A5073222532- Bioinformatics and Genomic Networks
- Advanced Chemical Sensor Technologies
- Gene expression and cancer classification
- Analytical Chemistry and Chromatography
- Mass Spectrometry Techniques and Applications
- Metabolomics and Mass Spectrometry Studies
- Genomics and Phylogenetic Studies
- RNA Research and Splicing
- Microbial Metabolic Engineering and Bioproduction
- Gene Regulatory Network Analysis
- Respiratory viral infections research
- Computational Drug Discovery Methods
- Influenza Virus Research Studies
- RNA and protein synthesis mechanisms
- Epigenetics and DNA Methylation
- Privacy-Preserving Technologies in Data
- Pneumonia and Respiratory Infections
- Single-cell and spatial transcriptomics
- RNA modifications and cancer
- Genetic Associations and Epidemiology
- Cancer-related molecular mechanisms research
- Gut microbiota and health
- Analytical chemistry methods development
- Biomedical Text Mining and Ontologies
- Artificial Intelligence in Healthcare and Education
University of Southern Denmark
2016-2025
Universität Hamburg
2018-2025
Hamburg Institut (Germany)
2024-2025
TU Dortmund University
2005-2024
University of Toronto
2020-2024
Imperial College London
2023-2024
University Medical Center Hamburg-Eppendorf
2024
Helmholtz Zentrum München
2024
Odense University Hospital
2024
Friedrich-Alexander-Universität Erlangen-Nürnberg
2024
The composition and density of immune cells in the tumor microenvironment (TME) profoundly influence progression success anti-cancer therapies. Flow cytometry, immunohistochemistry staining or single-cell sequencing are often unavailable such that we rely on computational methods to estimate immune-cell from bulk RNA-sequencing (RNA-seq) data. Various have been proposed recently, yet their capabilities limitations not evaluated systematically. A general guideline leading research community...
In the post-genomic era, rapid increase in high-throughput data calls for computational tools capable of integrating diverse types and facilitating recognition biologically meaningful patterns within them. For example, protein-protein interaction sets have been clustered to identify stable complexes, but scientists lack easily accessible facilitate combined analyses multiple from different experiments. Here we present clusterMaker, a Cytoscape plugin that implements several clustering...
Annual estimates of the influenza disease burden provide information to evaluate programs and allocate resources. We used a multiplier method with routine population-based surveillance data on hospitalization in United States correct for under-reporting estimate seasons after 2009 pandemic. Five sites Influenza Hospitalization Surveillance Network (FluSurv-NET) collected frequency sensitivity testing during two under-detection. Population-based rates influenza-associated Intensive Care Unit...
In January 2005, a quadrivalent (serogroups A, C , Y, and W-135) meningococcal conjugate vaccine was licensed for use in adolescents. This report describes the epidemiologic features of disease United States from 1998 through December 2007, before during implementation adolescent vaccination.Data were collected active surveillance invasive Neisseria meningitidis conducted Active Bacterial Core (ABCs) sites 1998-2007. Isolates cases serogrouped at ABCs site confirmed Centers Disease Control...
Alternative splicing is an important mechanism for increasing protein diversity. However, its functional effects are largely unknown. Here, we present our new software workflow composed of the open-source application AltAnalyze and Cytoscape plugin DomainGraph. Both programs provide intuitive comprehensive end-to-end solution analysis visualization alternative data from Affymetrix Exon Gene Arrays at level proteins, domains, microRNA binding sites, molecular interactions pathways. Our tools...
In 16S rRNA gene sequencing, certain bacterial genera were found to be underrepresented or even missing in taxonomic profiles when using unsuitable primer combinations, outdated reference databases, inadequate pipeline settings. Concerning the last, quality thresholds as well bioinformatic settings (i.e., clustering approach, analysis pipeline, and specific adjustments such truncation) are responsible for a number of observed differences between studies.
Novel data streams (NDS), such as web search or social media updates, hold promise for enhancing the capabilities of public health surveillance. In this paper, we outline a conceptual framework integrating NDS into current Our approach focuses on two key questions: What are opportunities using and what minimal tests validity utility that must be applied when NDS? Identifying these will necessitate involvement authorities an appreciation diversity objectives scales across agencies at...
Centrosomes are important cell organizers. They consist of a pair centrioles surrounded by pericentriolar material (PCM) that expands dramatically during mitosis-a process termed centrosome maturation. How centrosomes mature remains mysterious. Here, we identify domain in Drosophila Cnn appears to be phosphorylated Polo/Plk1 specifically at mitosis. The phosphorylation promotes the assembly scaffold around is constant flux, with molecules recruited continuously as spreads slowly outward....
Significance Current one drug–one target–one disease approaches in drug discovery have become increasingly inefficient. Network pharmacology defines mechanisms as networks best targeted by multiple, synergistic drugs. Using the high unmet medical need indication stroke, we here develop an integrative silico approach based on a primary target, NADPH oxidase type 4, to identify mechanistically related cotarget, NO synthase, for network pharmacology. Indeed, validate both vivo and vitro,...
Coronavirus Disease-2019 (COVID-19) is an infectious disease caused by the SARS-CoV-2 virus. It was first identified in Wuhan, China, and has since spread causing a global pandemic. Various studies have been performed to understand molecular mechanisms of viral infection for predicting drug repurposing candidates. However, such information across many publications it very time-consuming access, integrate, explore, exploit. We developed CoVex, interactive online platform SARS-CoV-1 host...
Group B Streptococcus (GBS) is an important cause of invasive bacterial disease. Previous studies have shown a substantial and increasing burden GBS infections among nonpregnant adults, particularly older adults those with underlying medical conditions.
Responding quickly to unknown pathogens is crucial stop uncontrolled spread of diseases that lead epidemics, such as the novel coronavirus, and keep protective measures at a level causes little social economic harm possible. This can be achieved through computational approaches significantly speed up drug discovery. A powerful approach restrict search existing drugs repurposing, which vastly accelerate usually long approval process. In this Review, we examine representative set currently...
The collection, storage, and analysis of large data sets are relevant in many sectors. Especially the medical field, processing patient promises great progress personalized health care. However, it is strictly regulated, such as by General Data Protection Regulation (GDPR). These regulations mandate strict security protection and, thus, create major challenges for collecting using sets. Technologies federated learning (FL), especially paired with differential privacy (DP) secure multiparty...
Molecular profiling techniques such as metagenomics, metatranscriptomics or metabolomics offer important insights into the functional diversity of microbiome. In contrast, 16S rRNA gene sequencing, a widespread and cost-effective technique to measure microbial diversity, only allows for indirect estimation function. To mitigate this, tools PICRUSt2, Tax4Fun2, PanFP MetGEM infer profiles from sequencing data using different algorithms. Prior studies have cast doubts on quality these...