Episode 39: Spatial proteomics at Pixelgen
Tune in to hear all about Pixelgen Technologies - creators of a novel technology for doing single-cell spatial proteomics.
We chat about how this fascinating technology works, what you can do with the data and why they chose to develop their analysis suite as an open-source nf-core pipeline.
Links:
Software:
nf-core/pixelator pipeline: https://nf-co.re/pixelator
Pixelator Python package: https://github.com/PixelgenTechnologi...
Science:
Nature Methods publication: https://www.nature.com/articles/s4159...
Presentations:
Nextflow Summit 2022 talk: https://summit.nextflow.io/2023/barce...
Nextflow Summit 2024 Boston talk: https://summit.nextflow.io/2024/bosto...
Pixelgen:
Pixelgen Technologies homepage: https://www.pixelgen.com/
@PixelgenTech on twitter / X: / pixelgentech
Pixelgen Technologies on LinkedIn: / pixelgen-technologies
BioLizard:
BioLizard homepage: https://lizard.bio/
@BioLizard_nv on twitter / X: / biolizard_nv
BioLizard on LinkedIn: / biolizard
Chapters:
00:00 - Start
00:09 - Welcome
00:50 - Introductions
01:41 - Intro to Pixelgen Technologies
03:08 - Lab methods
06:15 - Nature Methods publication
09:35 - Data visualisation
12:29 - Working with single cell data
15:06 - Cell interactions
16:05 - Why Pixelgen chose open source
20:10 - Pixelator Python package
21:40 - Building within nf-core
23:01 - Florian - Biolizard
25:19 - Pipeline overview
26:50 - Using nf-core from a commercial setting
28:53 - Coming out of stealth
32:24 - Extending Pixelator
34:58 - Dealing with customers
39:38 - Looking to the future
41:32 - Interactive analysis
43:12 - Advice for others
45:16 - Pixelgen at the Nextflow Summit