A5101932607- Bioinformatics and Genomic Networks
- Gene Regulatory Network Analysis
- Computational Drug Discovery Methods
- Gene expression and cancer classification
- Single-cell and spatial transcriptomics
- Asthma and respiratory diseases
- Biomedical Text Mining and Ontologies
- Semantic Web and Ontologies
- Allergic Rhinitis and Sensitization
- HER2/EGFR in Cancer Research
- Genetics, Bioinformatics, and Biomedical Research
- Monoclonal and Polyclonal Antibodies Research
- Gastric Cancer Management and Outcomes
- Machine Learning in Bioinformatics
- Microbial Metabolic Engineering and Bioproduction
- Schizophrenia research and treatment
- Cancer Research and Treatments
- Treatment of Major Depression
- Nutrition, Genetics, and Disease
- Noise Effects and Management
- Fibromyalgia and Chronic Fatigue Syndrome Research
- Long-Term Effects of COVID-19
- Molecular Biology Techniques and Applications
- Cystic Fibrosis Research Advances
- Biological Research and Disease Studies
Biomax Informatics (Germany)
2014-2023
Stanford University
2006-2008
The Stanford Microarray Database (SMD; http://smd.stanford.edu/) is a research tool and archive that allows hundreds of researchers worldwide to store, annotate, analyze share data generated by microarray technology. SMD supports most major platforms, MIAME-supportive can export or import MAGE-ML. primary mission be from the point generation publication dissemination, but it also provides unrestricted access analysis tools public 300 publications. In addition supporting ongoing research,...
Cross-sectional studies suggested that allergy prevalence in childhood is higher boys compared to girls, but it remains unclear whether this inequality changes after puberty. We examined the sex-specific of asthma and rhinitis as single multimorbid diseases before puberty onset longitudinal cohort data.In six European population-based birth cohorts MeDALL, we assessed outcomes: current rhinitis, asthma, allergic multimorbidity (ie, concurrent rhinitis), status sensitization by specific serum...
Background: The role of tobacco smoke exposure in the development and persistence asthma rhinoconjunctivitis through childhood into adolescence is unclear. Objectives: We assessed associations parental smoking from fetal life with during adolescence. Methods: analyzed data for 10,860 participants five European birth cohort studies Mechanisms Development Allergy (MeDALL) consortium. Parental habits health outcomes (early transient, persistent, adolescent-onset rhinoconjunctivitis) were based...
To enhance our understanding of complex biological systems like diseases we need to put all the available data into context and use this detect relations, pattern rules which allow predictive hypotheses be defined. Life science has become a rich with information about behaviour millions entities genes, chemical compounds, diseases, cell types organs, are organised in many different databases and/or spread throughout literature. Existing knowledge such as genotype - phenotype relations or...
Advances in high throughput technologies and growth of biomedical knowledge have contributed to an exponential increase associative data. These data can be represented the form complex networks biological associations, which are suitable for systems analyses. However, these usually lack both, context specificity time space as well distinctive borders, assigned classical pathway view molecular events (e.g. signal transduction). This complexity interconnectedness call automated techniques that...
Abstract Multi-omics approaches use a diversity of high-throughput technologies to profile the different molecular layers living cells. Ideally, integration this information should result in comprehensive systems models cellular physiology and regulation. However, most multi-omics projects still include limited number assays there have been very few multi-omic studies that evaluate dynamic processes such as growth, development adaptation. Hence, we lack formal analysis methods datasets can...
Machine learning (ML) approaches have the potential to uncover regular patterns in multi-layered data. Here we applied self-organizing maps (SOMs) detect such with aim better predict in-stent restenosis (ISR) at surveillance angiography 6 8 months after percutaneous coronary intervention stenting.
The molecular mechanism of action the HER2-targeted antibody trastuzumab is only partially understood, and direct effects on gastric cancer signaling network are unknown. In this study, we compared effect HER kinase inhibitor afatinib receptor tyrosine (RTK) downstream-acting intracellular kinases in cell lines. phosphorylation 49 RTKs 43 sites were investigated three lines (NCI-N87, MKN1, MKN7) using proteome profiling. To evaluate these effects, data analyzed mixed models clustering....
The cause of a complex disease cannot be pinpointed to single origin; rather, highly network many factors that interact on different levels over time and space is disturbed. This complexity requires novel approaches diagnosis, treatment, prevention. To foster the necessary shift pro-active systems medicine, proof-of-concept studies are needed. Here, we highlight several have been shown work within field respiratory propose next steps for broader implementation.
Abstract We describe a large-scale community effort to build an open-access, interoperable, and computable repository of COVID-19 molecular mechanisms - the Disease Map. discuss tools, platforms, guidelines necessary for distributed development its contents by multi-faceted biocurators, domain experts, bioinformaticians, computational biologists. highlight role relevant databases text mining approaches in enrichment validation curated mechanisms. Map their relevance pathophysiology...
MAGE-ML has been promoted as a standard format for describing microarray experiments and the data they produce. Two characteristics of compromise its use universal standard: First, files are exceptionally large – too to be easily read by most people, often software programs. Second, permits many ways representing same information. As result, different producers create documents experiment data. Recognizing all variants is an unwieldy engineering task, resulting in packages that can process...
The response of pathophysiological research to emerging epidemics often occurs after the epidemic and, as a consequence, has little no impact on improving patient outcomes or developing high-quality evidence inform clinical management strategies during epidemic. Rapid and informed guidance (research) responses severe infectious disease outbreaks requires quick compilation integration existing knowledge. As case study we chose Zika virus (ZIKV) outbreak that started in 2015 develop...
The integrative approach of Systems Biology promises a better understanding complex phenotypes such as cardiovascular disease, diabetes or chronic obstructive pulmonary disease (COPD). It aims to interconnect current knowledge with experimental data, in-silico analysis and simulation. To this end the existing must be semantically integrated in single environment dynamically organised into structured networks that are connected data. From resulting information local sub-networks associated...
Abstract Multi-omics approaches use a diversity of high-throughput technologies to profile the different molecular layers living cells. Ideally, integration this information should result in comprehensive systems models cellular physiology and regulation. However, most multi-omics projects still include limited number assays there have been very few multi-omic studies that evaluate dynamic processes such as growth, development adaptation. Hence, we lack formal analysis methods datasets can...