Stefano Gustincich

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Decryption of sequence, structure, and functional features of SINE repeat elements in SINEUP non-coding RNA-mediated post-transcriptional gene regulation | Nature Communications

Feb 21, 2024 | nature.com | Stefano Gustincich |Hazuki Takahashi

AbstractRNA structure folding largely influences RNA regulation by providing flexibility and functional diversity. In silico and in vitro analyses are limited in their ability to capture the intricate relationships between dynamic RNA structure and RNA functional diversity present in the cell.
The PENGUIN approach to reconstruct protein interactions at enhancer-promoter regions and its application to prostate cancer - Nature Communications

Dec 6, 2023 | nature.com | François Serra |Iker Núñez-Carpintero |Stefano Gustincich |Alfonso Valencia |Matthew Freedman |Claudia Giambartolomei

AbstractWe introduce Promoter-Enhancer-Guided Interaction Networks (PENGUIN), a method for studying protein-protein interaction (PPI) networks within enhancer-promoter interactions. PENGUIN integrates H3K27ac-HiChIP data with tissue-specific PPIs to define enhancer-promoter PPI networks (EPINs). We validated PENGUIN using cancer (LNCaP) and benign (LHSAR) prostate cell lines.

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