Giulia Antonazzo
A5029311602- Bioinformatics and Genomic Networks
- Genomics and Phylogenetic Studies
- Biomedical Text Mining and Ontologies
- Neurobiology and Insect Physiology Research
- Microbial Natural Products and Biosynthesis
- Gene expression and cancer classification
- Insect symbiosis and bacterial influences
- Animal Behavior and Reproduction
- Insect Resistance and Genetics
- RNA modifications and cancer
- Invertebrate Immune Response Mechanisms
- Insect behavior and control techniques
- Tardigrade Biology and Ecology
- Species Distribution and Climate Change
- CRISPR and Genetic Engineering
- Actinomycetales infections and treatment
- RNA Research and Splicing
- scientometrics and bibliometrics research
- Viral Infectious Diseases and Gene Expression in Insects
- Insect-Plant Interactions and Control
- Hippo pathway signaling and YAP/TAZ
- Diptera species taxonomy and behavior
- 14-3-3 protein interactions
- Scientific Computing and Data Management
- Computational Drug Discovery Methods
University of Cambridge
2015-2025
University of Padua
2023
University College London
2023
SIB Swiss Institute of Bioinformatics
2023
Stanford University
2023
Phoenix Bioinformatics
2023
University at Buffalo, State University of New York
2023
University of Southern California
2023
Abstract The Gene Ontology Consortium (GOC) provides the most comprehensive resource currently available for computable knowledge regarding functions of genes and gene products. Here, we report advances consortium over past two years. new GO-CAM annotation framework was notably improved, formalized model with a computational schema to check validate rapidly increasing repository 2838 GO-CAMs. In addition, describe impacts several collaborations refine GO 10% increase in number annotations,...
Since 1992, FlyBase (flybase.org) has been an essential online resource for the Drosophila research community. Concentrating on most extensively studied species, melanogaster, includes information genes (molecular and genetic), transgenic constructs, phenotypes, genetic physical interactions, reagents such as stocks cDNAs. Access to data is provided through a number of tools, reports, bulk-data downloads. Looking future, expanding its focus serve broader scientific In this update, we...
FlyBase provides a centralized resource for the genetic and genomic data of Drosophila melanogaster. As enters our fourth decade service to research community, we reflect on unique aspects look forward continued collaboration with larger model organism communities. In this study, emphasize dedicated reports tools have constructed meet specialized needs fly researchers but also facilitate use by other We highlight ways that support including an external resources page, help resources,...
FlyBase (flybase.org) is an essential online database for researchers using Drosophila melanogaster as a model organism, facilitating access to diverse array of information that includes genetic, molecular, genomic and reagent resources. Here, we describe the introduction several new features at FlyBase, including Pathway Reports, paralog information, disease models based on orthology, customizable tables within reports overview displays ('ribbons') expression data. We also variety recent...
Many publications describe sets of genes or gene products that share a common biology. For example, genome-wide studies and phylogenetic analyses identify related in sequence; high-throughput genetic molecular screens reveal functionally products; advanced proteomic methods can determine the subunit composition multi-protein complexes. It is useful for such collections to be presented as discrete lists within appropriate Model Organism Database (MOD) so researchers readily access these data...
Abstract FlyBase (flybase.org) is a model organism database and knowledge base about Drosophila melanogaster, commonly known as the fruit fly. Researchers from around world rely on genetic, genomic, functional information available in FlyBase, well its tools to view interrogate these data. In this article, we describe latest developments updates FlyBase. These include introduction of single-cell RNA sequencing data, improved content display information, updated orthology pipelines, new...
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,...
Abstract Gene set enrichment analysis (GSEA) plays an important role in large-scale data analysis, helping scientists discover the underlying biological patterns over-represented a gene list resulting from, for example, ‘omics’ study. Ontology (GO) annotation is most frequently used classification mechanism definition. Here we present new GSEA tool, PANGEA (PAthway, Network and Gene-set Enrichment Analysis; https://www.flyrnai.org/tools/pangea/), developed to allow more flexible configurable...
Abstract The Alliance of Genome Resources (Alliance) is an extensible coalition knowledgebases focused on the genetics and genomics intensively studied model organisms. organized as individual knowledge centers with strong connections to their research communities a centralized software infrastructure, discussed here. Model organisms currently represented in are budding yeast, Caenorhabditis elegans, Drosophila, zebrafish, frog, laboratory mouse, rat, Gene Ontology Consortium. project rapid...
Abstract Multicellular organisms rely on cell–cell communication to exchange information necessary for developmental processes and metabolic homeostasis. Cell–cell pathways can be inferred from transcriptomic datasets based ligand–receptor expression. Recently, data generated single-cell RNA sequencing have enabled interaction predictions at an unprecedented resolution. While computational methods are available infer in vertebrates such a tool does not yet exist Drosophila. Here, we...
Regulatory non-coding RNAs (ncRNAs) are increasingly recognized as integral to the control of biological processes. This is often through targeted regulation mRNA expression, but this by no means only mechanism which regulatory ncRNAs act. The Gene Ontology (GO) has long been used for systematic annotation protein-coding and ncRNA gene function, rapid progress in understanding meant that ontology needed be revised accurately reflect current knowledge. Here, a effort revise GO terms...
Abstract A comprehensive, computable representation of the functional repertoire all macromolecules encoded within human genome is a foundational resource for biology and biomedical research. The Gene Ontology Consortium has been working towards this goal by generating structured body information about gene functions, which now includes experimental findings reported in more than 175,000 publications genes experimentally tractable model organisms 1,2 . Here, we describe results large,...
Research in model organisms is central to the characterization of signaling pathways multicellular organisms. Here, we present systematic curation 17 Drosophila using Gene Ontology framework establish a comprehensive and dynamic resource that has been incorporated into FlyBase, providing visualization data integration tools aid research projects. By restricting experimental evidence reported literature quantifying amount such for each gene pathway, captured landscape empirical knowledge Drosophila.
Abstract Brief summaries describing the function of each gene’s product(s) are great value to research community, especially when interpreting genome-wide studies that reveal changes hundreds genes. However, manually writing such summaries, even for a single species, is daunting task; example, Drosophila melanogaster genome contains almost 14 000 protein-coding One solution use computational methods generate but this often fails capture key functions or express them eloquently. Here, we...
Abstract FlyBase (flybase.org) is the primary online database of genetic, genomic, and functional information about Drosophila species, with a major focus on model organism melanogaster . The long rich history research, combined recent surges in genomic‐scale high‐throughput technologies, mean that now houses huge quantity data. Researchers need to be able rapidly intuitively query these data, QuickSearch tool has been designed meet needs. This conveniently located homepage organized into...
ABSTRACT Gene set enrichment analysis (GSEA) plays an important role in large-scale data analysis, helping scientists discover the underlying biological patterns over-represented a gene list resulting from, for example, ‘omics’ study. Ontology (GO) annotation is most frequently used classification mechanism definition. Here we present new GSEA tool, PANGEA (PAthway, Network and Gene-set Enrichment Analysis; https://www.flyrnai.org/tools/pangea/ ), developed to allow more flexible...
Abstract The Alliance of Genome Resources (Alliance) is an extensible coalition knowledgebases focused on the genetics and genomics intensively-studied model organisms. organized as individual knowledge centers with strong connections to their research communities a centralized software infrastructure, discussed here. Model organisms currently represented in are budding yeast, C. elegans , Drosophila zebrafish, frog, laboratory mouse, rat, Gene Ontology Consortium. project rapid development...
ABSTRACT Multicellular organisms rely on cell-cell communication to exchange information necessary for developmental processes and metabolic homeostasis. Cell-cell pathways can be inferred from transcriptomic datasets based ligand-receptor (L-R) expression. Recently, data generated single cell RNA sequencing (scRNA-seq) have enabled L-R interaction predictions at an unprecedented resolution. While computational methods are available infer in vertebrates such a tool does not yet exist...
Abstract One of the most powerful ways to develop hypotheses regarding biological functions conserved genes in a given species, such as humans, is first look at what known about function another species. Model organism databases (MODs) and other resources are rich with functional information but difficult mine. Gene2Function (G2F) addresses broad need by integrating single online resource.