Boninsegna L - Search Results

1

Integrative approaches in genome structure analysis.

Boninsegna L, Yildirim A, Zhan Y, Alber F. Boninsegna L, et al. Structure. 2022 Jan 6;30(1):24-36. doi: 10.1016/j.str.2021.12.003. Epub 2021 Dec 27. Structure. 2022. PMID: 34963059 Free PMC article. Review.

2

Uncovering the Principles of Genome Folding by 3D Chromatin Modeling.

Yildirim A, Boninsegna L, Zhan Y, Alber F. Yildirim A, et al. Among authors: boninsegna l. Cold Spring Harb Perspect Biol. 2022 Jun 14;14(6):a039693. doi: 10.1101/cshperspect.a039693. Cold Spring Harb Perspect Biol. 2022. PMID: 34400556 Free PMC article. Review.

3

Integrative genome modeling platform reveals essentiality of rare contact events in 3D genome organizations.

Boninsegna L, Yildirim A, Polles G, Zhan Y, Quinodoz SA, Finn EH, Guttman M, Zhou XJ, Alber F. Boninsegna L, et al. Nat Methods. 2022 Aug;19(8):938-949. doi: 10.1038/s41592-022-01527-x. Epub 2022 Jul 11. Nat Methods. 2022. PMID: 35817938 Free PMC article.

4

Evaluating the role of the nuclear microenvironment in gene function by population-based modeling.

Yildirim A, Hua N, Boninsegna L, Zhan Y, Polles G, Gong K, Hao S, Li W, Zhou XJ, Alber F. Yildirim A, et al. Among authors: boninsegna l. Nat Struct Mol Biol. 2023 Aug;30(8):1193-1206. doi: 10.1038/s41594-023-01036-1. Epub 2023 Aug 14. Nat Struct Mol Biol. 2023. PMID: 37580627 Free PMC article.

5

Computational methods for analysing multiscale 3D genome organization.

Zhang Y, Boninsegna L, Yang M, Misteli T, Alber F, Ma J. Zhang Y, et al. Among authors: boninsegna l. Nat Rev Genet. 2024 Feb;25(2):123-141. doi: 10.1038/s41576-023-00638-1. Epub 2023 Sep 6. Nat Rev Genet. 2024. PMID: 37673975 Free PMC article. Review.

6

Spectral Properties of Effective Dynamics from Conditional Expectations.

Nüske F, Koltai P, Boninsegna L, Clementi C. Nüske F, et al. Among authors: boninsegna l. Entropy (Basel). 2021 Jan 21;23(2):134. doi: 10.3390/e23020134. Entropy (Basel). 2021. PMID: 33494443 Free PMC article.

7

Investigating Molecular Kinetics by Variationally Optimized Diffusion Maps.

Boninsegna L, Gobbo G, Noé F, Clementi C. Boninsegna L, et al. J Chem Theory Comput. 2015 Dec 8;11(12):5947-60. doi: 10.1021/acs.jctc.5b00749. Epub 2015 Nov 18. J Chem Theory Comput. 2015. PMID: 26580713

8

A Data-Driven Perspective on the Hierarchical Assembly of Molecular Structures.

Boninsegna L, Banisch R, Clementi C. Boninsegna L, et al. J Chem Theory Comput. 2018 Jan 9;14(1):453-460. doi: 10.1021/acs.jctc.7b00990. Epub 2017 Dec 22. J Chem Theory Comput. 2018. PMID: 29207235

9

Rapid Calculation of Molecular Kinetics Using Compressed Sensing.

Litzinger F, Boninsegna L, Wu H, Nüske F, Patel R, Baraniuk R, Noé F, Clementi C. Litzinger F, et al. Among authors: boninsegna l. J Chem Theory Comput. 2018 May 8;14(5):2771-2783. doi: 10.1021/acs.jctc.8b00089. Epub 2018 Apr 24. J Chem Theory Comput. 2018. PMID: 29660273

10

Sparse learning of stochastic dynamical equations.

Boninsegna L, Nüske F, Clementi C. Boninsegna L, et al. J Chem Phys. 2018 Jun 28;148(24):241723. doi: 10.1063/1.5018409. J Chem Phys. 2018. PMID: 29960307

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