A5022399710- Epigenetics and DNA Methylation
- Genomics and Chromatin Dynamics
- RNA modifications and cancer
- Advanced Database Systems and Queries
- Single-cell and spatial transcriptomics
- Parallel Computing and Optimization Techniques
- Telomeres, Telomerase, and Senescence
- Pluripotent Stem Cells Research
- Sensorless Control of Electric Motors
- Magnetic Field Sensors Techniques
- Data Management and Algorithms
- Electric Motor Design and Analysis
- Histone Deacetylase Inhibitors Research
- Gene expression and cancer classification
- Cleft Lip and Palate Research
- Embedded Systems Design Techniques
- Experimental Learning in Engineering
- Myeloproliferative Neoplasms: Diagnosis and Treatment
- Craniofacial Disorders and Treatments
- Cancer Immunotherapy and Biomarkers
- Mechatronics Education and Applications
- Immune responses and vaccinations
- Kruppel-like factors research
- Economic and Technological Developments in Russia
- Advanced Data Storage Technologies
University of Cologne
2015-2025
RWTH Aachen University
2018-2023
Genomics (United Kingdom)
2020
University of Toronto
2020
RT-RK Institute for Computer Based Systems (Serbia)
2010-2018
University of Oxford
2017
Cologne Excellence Cluster on Cellular Stress Responses in Aging Associated Diseases
2015-2017
Singidunum University
2016
Megatrend University
2015
Carol I National Defence University
2015
Applications ranging from algorithmic trading to scientific data analysis require realtime analytics based on views over databases that change at very high rates. Such have be kept fresh low maintenance cost and latencies. At the same time, these support classical SQL, rather than window semantics, enable applications combine current with aged or historical data. In this paper, we present viewlet transforms , a recursive finite differencing technique applied queries. The transform...
Abstract Background Age-associated DNA methylation changes provide a promising biomarker for the aging process. While genome-wide profiles enable robust age-predictors by integration of many age-associated CG dinucleotides (CpGs), there are various alternative approaches targeted measurements at specific CpGs that better support standardized and cost-effective high-throughput analysis. Results In this study, we utilized 4647 Illumina BeadChip blood to select CpG sites facilitate reliable...
Next-Generation Sequencing (NGS) has emerged as a widely used tool in molecular biology. While time and cost for the sequencing itself are decreasing, analysis of massive amounts data remains challenging. Since multiple algorithmic approaches basic have been developed, there is now an increasing need to efficiently use these tools obtain results reasonable time. We developed QuickNGS, new workflow system laboratories with analyze from NGS projects at QuickNGS takes advantage parallel...
Abstract Culture expansion of primary cells evokes highly reproducible DNA methylation (DNAm) changes. We have identified CG dinucleotides (CpGs) that become continuously hyper- or hypomethylated during long-term culture mesenchymal stem (MSCs) and other cell types. Bisulfite barcoded amplicon sequencing (BBA-seq) demonstrated DNAm patterns neighboring CpGs more complex without evidence continuous pattern development association to oligoclonal subpopulations. Circularized chromatin...
Abstract Mammalian interphase chromosomes fold into a multitude of loops to fit the confines cell nuclei, and looping is tightly linked regulated function. Chromosome conformation capture (3C) technology has significantly advanced our understanding this structure‐to‐function relationship. However, all 3C‐based methods rely on chemical cross‐linking stabilize spatial interactions. This step remains “black box” as regards biases it may introduce, some discrepancies between microscopy 3C...
Mammalian cells have developed intricate mechanisms to interpret, integrate, and respond extracellular stimuli. For example, tumor necrosis factor (TNF) rapidly activates proinflammatory genes, but our understanding of how this occurs against the ongoing transcriptional program cell is far from complete. Here, we monitor early phase cascade at high spatiotemporal resolution in TNF-stimulated human endothelial cells. NF-κB, transcription complex driving response, interferes with regulatory...
Age is a major risk factor for severe outcome of the 2019 coronavirus disease (COVID-19). In this study, we followed hypothesis that particularly patients with accelerated epigenetic age are affected by outcomes COVID-19. We investigated various DNA methylation datasets blood samples aging signatures and performed targeted bisulfite amplicon sequencing. Overall, clocks closely correlated chronological patients, either or without acute respiratory distress syndrome. Furthermore, lymphocytes...
Cellular heterogeneity within embryonic and adult tissues is involved in multiple biological pathological processes. Here, we present a simple epigenomic strategy that allows the functional dissection of cellular heterogeneity. By integrating H3K27me3 chromatin immunoprecipitation sequencing (ChIP-seq) RNA (RNA-seq) data, demonstrate presence broad domains at transcriptionally active genes reflects heterogeneous expression major cell identity regulators. Using dorsoventral patterning spinal...
Abstract Background Dyskeratosis congenita (DKC) and idiopathic aplastic anemia (AA) are bone marrow failure syndromes that share characteristics of premature aging with severe telomere attrition. Aging is also reflected by DNA methylation changes, which can be utilized to predict donor age. There evidence such epigenetic age predictions accelerated in syndromes, but it yet unclear how this related length. analysis may support diagnosis DKC AA, still remains a challenge for these rare...
We consider the problem of incrementally maintaining triangle count query under single-tuple updates to input relations. introduce an approach that exhibits a space-time tradeoff such product is quadratic in size database and update time can be as low square root this size. This lowest worst-case optimal conditioned on Online Matrix-Vector Multiplication conjecture. The classical factorized incremental view maintenance approaches are recovered special cases our within tradeoff. In...
Age-associated DNA methylation reflects aspect of biological aging-therefore epigenetic clocks for mice can elucidate how the aging process in this model organism is affected by specific treatments or genetic background. Initially, age-predictors were trained genome-wide profiles and we have recently described a targeted assay based on pyrosequencing at only three age-associated genomic regions. Here, established alternative approaches using droplet digital PCR (ddPCR) barcoded bisulfite...
Non-syndromic cleft lip with or without palate (nsCL/P) is a common congenital facial malformation multifactorial etiology. Genome-wide association studies (GWASs) have identified multiple genetic risk loci. However, functional interpretation of these loci hampered by the underrepresentation in public resources systematic maps representative human embryonic development. To generate novel insights into etiology nsCL/P, we leveraged published GWAS data on nsCL/P as well available chromatin...
Background The individual HLA-I genotype is associated with cancer, autoimmune diseases and infections. This study elucidates the role of germline homozygosity or allelic imbalance loci in esophago-gastric adenocarcinoma (EGA) determines resulting repertoires potentially immunogenic peptides. Methods HLA genotypes sequences either (1) 10 relevant tumor-associated antigens (TAAs) (2) patient-specific mutation-associated neoantigens (MANAs) were used to predict good-affinity binders using an...