Reconstructing gene regulatory networks is a common method in the field of bioinformatics for uncovering the transcriptional regulation driving patterns of disease. In these networks, the relationship between transcription factor and target genes is commonly measured. However, these tools are commonly not user-friendly, requiring a fair amount of prior programming experience to be able to reconstruct the networks and perform the downstream network. Therefore, we have developed a new tool called SiSaNA (Single-Sample Network Analysis) that allows users to reconstruct and analyze single-sample gene regulatory networks all via the command line, eliminating the need for prior programming experience. SiSaNA seamlessly integrates into the NetZoo ecosystem, utilizing the PANDA and LIONESS algorithms from NetZooPy, but providing a more user-friendly experience for reconstructing, comparing and interpreting single-sample regulatory networks, all via the command line. SiSaNA requires little to no programming proficiency other than basic familiarity with the command line, while providing high-quality figures as output.

Co-authors: Tatiana Belova, Mariike Kuijjer