A5058365734- Biomedical Text Mining and Ontologies
- Neurobiology and Insect Physiology Research
- Topic Modeling
- Invertebrate Immune Response Mechanisms
- Semantic Web and Ontologies
- Cell death mechanisms and regulation
- Developmental Biology and Gene Regulation
- Phagocytosis and Immune Regulation
- Single-cell and spatial transcriptomics
- Evolution and Genetic Dynamics
- Cellular Mechanics and Interactions
- Bioinformatics and Genomic Networks
- Research Data Management Practices
- Cell Image Analysis Techniques
- Scientific Computing and Data Management
Cardiff University
2019-2025
European Bioinformatics Institute
2024-2025
University of Birmingham
2022
Ontologies are fundamental components of informatics infrastructure in domains such as biomedical, environmental, and food sciences, representing consensus knowledge an accurate computable form. However, their construction maintenance demand substantial resources necessitate collaboration between domain experts, curators, ontology experts. We present Dynamic Retrieval Augmented Generation using AI (DRAGON-AI), generation method employing Large Language Models (LLMs) (RAG). DRAGON-AI can...
Multipotent adult stem cells balance self-renewal with differentiation into various cell types. How this is regulated at the transcriptional level poorly understood. Here, we show that a network of basic helix-loop-helix (bHLH) transcription factors controls both stemness and bipotential in Drosophila intestine. We find homodimers Daughterless (Da), homolog mammalian E proteins, maintain intestinal (ISCs), antagonizing enteroendocrine fate promoted by heterodimers Da Scute (Sc; ASCL). The...
Abstract Annotation with widely used, well-structured ontologies, combined the use of ontology-aware software tools, ensures data and analyses are Findable, Accessible, Interoperable Reusable (FAIR). Standardized terms synonyms support lexical search. Ontology structure supports biologically meaningful grouping annotations (typically by location type). However, there significant barriers to adoption ontologies researchers resource developers. One barrier is complexity. Ontologies serving...
Stress-induced cell death, mainly apoptosis, and its subsequent tissue repair is interlinked although our knowledge of this connection still very limited. An intriguing finding apoptosis-induced proliferation (AiP), an evolutionary conserved mechanism employed by apoptotic cells to trigger compensatory their neighboring cells. Studies using Drosophila as a model organism have revealed that caspases c-Jun N-terminal kinase (JNK) signaling play critical roles activate AiP. For example, the...
ABSTRACT Multipotent adult stem cells must balance self-renewal with differentiation into various mature cell types. How this is regulated at the transcriptional level poorly understood. Here we show that a network of basic Helix-Loop-Helix (bHLH) transcription factors controls both stemness and bi-potential in Drosophila intestine. We find homodimers Daughterless (Da), homolog mammalian E proteins, maintain intestinal (ISCs), antagonise activity heterodimers Da Scute (Sc), ASCL known...
Ontologies are fundamental components of informatics infrastructure in domains such as biomedical, environmental, and food sciences, representing consensus knowledge an accurate computable form. However, their construction maintenance demand substantial resources, necessitating collaborative efforts domain experts, curators, ontology experts. We present Dynamic Retrieval Augmented Generation using AI (DRAGON-AI), generation method employing Large Language Models (LLMs) (RAG). This can...