Gene set analysis and annotation tools enable transcriptional network interpretation in spaceflight plant studies

This inference chain explains how the use of methods such as DESeq2 for differential expression, Cutadapt for NGS data processing, and PlantGSAD for plant gene set annotation enables robust interpretation of transcriptional network changes in plants subjected to spaceflight or microgravity. These analytical frameworks underpin the associations identified for gene set regulation under spaceflight, including upregulation of auxin, vesicle-mediated transport, and miRNAs.

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