SiPer

SiPer identifies and prioritizes chemical compounds that target specific transcription factors to enable cellular conversion and maturation in regenerative medicine.

Key Features:

• Single-cell-based analysis: SiPer uses single-cell data to inform identification and prioritization of compounds targeting transcription factors.
• Targeted identification of TF-targeting compounds: The platform focuses on identifying chemical compounds that specifically target desired sets of transcription factors involved in cellular conversion.
• Integration with chemical perturbation compendium: SiPer leverages a comprehensive compendium of chemical perturbations derived from non-cancer cells for robust predictions and prioritizations.
• Network model for chemical–TF interactions: The tool incorporates a network model that integrates known and predicted interactions between chemicals and transcription factors.
• Systematic compound prioritization: SiPer systematically ranks compounds most likely to influence desired transcription factors effectively.
• Application across diverse cell conversion contexts: The approach has been applied to multiple cell conversion examples demonstrating applicability across different biological contexts.

Scientific Applications:

• Regenerative medicine protocol development: SiPer streamlines development of cellular conversion protocols by identifying optimal chemical compounds that modulate transcription factors.
• Human hepatic maturation: SiPer was applied to develop a highly efficient protocol for human hepatic maturation.

Methodology:

SiPer integrates a compendium of large-scale chemical perturbation data from non-cancer cells with a predictive network model of known and predicted chemical–transcription factor interactions, using single-cell-derived targets to systematically prioritize compounds.