Welcome to the project repository for the Transcriptional Atlas of Gastrointestinal (GI) Neurons During Inflammation. This repository contains the code, data, and analysis associated with our manuscript, which aims to create a comprehensive transcriptional atlas of GI neurons in response to inflammatory conditions.

You can view the project on our GitHub repository.

RNA-seq analysis

A transcriptional atlas of gut-innervating neurons reveals activation of the interferon and ferroptosis pathway during intestinal inflammation.

Data

• Raw Data: Contains raw RNA-seq count data used for the analyses.
• Processed Data: Includes normalized count data, making it easier for replication and further analysis.

Analysis

Each analysis report is available in HTML format and can be viewed below:

• DRG GO Term Enrichment Analysis
• ENS GO Term Enrichment Analysis
• SMG GO Term Enrichment Analysis
• VG GO Term Enrichment Analysis

Instructions to Reproduce

You can reproduce the analysis by downloading our GitHub repository and running the RMarkdown files located in the analysis folder.

Protein Network Analysis

In addition to the transcriptional analysis, we performed a comprehensive protein network analysis to explore the interactions and pathways involved in the inflammatory response of GI neurons. For more details and specific use cases, please refer to the AxoWIse github repo.

Contact

For additional information or inquiries, feel free to reach out via the GitHub issue tracker.

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