News (90)
New Publication "Flexynesis: A deep learning toolkit for bulk multi-omics data integration for precision oncology and beyond"
Flexynesis: bridging multi-omics complexity with transparent AI for Cancer research and beyond
BRC-analytics is open for business!
From data to publication in a browser with BRC-Analytics: Evolutionary dynamics of coding overlaps in measles virus
New Publication "Galaxy single-cell & spatial omics community update: Navigating new frontiers in 2025"
The Galaxy single-cell and spatial omics community (SPOC) is thrilled to share the latest updates on tools, datasets, and collaborative initiatives driving open and reproducible single-cell and spatial omics research in 2025.
Unraveling the Mystery of GRB 221009A: Secondary Gamma Rays and Cosmic Magnetic Field
The possibility of multi-TeV secondary gamma rays from GRB221009A
Genomics to Notebook (g2nb): extending the computational notebook
An environment that integrates Jupyter with Galaxy, allowing tools to be added as notebook cells, and providing access to thousands of bioinformatics tools from within a notebook interface.
New Paper "Guidance framework to apply best practices in ecological data analysis: lessons learned from building Galaxy-Ecology"
We are excited to share our recent publication in GigaScience. This paper presents a practical framework aimed at improving transparency, reproducibility, and efficiency in ecological research by leveraging the Galaxy-Ecology platform.
New Paper "Clouds influence the functioning of airborne microorganisms"
Péguilhan et al. have collaborated with Dr. Bérénice Batut and Engy Nasr and used Galaxy for Cloud and Clear skys data analysis in their newly published paper
Unlocking Microbial Data Analysis: The microGalaxy Preprint Is Here!
New Preprint: PathoGFAIR, a collection of FAIR and adaptable (meta)genomics workflows for (foodborne) pathogens detection and tracking
Transcriptomic Data Analysis Using the Galaxy Platform
An interesting book chapter presents an overview of a transcriptomics data analysis pipeline using Galaxy, specifically designed for studying gene expression in coffee flowers. This pipeline can be leveraged in genetic improvement programs, for instance, to combat climate change
Paper alert: "Galaxy as a gateway to bioinformatics: Multi-Interface Galaxy Hands-on Training Suite (MIGHTS) for scRNA-seq"
New Paper "Transformer-based tool recommendation system in Galaxy"
New Review Article "A Galaxy of informatics resources for MS-based proteomics"
Mehta et al. have written a review about the Galaxy ecosystem as it has emerged as a pivotal player by providing a range of open-source tools and adaptable computing solutions for proteomics research
New Paper "Integrative meta-omics in Galaxy and beyond"
Schiml *et al.* present three integrative meta-omics workflows, developed in Galaxy, for enhanced analysis and integration of metagenomics, metatranscriptomics, and metaproteomics, combined with a newly developed web-application, ViMO (Visualizer for Meta-Omics) to analyse metabolisms in complex microbial communities.
New Paper "An accessible infrastructure for artificial intelligence using a Docker-based JupyterLab in Galaxy"
New Paper "A panel of blood-derived miRNAs with a stable expression pattern as a potential pan-cancer detection signature"
Sabbaghian and colleagues have used the European Galaxy server to study miRNAs as biomarkers for cancer
New Paper "Return of the Tbx5; lineage-tracing reveals ventricular cardiomyocyte-like precursors in the injured adult mammalian heart"
Siatra et al. have used the European Galaxy server to identify cell populations capable of cardiac regeneration that we will be able to trace and monitor
New Paper "Comparative phylogenomic insights of KCS and ELO gene families in Brassica species indicate their role in seed development and stress responsiveness"
Khan et al. present a comparative genome-wide analysis and mode of evolution of Ketoacyl-CoA synthase (KCS) and Elongation Defective Elongase (ELO) gene families
New Paper "Intrasexual cuticular hydrocarbon dimorphism in a wasp sheds light on hydrocarbon biosynthesis genes in Hymenoptera"
Moris et al. have used the European Galaxy server to exploit the intrasexual CHC dimorphism in a mason wasp, Odynerus spinipes
New Paper "The Planemo toolkit for developing, deploying, and executing scientific data analyses in Galaxy and beyond"
Bray *et al.* outline the implementation and broad range of functionality of Planemo, a software development kit for designing, testing, and executing Galaxy tools, workflows, and training materials.