A5061863544- Biomedical Text Mining and Ontologies
- Bioinformatics and Genomic Networks
- Genetics, Bioinformatics, and Biomedical Research
- Genomics and Rare Diseases
- Gene expression and cancer classification
- Single-cell and spatial transcriptomics
- Genomics and Phylogenetic Studies
- Genetic Mapping and Diversity in Plants and Animals
- Genetic and phenotypic traits in livestock
- Biodiesel Production and Applications
- Southeast Asian Sociopolitical Studies
- Colonialism, slavery, and trade
- Endometriosis Research and Treatment
- Uterine Myomas and Treatments
- Topic Modeling
- Lubricants and Their Additives
- Biofuel production and bioconversion
- Estrogen and related hormone effects
- Endometrial and Cervical Cancer Treatments
- Electric and Hybrid Vehicle Technologies
- Catalysis and Hydrodesulfurization Studies
- Mitochondrial Function and Pathology
- Zebrafish Biomedical Research Applications
- Fuel Cells and Related Materials
- Machine Learning in Bioinformatics
University of Colorado Anschutz Medical Campus
2023-2024
University of North Carolina at Chapel Hill
2024
XLAB (Slovenia)
2022
University of Oregon
2007-2020
Johann Heinrich von Thünen-Institut
2014
ZFIN, the Zebrafish Model Organism Database (http://zfin.org), is central resource for zebrafish genetic, genomic, phenotypic and developmental data. ZFIN curators manually curate integrate comprehensive data involving genes, mutants, transgenics, phenotypes, genotypes, gene expressions, morpholinos, antibodies, anatomical structures publications. Integrated views of these data, as well gathered through collaborations exchanges, are provided a wide selection web-based search forms. Among...
Abstract The Alliance of Genome Resources (Alliance) is a consortium the major model organism databases and Gene Ontology that guided by vision facilitating exploration related genes in human well-studied organisms providing highly integrated comprehensive platform enables researchers to leverage extensive body genetic genomic studies these organisms. Initiated 2016, building central portal (www.alliancegenome.org) for access data primary along with gene ontology data. All types represented...
The Alliance of Genome Resources (the Alliance) is a combined effort 7 knowledgebase projects: Saccharomyces Database, WormBase, FlyBase, Mouse the Zebrafish Information Network, Rat and Gene Ontology Resource. seeks to provide several benefits: better service various communities served by these projects; harmonized view data for all biomedical researchers, bioinformaticians, clinicians, students; more sustainable infrastructure. has cross-organism useful comparative views gene function,...
ZFIN, the Zebrafish Model Organism Database, http://zfin.org , serves as central repository and web-based resource for zebrafish genetic, genomic, phenotypic developmental data. ZFIN manually curates comprehensive data genes, phenotypes, genotypes, gene expression, antibodies, anatomical structures publications. A wide-ranging collection of search forms tools facilitates access to integrated views these promoting analysis scientific discovery. Data represented in are derived from three...
The Zebrafish Information Network (ZFIN, http://zfin.org), the model organism database for zebrafish, provides central location curated zebrafish genetic, genomic and developmental data. Extensive data integration of mutant phenotypes, genes, expression patterns, sequences, genetic markers, morpholinos, map positions, publications community resources facilitates use as a studying gene function, development, behavior disease. Access to ZFIN is provided via web-based query forms through bulk...
The Zebrafish Model Organism Database (ZFIN; https://zfin.org) is the central resource for genetic, genomic, and phenotypic data zebrafish (Danio rerio) research. ZFIN continuously assesses trends in research, adding new types providing repositories tools that members of research community can use to navigate data. many advantages flexibility manipulation have made them an increasingly attractive animal model study human disease.To facilitate disease-related developed support provide disease...
The Zebrafish Information Network (ZFIN) (https://zfin.org/) is the database for model organism, zebrafish (Danio rerio). ZFIN expertly curates, organizes and provides a wide array of genetic genomic data, including genes, alleles, transgenic lines, gene expression, function, mutant phenotypes, orthology, human disease models, nomenclature reagents. New features at include increased support regions non-coding more expressive Gene Ontology annotations. has recently taken over maintenance...
Bridging the gap between genetic variations, environmental determinants, and phenotypic outcomes is critical for supporting clinical diagnosis understanding mechanisms of diseases. It requires integrating open data at a global scale. The Monarch Initiative advances these goals by developing ontologies, semantic models, knowledge graphs translational research. App an integrated platform combining about genes, phenotypes, diseases across species. Monarch's APIs enable access to carefully...
The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for genetic and genomic data from zebrafish (Danio rerio) research. ZFIN staff curate detailed information about genes, mutants, genotypes, reporter lines, sequences, constructs, antibodies, knockdown reagents, expression patterns, phenotypes, gene product function, orthology publications. Researchers can submit mutant, transgenic, expression, phenotype directly to use Community Wiki share antibody protocol...
The Zebrafish Model Organism Database (ZFIN; http://zfin.org) is the central resource for zebrafish (Danio rerio) genetic, genomic, phenotypic and developmental data. ZFIN curators provide expert manual curation integration of comprehensive data involving genes, mutants, transgenic constructs lines, phenotypes, genotypes, gene expressions, morpholinos, TALENs, CRISPRs, antibodies, anatomical structures, models human disease publications. We integrate curated, directly submitted,...
Knowledge graphs (KGs) are a powerful approach for integrating heterogeneous data and making inferences in biology many other domains, but coherent solution constructing, exchanging, facilitating the downstream use of KGs is lacking.
Female reproductive disorders (FRDs) are common health conditions that may present with significant symptoms. Diet and environment potential areas for FRD interventions. We utilized a knowledge graph (KG) method to predict factors associated FRDs (for example, endometriosis, ovarian cyst, uterine fibroids). harmonized survey data from the Personalized Environment Genes Study (PEGS) on internal external environmental exposures biomedical ontology content. merged ontologies supplemental...
The Zebrafish Information Network (ZFIN) (https://zfin.org/) is the database for model organism, zebrafish (Danio rerio). ZFIN expertly curates, organizes, and provides a wide array of genetic genomic data, including genes, alleles, transgenic lines, gene expression, function, mutant phenotypes, orthology, human disease models, nomenclature, reagents. New features at include major updates to home page page, two most used pages ZFIN. Data mutants function continue be contributed Alliance...
Abstract We introduce Phenomics Assistant, a prototype chat-based interface for querying the Monarch knowledge graph (KG), comprehensive biomedical database. While unaided Large Language models (LLMs) are prone to mistakes in factual recall, their strong abilities summarization and tool use suggest new opportunities help non-expert users query interact with complex data, while drawing on KG improve reliability of answers. Leveraging ability LLMs interpret queries natural language, Assistant...
Abstract Genome-Wide Association Studies (GWAS) are widely used to infer the genetic basis of traits in organisms, yet selecting appropriate thresholds for analysis remains a significant challenge. In this study, we developed Sequential SNP Prioritization Algorithm (SSPA) elucidate underpinnings two key phenotypes Sorghum bicolor : maximum canopy height and growth rate. Utilizing subset Bioenergy Panel cultivated at Maricopa Agricultural Center Arizona, our objective was employ GWAS with...
Genome-wide association studies (GWAS) are widely used to infer the genetic basis of traits in organisms; however, selecting appropriate thresholds for analysis remains a significant challenge. In this study, we introduce Sequential SNP Prioritization Algorithm (SSPA) investigate underpinnings two key phenotypes Sorghum bicolor: maximum canopy height and growth rate. Using subset Bioenergy Association Panel cultivated at Maricopa Agricultural Center Arizona, performed GWAS with specific...
Demonstrate a methodology for improving discoverability of rare disease datasets by enriching source data with biological associations. We developed an extension the Biolink semantic model to incorporate patient and generated knowledge graph (KG) comprising associations between entities in existing KG, leveraging mappings mapping standards. The enriched can support search application that is aware provides interface discover summarize within broader context. Our enriches wealth additional...
Abstract Objective Female reproductive disorders (FRDs) are common health conditions that may present with significant symptoms. Diet and environment potential areas for FRD interventions. We utilized a knowledge graph (KG) method to predict factors associated FRDs (e.g., endometriosis, ovarian cyst, uterine fibroids). Materials Methods harmonized survey data from the Personalized Environment Genes Study on internal external environmental exposures biomedical ontology content. merged...
Knowledge graphs (KGs) are a powerful approach for integrating heterogeneous data and making inferences in biology many other domains, but coherent solution constructing, exchanging, facilitating the downstream use of knowledge is lacking. Here we present KG-Hub, platform that enables standardized construction, exchange, reuse graphs. Features include simple, modular extract-transform-load (ETL) pattern producing compliant with Biolink Model (a high-level model standardizing biological...
Bei Plug-In-Hybrid-Fahrzeugen erlangt aufgrund moglicher langerer Verweilzeiten des Kraftstoffs im Tank die Alterungsproblematik eine grosere Relevanz. Dies ist insbesondere bei biodieselhaltigen Kraftstoffen der Fall, kurzere Lagerstabilitat Gegensatz zu fossilen aufweisen. Um dennoch Biodiesel als Kraftstoffkomponente langfristig einsetzen konnen, wurden verschiedene Fettalkohole und auch Tributylcitrat (TBC) neuartige, stabilisierende Kraftstoffkomponenten getestet. Dabei wurde darauf...