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Darko Barisic on Muck Rack

Darko Barisic

As seen in: Nature, BioRxiv, Cell Press, Texas Medical Center
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Articles

ARID1A Orchestrates Swi/Snf-Mediated Sequential Binding of Transcription Factors With ARID1A Loss Driving Pre-Memory B Cell Fate and Lymphomagenesis

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By Darko Barisic
| Texas Medical Center
Abstract ARID1A, a subunit of the canonical BAF nucleosome remodeling complex, is commonly mutated in lymphomas. We show that ARID1A orchestrates B cell fate during the germinal center (GC) response, facilitating cooperative and sequential binding of PU.1 and NF-kB at crucial genes for cytokine and CD40 signaling.
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Deep dynamical models of single-cell multiomic velocities predict loss-of-function and rescue perturbations in B cells

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By Alireza Karbalayghareh, Darko Barisic, Christopher R Chin, Ari M Melnick
| BioRxiv
Abstract We present DynaVelo, a generative neural ordinary differential equation (ODE) model that learns the joint dynamics of gene expression and transcription factor (TF) motif activities in evolving cell systems using single-cell multiome data. DynaVelo leverages partial RNA velocity information together with single-cell TF motif accessibility data to improve the modeling of cell state dynamics and identification of TF drivers.
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Author Correction: ChromaFold predicts the 3D contact map from single-cell chromatin accessibility - Nature Communications

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By Rui Yang, Renhe Luo, Martin Rivas, Martín A. Rivas, Darko Barisic, Alireza Karbalayghareh, Wilfred Wong, Yingqian A Zhan, Christopher R Chin, William Noble, Effie Apostolou, Michael G. Kharas, Wendy Béguelin, Aaron D. Viny, Danwei Huangfu, Alexander Y. Rudensky, Ari M Melnick
| Nature Verified
Correction to: Nature Communications https://doi.org/10.1038/s41467-024-53628-0, published online 01 November 2024 In this article the affiliation ‘Department of Biochemistry & Molecular Biology; Sylvester Comprehensive Cancer Center, University of Miami Miller School of Medicine, Miami, FL, USA’ for Martin A. Rivas was missing. The original article has been corrected.
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