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Michele Di Pierro
Michele Di Pierro
Northeastern University, NSF Center For Theoretical Biological Physics
Verified email at northeastern.edu - Homepage
Title
Cited by
Cited by
Year
The energetics and physiological impact of cohesin extrusion
L Vian, A Pękowska, SSP Rao, KR Kieffer-Kwon, S Jung, L Baranello, ...
Cell 173 (5), 1165-1178. e20, 2018
5142018
Transferable model for chromosome architecture
M Di Pierro, B Zhang, EL Aiden, PG Wolynes, JN Onuchic
Proceedings of the National Academy of Sciences 113 (43), 12168-12173, 2016
2972016
Walking along chromosomes with super-resolution imaging, contact maps, and integrative modeling
G Nir, I Farabella, C Pérez Estrada, CG Ebeling, BJ Beliveau, HM Sasaki, ...
PLoS genetics 14 (12), e1007872, 2018
2322018
De novo prediction of human chromosome structures: Epigenetic marking patterns encode genome architecture
M Di Pierro, RR Cheng, E Lieberman Aiden, PG Wolynes, JN Onuchic
Proceedings of the National Academy of Sciences 114 (46), 12126-12131, 2017
2112017
3D genomics across the tree of life reveals condensin II as a determinant of architecture type
C Hoencamp, O Dudchenko, AMO Elbatsh, S Brahmachari, ...
Science 372 (6545), 984-989, 2021
1432021
Anomalous diffusion, spatial coherence, and viscoelasticity from the energy landscape of human chromosomes
M Di Pierro, DA Potoyan, PG Wolynes, JN Onuchic
Proceedings of the National Academy of Sciences 115 (30), 7753-7758, 2018
1362018
A stochastic algorithm for the isobaric–isothermal ensemble with Ewald summations for all long range forces
M Di Pierro, R Elber, B Leimkuhler
Journal of chemical theory and computation 11 (12), 5624-5637, 2015
1332015
Automated optimization of potential parameters
M Di Pierro, R Elber
Journal of chemical theory and computation 9 (8), 3311-3320, 2013
422013
Exploring chromosomal structural heterogeneity across multiple cell lines
RR Cheng, VG Contessoto, E Lieberman Aiden, PG Wolynes, M Di Pierro, ...
Elife 9, e60312, 2020
412020
The interplay of chromatin phase separation and lamina interactions in nuclear organization
R Laghmach, M Di Pierro, DA Potoyan
Biophysical Journal 120 (22), 5005-5017, 2021
312021
Shaping the genome via lengthwise compaction, phase separation, and lamina adhesion
S Brahmachari, VG Contessoto, M Di Pierro, JN Onuchic
Nucleic Acids Research 50 (8), 4258-4271, 2022
262022
Mesoscale liquid model of chromatin recapitulates nuclear order of eukaryotes
R Laghmach, M Di Pierro, DA Potoyan
Biophysical journal 118 (9), 2130-2140, 2020
262020
Optimizing Potentials for a Liquid Mixture: A New Force Field for a tert-Butanol and Water Solution
M Di Pierro, ML Mugnai, R Elber
The Journal of Physical Chemistry B 119 (3), 836-849, 2015
262015
Chromatin alternates between A and B compartments at kilobase scale for subgenic organization
HL Harris, H Gu, M Olshansky, A Wang, I Farabella, Y Eliaz, A Kalluchi, ...
Nature communications 14 (1), 3303, 2023
252023
The Nucleome Data Bank: web-based resources to simulate and analyze the three-dimensional genome
VG Contessoto, RR Cheng, A Hajitaheri, E Dodero-Rojas, MF Mello, ...
Nucleic Acids Research 49 (D1), D172-D182, 2021
242021
Deciphering the structure of the condensin protein complex
D Krepel, RR Cheng, M Di Pierro, JN Onuchic
Proceedings of the National Academy of Sciences 115 (47), 11911-11916, 2018
142018
A liquid state perspective on dynamics of chromatin compartments
R Laghmach, M Di Pierro, D Potoyan
Frontiers in Molecular Biosciences 8, 781981, 2022
112022
Interphase chromosomes of the Aedes aegypti mosquito are liquid crystalline and can sense mechanical cues
VG Contessoto, O Dudchenko, E Aiden, PG Wolynes, JN Onuchic, ...
Nature Communications 14 (326), https://doi.org/10.1038/s41467-023-35909, 2023
102023
Inner workings of gene folding
M Di Pierro
Proceedings of the National Academy of Sciences 116 (11), 4774-4775, 2019
102019
Fast simulation of polymer chains
C Hartmann, C Schütte, G Kalibaeva, M Di Pierro, G Ciccotti
The Journal of chemical physics 130 (14), 2009
52009
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