New Tutorial Suite: Deconvolution with MuSiC, from public data to disease interrogation!

Author(s) Mehmet Tekman avatar Mehmet Tekmanorcid logoWendi Bacon avatar Wendi Bacon
new tutorial single-cell transcriptomics

Posted on: 29 November 2022 PURL: https://gxy.io/GTN:N00039

The still new and shiny single-cell analysis topic now boasts a deconvolution tutorial suite! What does deconvolution do you ask? Well, in this context, it infers cell proportions from bulk RNA-seq data. You heard that correctly - instead of expensive new single-cell experiments, you can re-analyse old bulk RNA-seq data and estimate cell proportions. All you need is a reasonably good single cell dataset to use as a reference and you’re good to go! The tutorial suite shows you how to build your reference from publicly available single cell data, and apply analysis to some publicly available bulk RNA-seq data.

This suite was built byorcid logoWendi Bacon avatar Wendi Bacon,Mehmet Tekman avatar Mehmet Tekmanand we’d love to hear your thoughts, so do fill out the feedback form at the ends or give us a shout on the galaxy-single-cell Gitter/Matrix forums!

We are also planning to test this as potential undergraduate capstone projects, so please get in touch if you’d like to be a help with such a study.

Heatmap with columns of cell types vs rows of inferred and actual cell type proportions for A and B samples. Cell colours are similar between actual and inferred.

Recent News

See all news

Scaling Up Hands-On Bioinformatics Training with TIAAS – An Open University Perspective

3 July 2025   gtn TIAAS

Back in September 2024, we ran the Open University Bioinformatics Bootcamp—a free, five-day online course introducing students to the core tools and techniques used in single-cell biology. We were genuinely delighted by the level of interest: 120 students signed up, 100 showed up, and around 80 worked through the hands-on tutorials during the week. That’s a fantastic level of engagement, especially for a course that’s entirely optional and doesn’t count towards their degree.

Enhancing Scientific Training: The Galaxy Training Network's Role in the ELIXIR Training Life-Cycle

1 July 2025   gtn

In the rapidly evolving landscape of data science, continuous learning and skill development are crucial. The Galaxy Training Network (GTN) plays a pivotal role in this educational ecosystem, particularly within the ELIXIR Training Life-Cycle. This blog post explores how the GTN contributes to each phase of the life-cycle and aligns with the SPLASH recommendations, ensuring high-quality training for researchers worldwide.

An Ode to the Galaxy Community and all I learned

19 June 2025   gtn

This is my ode to the Galaxy Community to say how grateful I have been for your welcome, your energy, and your support. I have learned so very, very much, about bioinformatics; about software development; and most of all, about open-source communities in this complex scientific world.