A5059317639- vaccines and immunoinformatics approaches
- Forensic and Genetic Research
- Immunotherapy and Immune Responses
- T-cell and B-cell Immunology
- Yersinia bacterium, plague, ectoparasites research
- Molecular Biology Techniques and Applications
- Immune Cell Function and Interaction
- Archaeology and ancient environmental studies
- Distributed and Parallel Computing Systems
- Immune Response and Inflammation
- Scientific Computing and Data Management
- Genetic Associations and Epidemiology
- Cytomegalovirus and herpesvirus research
- Forensic Anthropology and Bioarchaeology Studies
- Inflammasome and immune disorders
- Genetic and phenotypic traits in livestock
- Whipple's Disease and Interleukins
- Glycosylation and Glycoproteins Research
- RNA regulation and disease
- Neutrophil, Myeloperoxidase and Oxidative Mechanisms
- CAR-T cell therapy research
- Bacillus and Francisella bacterial research
- Genomics and Phylogenetic Studies
- Animal Disease Management and Epidemiology
- Research Data Management Practices
University of Tübingen
2014-2024
Abstract Motivation: The human leukocyte antigen (HLA) gene cluster plays a crucial role in adaptive immunity and is thus relevant many biomedical applications. While next-generation sequencing data are often available for patient, deducing the HLA genotype difficult because of substantial sequence similarity within exceptionally high variability loci. Established approaches, therefore, rely on specific enrichment techniques, coming at an additional cost extra turnaround time. Result: We...
Background The human leucocyte antigen (HLA) complex controls adaptive immunity by presenting defined fractions of the intracellular and extracellular protein content to immune cells. Understanding benign HLA ligand repertoire is a prerequisite define safe T-cell-based immunotherapies against cancer. Due poor availability tissues, if available, normal tissue adjacent tumor has been used as surrogate when defining tumor-associated antigens. However, this comparison proven be insufficient even...
Abstract Social anthropology and ethnographic studies have described kinship systems networks of contact exchange in extant populations 1–4 . However, for prehistoric societies, these can be studied only indirectly from biological cultural remains. Stable isotope data, sex age at death provide insights into the demographic structure a burial community identify local versus non-local childhood signatures, archaeogenetic data reconstruct relationships between individuals, which enables...
Ludwig van Beethoven (1770-1827) remains among the most influential and popular classical music composers. Health problems significantly impacted his career as a composer pianist, including progressive hearing loss, recurring gastrointestinal complaints, liver disease. In 1802, requested that following death, disease be described made public. Medical biographers have since proposed numerous hypotheses, many substantially heritable conditions. Here we attempt genomic analysis of in order to...
Abstract Human expansion in the course of Neolithic transition western Eurasia has been one major topics ancient DNA research last 10 years. Multiple studies have shown that spread agriculture and animal husbandry from Near East across Europe was accompanied by large-scale human expansions. Moreover, changes subsistence migration associated with hypothesized to involve genetic adaptation. Here, we present high quality genome-wide data Linear Pottery Culture site Derenburg-Meerenstieg II...
Pathogens and associated outbreaks of infectious disease exert selective pressure on human populations, any changes in allele frequencies that result may be especially evident for genes involved immunity. In this regard, the 1346-1353 Yersinia pestis-caused Black Death pandemic, with continued plague spanning several hundred years, is one most devastating recorded history. To investigate potential impact Y. pestis immunity genes, we extracted DNA from 36 victims buried a mass grave...
The Wartberg culture (WBC, 3500-2800 BCE) dates to the Late Neolithic period, a time of important demographic and cultural transformations in western Europe. We performed genome-wide analyses 42 individuals who were interred WBC collective burial Niedertiefenbach, Germany (3300-3200 cal. BCE). results showed that farming population Niedertiefenbach carried surprisingly large hunter-gatherer ancestry component (34-58%). This was most likely introduced during transformation led WBC. In...
Abstract The ancient city of Chichén Itzá in Yucatán, Mexico, was one the largest and most influential Maya settlements during Late Terminal Classic periods ( ad 600–1000) it remains intensively studied archaeological sites Mesoamerica 1–4 . However, many questions about social cultural use its ceremonial spaces, as well population’s genetic ties to other Mesoamerican groups, remain unanswered 2 Here we present genome-wide data obtained from 64 subadult individuals dating around 500–900 that...
Abstract Summary: Immunoinformatics approaches are widely used in a variety of applications from basic immunological to applied biomedical research. Complex data integration is inevitable research and usually requires comprehensive pipelines including multiple tools sources. Non-standard input output formats immunoinformatics make the development such difficult. Here we present FRED 2, an open-source framework offering easy unified access methods for epitope prediction other applications. 2...
ABSTRACT The human leukocyte antigen (HLA) complex controls adaptive immunity by presenting defined fractions of the intracellular and extracellular protein content to immune cells. Here, we describe HLA Ligand Atlas, an extensive collection mostly matched HLA-I -II ligandomes from 225 benign samples (29 tissues, 21 subjects). initial release covers 51 86 HLA-II allotypes 89,853 HLA-I- 140,861 ligands. We observe that immunopeptidomes differ considerably between tissues individuals on both...
Abstract Background Reproducibility is one of the tenets scientific method. Scientific experiments often comprise complex data flows, selection adequate parameters, and analysis visualization intermediate end results. Breaking down complexity such into joint collaboration small, repeatable, well defined tasks, each with inputs, outputs, offers immediate benefit identifying bottlenecks, pinpoint sections which could from parallelization, among others. Workflows rest upon notion splitting work...
Abstract The Wartberg culture (WBC, 3,500-2,800 BCE) dates to the Late Neolithic period, a time of important demographic and cultural transformations in western Europe. We perform genome-wide analysis 42 individuals who were interred WBC collective burial Niedertiefenbach, Germany (3,300-3,200 cal. BCE). Our results highlight that Niedertiefenbach population indeed emerged at beginning WBC. This farming community was genetically heterogeneous carried surprisingly large hunter-gatherer...