Description

Workshop of the 2nd edition the Single Cell Conference of Nantes:

“Deciphering single cell interactions in health and disease”.

The workshop will take place on the afternoon of October 8, 2025 -14h-17h.

 

 

A hands-on training in Bioinformatics « Analysis of Single Cell data: introduction to spatial data analysis » is proposed on the afternoon of the second day.

This workshop aims to give researchers a clear view of the process to analyse spatial omics.

The course will cover essential topics to plan and prepare a workflow for spatial data, including pre-processing techniques and quality control. By analysing toy datasets, participants will be equipped with the knowledge and skills to plan and prepare a workflow to analyse spatial data.

Only 20 participants with a clear objective to analyse spatial data will be selected.

A participation fee of 50€ is aked for the workshop (in addition to the conference registration).

 

Deadline for registration: September 19, 2025

 
      
 The venue will be confirmed soon, likely in the Bias building of the Nantes University (Nantes city center).

 

 

Program

Part 1: Data generation and quality checks with examples datasets

- Overview of available technologies

- Understanding data generation and possible artefacts

- Quality controls & segmentation



Part 2: Analyses of datasets in spatial proteomics and transcriptomics

- Presentation of the example dataset

- Quick scRNAseq-like and multiplex proteomics pipelines on the spatial dataset

- Neighbourhood and spatial analysis of defined cell populations
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