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Lorenzo Boninsegna
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Sparse learning of stochastic dynamical equations
L Boninsegna, F Nüske, C Clementi
The Journal of chemical physics 148 (24), 2018
2452018
Investigating molecular kinetics by variationally optimized diffusion maps
L Boninsegna, G Gobbo, F Noé, C Clementi
Journal of chemical theory and computation 11 (12), 5947-5960, 2015
722015
Coarse-graining molecular systems by spectral matching
F Nüske, L Boninsegna, C Clementi
The Journal of chemical physics 151 (4), 2019
312019
A data-driven perspective on the hierarchical assembly of molecular structures
L Boninsegna, R Banisch, C Clementi
Journal of Chemical Theory and Computation 14 (1), 453-460, 2018
292018
Rapid calculation of molecular kinetics using compressed sensing
F Litzinger, L Boninsegna, H Wu, F Nüske, R Patel, R Baraniuk, F Noé, ...
Journal of Chemical Theory and Computation 14 (5), 2771-2783, 2018
282018
Integrative genome modeling platform reveals essentiality of rare contact events in 3D genome organizations
L Boninsegna, A Yildirim, G Polles, Y Zhan, SA Quinodoz, EH Finn, ...
Nature methods 19 (8), 938-949, 2022
242022
Spectral properties of effective dynamics from conditional expectations
F Nüske, P Koltai, L Boninsegna, C Clementi
Entropy 23 (2), 134, 2021
142021
Computational methods for analysing multiscale 3D genome organization
Y Zhang, L Boninsegna, M Yang, T Misteli, F Alber, J Ma
Nature Reviews Genetics 25 (2), 123-141, 2024
122024
Uncovering the principles of genome folding by 3D chromatin modeling
A Yildirim, L Boninsegna, Y Zhan, F Alber
Cold Spring Harbor Perspectives in Biology 14 (6), a039693, 2022
112022
Integrative approaches in genome structure analysis
L Boninsegna, A Yildirim, Y Zhan, F Alber
Structure 30 (1), 24-36, 2022
92022
Quantum charge transport and conformational dynamics of macromolecules
L Boninsegna, P Faccioli
The Journal of Chemical Physics 136 (21), 2012
82012
Conformational analysis of chromosome structures reveals vital role of chromosome morphology in gene function
Y Zhan, A Yildirim, L Boninsegna, F Alber
bioRxiv, 2023.02. 18.528138, 2023
42023
Population-based structure modeling reveals key roles of nuclear microenviroment in gene functions
A Yildirim, N Hua, L Boninsegna, G Polles, K Gong, S Hao, W Li, XJ Zhou, ...
42021
Mapping the nuclear microenvironment of genes at a genome-wide scale
A Yildirim, N Hua, L Boninsegna, G Polles, K Gong, S Hao, W Li, XJ Zhou, ...
BioRxiv, 2021.07. 11.451976, 2021
42021
Evaluating the role of the nuclear microenvironment in gene function by population-based modeling
A Yildirim, N Hua, L Boninsegna, Y Zhan, G Polles, K Gong, S Hao, W Li, ...
Nature Structural & Molecular Biology 30 (8), 1193-1206, 2023
22023
Reconstructing whole genome structures using a multi-modal data integration approach
L Boninsegna, F Alber
NATURE METHODS 19 (8), 934-935, 2022
2022
Research briefing
L Boninsegna, F Alber
2022
Deep Spectral Coarse Graining: Learning Simple, Dynamically Consistent Protein Models
N Charron, F Nüske, J Wang, L Boninsegna, A Patel, C Clementi
Bulletin of the American Physical Society 65, 2020
2020
A Data-Driven Perspective on Molecular Coarse-Graining
L Boninsegna
Rice University, 2019
2019
Supplementary Information: Integrative Genome Modeling Platform reveals essentiality of
L Boninsegna, A Yildirim, G Polles, SA Quinodoz, E Finn, M Guttman, ...
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