Author
M. Di Pierro
Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.
Biology Disciplines
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2017-2023 · peak 3/yrCo-Author Collaboration Network
10 top collaborators · 18 mutual co-author links8 papers
Recent·Most cited
An Associative Memory Hamiltonian Model for DNA and Nucleosomes
W. Lu, J. N. Onuchic, M. Di Pierro
This paper introduces a computational model called WEChroM to simulate DNA and nucleosome mechanics, showing it can reproduce DNA structure, supercoiling behavior, and nucleosome unwrapping.
bioRxiv · Oct 15, 2022Biophysics
Structural Reorganization and Relaxation Dynamics of Axially Stressed Chromosomes
B. S. Ruben, S. Brahmachari, V. G. Contessoto, R. R. Cheng, A. B. Oliveira Junior, M. Di Pierro, J. N. Onuchic
This study uses a coarse-grained polymer model to simulate mitotic chromosome mechanics, finding they are ten times stiffer than interphase chromosomes and exhibit viscoelastic behavior.
bioRxiv · Sep 3, 2022Biophysics
Shaping the Genome via Lengthwise Compaction, Phase Separation, and Lamina Adhesion
S. Brahmachari, V. Contessoto, M. Di Pierro, J. N. Onuchic
The paper develops a polymer model of the genome to explore how physical interactions shape genome architecture across species.
bioRxiv · Feb 28, 2022Biophysics
The interplay of chromatin phase separation and lamina interactions in nuclear organization
R. Laghmach, M. Di Pierro, D. A. Potoyan
This paper develops a field-theoretic model of the nucleus as a multi-phase chromatin condensate to explain dynamic chromatin organization and interactions observed in imaging experiments.
Biophysical Journal · Nov 1, 2021Peer-reviewedBiophysics
Evolutionary differences in the ACE2 reveals the molecular origins of COVID-19 susceptibility
R. R. Cheng, E. Dodero-Rojas, M. Di Pierro, J. N. Onuchic
The paper uses energy landscape theory to analyze ACE2 protein sequences across animals, identifying patterns that correlate with susceptibility to COVID-19.
bioRxiv · Mar 25, 2021 · PreprintBiophysics
Exploring Chromosomal Structural Heterogeneity AcrossMultiple Cell Lines
R. R. Cheng, V. Contessoto, E. L. Aiden, P. G. Wolynes, M. Di Pierro, J. N. Onuchic
The paper uses simulations and machine learning to predict chromosomal structures across cell lines, showing consistency with microscopy and revealing conformational transitions and compartment rearrangements.
bioRxiv · Mar 21, 2020Biophysics
De Novo Prediction of Human Chromosome Structures: Epigenetic Marking Patterns Encode Genome Architecture
M. Di Pierro, R. R. Cheng, E. Lieberman Aiden, P. G. Wolynes, J. N. Onuchic
The paper predicts human chromosome structures from epigenetic data, showing that chromatin architecture can be inferred through phase separation-like processes using ChIP-Seq and Hi-C data.
bioRxiv · Aug 7, 2017Biophysics