DiffHiChIP identifies differential chromatin contacts from HiChIP data by addressing limitations in existing methods through improved statistical modeling and distance correction.

Cell Reports Methods · Nov 1, 2025Peer-reviewedBioinformatics

Vitamin D constrains inflammation by modulating the expression of key genes on Chr17q12-21.1

Ayşe Kılıç, Arda Halu, Margherita De Marzio, Enrico Maiorino, Melody G. Duvall, Thayse Brueggemann, Joselyn Rojas, Robert Chase, Hooman Mirzakhani, Ayse Özge Sungur, Janine Koepke, Taiji Nakano, Hong Yong Peh, Nandini Krishnamoorthy, Raja-Elie Edward Abdulnour, , Scott T. Weiss

The paper shows vitamin D regulates two chromosomal loci linked to autoimmune and inflammatory diseases by modulating gene expression and immune pathways.

bioRxiv · May 22, 2022 · PreprintSystems Biology

Hypomorphic mutation of the mouse Huntingtons disease gene orthologue

Vidya Murthy, Toma Tebaldi, Toshimi Yoshida, Serkan Erdin, Teresa Calzonetti, Ravi Vijayvargia, Takshashila Tripathi, Emanuela Kerschbamer, Ihn Sik Seong, Alessandro Quattrone, Michael E. Talkowski, James F. Gusella, Katia Georgopoulos, Marcy E. MacDonald, Marta Biagioli

This study investigates the developmental effects of hypomorphic mutations in the mouse HD gene orthologue, revealing varying degrees of lethality and developmental abnormalities depending on mutation severity.

PLoS Genetics · Mar 21, 2019Peer-reviewedGenetics