Explanipedia

Characterizing resistance in prostate cancer at a single cell level with hormonal treatment and epigenetic inhibitors Open

Morgan Howells, Priyadarsini Gangadharannambiar, Carmit K. McMullen, Francesco Crea, Wendi Bacon , et al. · 2025

Background Late-stage prostate cancer is treated with hormonal therapy. While initially effective, development of drug resistance is common. Hypoxia, a local-environmental occurrence in tumours, is known to trigger hormone-independence and…

Galaxy single-cell & spatial omics community update: Navigating new frontiers in 2025 Open

Marisa Loach, Amirhossein Naghsh Nilchi, Diana Chiang, Morgan Howells, Florian Heyl , et al. · 2025

Single-cell omics, named Method of the Year three times, have revolutionized biological research by enabling the high-resolution exploration of cellular heterogeneity and molecular processes. Initially centered on transcriptomics, this rap…

Ten Common Misconceptions About Galaxy (and Why They Are Wrong! Open

Wendi Bacon, Sanjay Kumar Srikakulam, Bérénice Batut, Paul Zierep, Anthony Bretaudeau , et al. · 2025

Galaxy is a widely used open-source platform for accessible, reproducible, transparent, and scalable data analysis in the life sciences and beyond. Despite its growing adoption across domains, several misconceptions persist about its scope…

Community-Curated Galaxy Interfaces with the Galaxy Labs Engine Open

Cameron Hyde, Anna Syme, Bérénice Batut, Paul Zierep, Winnie Mok , et al. · 2025

The Galaxy platform is a globally distributed environment for data-intensive research, providing thousands of analysis tools across major public servers. However, this decentralised ecosystem presents usability challenges for both users an…

Correction: High-dose BCNU/Melphalan conditioning regimen before autologous stem cell transplantation in newly diagnosed multiple myeloma Open

Dharshan Sivaraj, Wendi Bacon, Gwynn D. Long, David A. Rizzieri, Michael E Horwitz , et al. · 2025

Combining datasets after pre-processing Open

Wendi Bacon · 2025

These are downsampled datasets for the single cell case study in Galaxy https://training.galaxyproject.org/training-material/topics/single-cell/tutorials/scrna-case_alevin-combine-datasets/tutorial.html

AnnData object for case study tutorials Open

Wendi Bacon · 2025

This dataset works for the Filter, Plot & Explore tutorial: https://training.galaxyproject.org/training-material/topics/single-cell/tutorials/scrna-case_basic-pipeline/tutorial.html

Galaxy as a gateway to bioinformatics: Multi-Interface Galaxy Hands-on Training Suite (MIGHTS) for scRNA-seq Open

Camila L Goclowski, Julia Jakiela, Tyler Collins, Saskia Hiltemann, Morgan Howells , et al. · 2025

Background Bioinformatics is fundamental to biomedical sciences, but its mastery presents a steep learning curve for bench biologists and clinicians. Learning to code while analyzing data is difficult. The curve may be flattened by separat…

The ELIXIR-UK training club: Building skills and expanding opportunities Open

Khaled Jumah, Wendi Bacon, Krzysztof Poterlowicz · 2025

MASS-12: Evidence-based Martial Arts Striking Sports Injury Prevention Programme Open

Wendi Bacon, Rowan Wilson · 2024

Despite a focus on contact injuries in martial arts, many injuries are non-contact, from ligament tears to ankle sprains, and could be prevented with appropriate prehabilitation. With an emphasis on tradition, recreational martial arts clu…

Galaxy CoDex for finding tools, workflows, and training Open

Bérénice Batut, Wendi Bacon, Paul Zierep, Matthias Bernt, Nicola Soranzo , et al. · 2024

International audience

Downsampled AnnData input file - Galaxy Training Material Open

Julia Jakiela, Wendi Bacon · 2023

Downsampled input dataset for the Single Cell Data Formats Conversion tutorial on Galaxy Training Network.

Downsampled AnnData input file - Galaxy Training Material Open

Julia Jakiela, Wendi Bacon · 2023

<p>Downsampled input dataset for the Single Cell Data Formats Conversion tutorial on Galaxy Training Network. </p>

The Influence of Gender Dynamics on Women’s Experiences in Martial Arts: A Scoping Review Open

Rosie K. Lindsay, Jo Horne, Jill Shaw, Nichola Kentzer, Wendi Bacon · 2023

Applications of single-cell RNA sequencing in drug discovery and development Open

Bram Van de Sande, Joon Sang Lee, Euphemia Mutasa-Gottgens, Bartholomew J. Naughton, Wendi Bacon , et al. · 2023

Single-cell technologies, particularly single-cell RNA sequencing (scRNA-seq) methods, together with associated computational tools and the growing availability of public data resources, are transforming drug discovery and development. New…

Correction: Ten simple rules for leveraging virtual interaction to build higher-level learning into bioinformatics short courses Open

Wendi Bacon, Alexandra Holinski, Marina Pujol, Meredith Wilmott, Sarah Morgan · 2023

[This corrects the article DOI: 10.1371/journal.pcbi.1010220.].

Deciphering Tumour Microenvironment of Liver Cancer through Deconvolution of Bulk RNA-Seq Data with Single-Cell Atlas Open

Shaoshi Zhang, Wendi Bacon, Maikel P. Peppelenbosch, Folkert J. van Kemenade, Andrew Stubbs · 2022

Liver cancers give rise to a heavy burden on healthcare worldwide. Understanding the tumour microenvironment (TME) underpins the development of precision therapy. Single-cell RNA sequencing (scRNA-seq) technology has generated high-quality…

Datasets for MuSiC Deconvolution benchmarking tutorial suite. Open

Wendi Bacon · 2022

These are the datasets for the MuSiC deconvolution benchmarking tutorial suite.

Datasets for MuSiC Deconvolution benchmarking tutorial suite. Open

Wendi Bacon · 2022

These are the datasets for the MuSiC deconvolution benchmarking tutorial suite.

Datasets for MuSiC Compare Tutorial Open

Wendi Bacon · 2022

These datasets are used for the MuSiC compare tutorial in Galaxy.

Datasets for MuSiC Compare Tutorial Open

Wendi Bacon · 2022

These datasets are used for the MuSiC compare tutorial in Galaxy.

AnnData object for case study tutorials Open

Wendi Bacon · 2022

This dataset works for the Filter, Plot & Explore tutorial.

AnnData object for case study tutorials Open

Wendi Bacon · 2022

This dataset works for the Filter, Plot & Explore tutorial.

Combining datasets after pre-processing Open

Wendi Bacon · 2022

These are the updated datasets for the single cell case study in Galaxy

Combining datasets after pre-processing Open

Wendi Bacon · 2022

These are the updated datasets for the single cell case study in Galaxy

Galaxy Training: A Powerful Framework for Teaching! Open

Saskia Hiltemann, Helena Rasche, Simon Gladman, Hans-Rudolf Hotz, Delphine Larivière , et al. · 2022

There is an ongoing explosion of scientific datasets being generated, brought on by recent technological advances in many areas of the natural sciences. As a result, the life sciences have become increasingly computational in nature, and b…

Trajectories_Jupyter_Tutorial Open

Wendi Bacon · 2021

These datasets and Jupyter notebooks are used in the single cell trajectories tutorial on the Galaxy Training Network site.

Trajectories_Jupyter_Tutorial Open

Wendi Bacon · 2021

These datasets and Jupyter notebooks are used in the single cell trajectories tutorial on the Galaxy Training Network site.

Trajectories_Jupyter_Tutorial Open

Wendi Bacon · 2021

These datasets and Jupyter notebooks are used in the single cell trajectories tutorial on the Galaxy Training Network site.

Trajectories_Jupyter_Tutorial Open

Wendi Bacon · 2021

These datasets and Jupyter notebooks are used in the single cell trajectories tutorial on the Galaxy Training Network site.

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