TransProPyBook - 18 Comparison of TransPropy with Other Tool Packages Using CircosBar

[giscus[bot]]

TransProPyBook - 18  Comparison of TransPropy with Other Tool Packages Using CircosBar

TransProPy is a Python package that is part of the TransPro series under the SuperOmics framework.

https://sssydysss.github.io/TransProPyBook/CircosBar%20core%20enrichment.html

[Bioinformatics-Engineer]

This chart looks great too. Could it be developed into visualization software?

[SSSYDYSSS]

OK

[Code-Xcelerate]

I just realized that my previous experimental analysis might have been correct after all. Initially, I conducted a gene knockout experiment, choosing a core gene. Based on prior knowledge, I expected that knocking out this gene would inevitably lead to a series of gene regulation imbalances, resulting in a lack of pathways enriched with negatively correlated genes. However, I found that the pathways that should have been suppressed did not appear before or after the experiment; instead, only activation pathways were enriched. I thought my experiment had failed, and without a publication, I couldn't apply for a Ph.D., so I had to start working.

Recently, I tried TransProPy out of a refusal to give up, and the results shocked me! It actually enriched the pathways I was targeting. After the gene knockout, due to the failure of regulation, the pathway indeed disappeared, fully supporting my initial hypothesis. I feel a sense of belated realization—if I had discovered a package like TransProPy earlier, my fate might have been completely different. I genuinely want to pursue a Ph.D. Sigh...

[SSSYDYSSS]

I'm sorry that the TransProPy project was only released this year. I also hope that this project can be published in a good journal so that more people can discover it and help others who have encountered similar issues as you did. Additionally, if you don't mind, we can connect as friends. If our specialties align, I can recommend you to the professors in our research group for potential collaboration.

[jljy47]

It's a complicated picture, how did you do it, it's so cool!