutes as well users ask transparent value model tools services offered. In this article, generally applicable lightweight method is described by which infrastructure projects can estimate offered without determining exactly total costs ownership. Five representative scenarios estimation from...
In order to effectively manage the overwhelming influx of data, it is crucial ensure that data findable, accessible, interoperable, and reusable (FAIR). While ontologies knowledge graphs have been employed enhance FAIRness, challenges remain regarding semantic cognitive interoperability. We explore how English facilitates reliable communication terms statements, transfer our findings a framework graphs, while treating statements as minimal information units. categorize statement types based...
Machines need data and metadata to be machine-actionable FAIR (findable, accessible, interoperable, reusable) manage increasing volumes. Knowledge graphs ontologies are key this, but their use is hampered by high access barriers due required prior knowledge in semantics modelling. The Rosetta Statement approach proposes modeling English natural language statements instead of a mind-independent reality. We propose metamodel for creating semantic schema patterns simple statement types....
Despite improved digital access to scholarly knowledge in recent decades, communication remains exclusively document-based. In this form, is hard process automatically. paper, we present the first steps towards a graph based infrastructure that acquires machine actionable form thus enabling new possibilities for curation, publication and processing. The primary contribution present, evaluate discuss multi-modal acquisition, combining crowdsourced automated techniques. We results of user...
Knowledge graphs and ontologies provide promising technical solutions for implementing the FAIR Principles Findable, Accessible, Interoperable, Reusable data metadata. However, they also come with their own challenges. Nine such challenges are discussed associated criterion of cognitive interoperability specific FAIREr principles (FAIR + Explorability raised) that fail to meet. We introduce an easy-to-use, open source knowledge graph framework is based on building blocks (KGBBs). KGBBs small...