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Constellab Contest Guidelines
The Constellab Contest isn't just a competition; it's a movement towards open source innovation and collective knowledge in the life sciences. Are you passionate about pushing the boundaries of knowle...
Single-cell RNA-Seq Analysis Pipeline
In 2023, Batignes et al. published an article intitled "Enhanced Inflammatory Signaling Driven by Metabolic Switch in Aicardi-Goutières Syndrome". Aicardi-Goutières syndrome (AGS) is a genetic ...
PyDESeq2 for differential expression analysis (DEA) with bulk RNA-seq data
PyDESeq2, a Python implementation of the DESeq2 method originally developed in R (click here) , is a versatile tool for conducting differential expressi...
Crafting Metabolic Models: A Guide for Robustness
To delve into the study of digital twins, one requires a meticulously crafted metabolic model to facilitate in-depth analysis. Unfortunately, the current state of metabolic models lacks uniformity and...
Perform knockout analysis
Simulation of gene knockout involves using computational techniques to predict the effects of inactivating genes within biological systems. By selectively deactivating specific genes, researchers can ...
How is it possible to add or remove reactions and metabolites within a metabolic model?
If you're looking to adjust reactions or metabolites within a metabolic network using Constellab, you are in the right place! The objective of this story is to outline various straightforward ta...
16s data analysis pipeline
In 2019, Pietrucci et al. published a study on gut microbiota dysbiosis in Parkinson's patients, analyzing 152 fecal samples from 80 patients and 72 healthy controls. The authors conducted 16S ...
How to merge two metabolic networks?
Introduction There are many methods for constructing genome-scale metabolic models, and many models
How to simulate digital twins of cellular metabolism from GEM models?
The purpose of this article is to present how to use digital twins of cellular metabolism in Constellab. We will see how to visualize a model in Constellab and how to predict cell growth. We start fro...
Diamond to EC-number annotator
In the dawn of a genomic revolution, where the blueprints of all known species are meticulously unraveling through comprehensive sequencing efforts, the demand for advanced tools becomes paramount. As...