Lahiri A - Search Results

1

The oligonucleotides containing N7-regioisomer of guanosine. Influence on thermodynamic properties and structure of RNA duplexes.

Jarmolowicz A, Dutta N, Andralojc W, Sarzynska J, Framski G, Baranowski D, Boryski J, Lahiri A, Gdaniec Z, Kierzek E, Kierzek R. Jarmolowicz A, et al. Among authors: lahiri a. RNA. 2024 Oct 28:rna.080106.124. doi: 10.1261/rna.080106.124. Online ahead of print. RNA. 2024. PMID: 39467648 Free article.

2

Computational and NMR studies of RNA duplexes with an internal pseudouridine-adenosine base pair.

Deb I, Popenda Ł, Sarzyńska J, Małgowska M, Lahiri A, Gdaniec Z, Kierzek R. Deb I, et al. Among authors: lahiri a. Sci Rep. 2019 Nov 7;9(1):16278. doi: 10.1038/s41598-019-52637-0. Sci Rep. 2019. PMID: 31700156 Free PMC article.

3

Molecular Dynamics Simulation of the Conformational Preferences of Pseudouridine Derivatives: Improving the Distribution in the Glycosidic Torsion Space.

Dutta N, Sarzynska J, Lahiri A. Dutta N, et al. Among authors: lahiri a. J Chem Inf Model. 2020 Oct 26;60(10):4995-5002. doi: 10.1021/acs.jcim.0c00369. Epub 2020 Oct 8. J Chem Inf Model. 2020. PMID: 33030900

4

Predicting nearest neighbor free energies of modified RNA with LIE: results for pseudouridine and N1-methylpseudouridine within RNA duplexes.

Dutta N, Sarzynska J, Deb I, Lahiri A. Dutta N, et al. Among authors: lahiri a. Phys Chem Chem Phys. 2024 Jan 3;26(2):992-999. doi: 10.1039/d3cp02442c. Phys Chem Chem Phys. 2024. PMID: 38088148

5

Data-informed reparameterization of modified RNA and the effect of explicit water models: application to pseudouridine and derivatives.

Dutta N, Deb I, Sarzynska J, Lahiri A. Dutta N, et al. Among authors: lahiri a. J Comput Aided Mol Des. 2022 Mar;36(3):205-224. doi: 10.1007/s10822-022-00447-4. Epub 2022 Mar 26. J Comput Aided Mol Des. 2022. PMID: 35338419 Free PMC article.

6

Ensemble Allosteric Model for the Modified Wobble Hypothesis.

Sarkar AK, Sarzynska J, Lahiri A. Sarkar AK, et al. Among authors: lahiri a. J Phys Chem Lett. 2020 Aug 6;11(15):6337-6343. doi: 10.1021/acs.jpclett.0c00854. Epub 2020 Jul 23. J Phys Chem Lett. 2020. PMID: 32701298

7

Inosine and its methyl derivatives: Occurrence, biogenesis, and function in RNA.

Dutta N, Deb I, Sarzynska J, Lahiri A. Dutta N, et al. Among authors: lahiri a. Prog Biophys Mol Biol. 2022 Mar-May;169-170:21-52. doi: 10.1016/j.pbiomolbio.2022.01.001. Epub 2022 Jan 20. Prog Biophys Mol Biol. 2022. PMID: 35065168 Review.

8

LNA-induced dynamic stability in a therapeutic aptamer: insights from molecular dynamics simulations.

Pal R, Deb I, Sarzynska J, Lahiri A. Pal R, et al. Among authors: lahiri a. J Biomol Struct Dyn. 2023 Apr;41(6):2221-2230. doi: 10.1080/07391102.2022.2029567. Epub 2022 Feb 1. J Biomol Struct Dyn. 2023. PMID: 35100936

9

Rapid communication capturing the destabilizing effect of dihydrouridine through molecular simulations.

Deb I, Sarzynska J, Nilsson L, Lahiri A. Deb I, et al. Among authors: lahiri a. Biopolymers. 2014 Oct;101(10):985-91. doi: 10.1002/bip.22495. Biopolymers. 2014. PMID: 24729441

10

Reparameterizations of the χ Torsion and Lennard-Jones σ Parameters Improve the Conformational Characteristics of Modified Uridines.

Deb I, Pal R, Sarzynska J, Lahiri A. Deb I, et al. Among authors: lahiri a. J Comput Chem. 2016 Jun 30;37(17):1576-88. doi: 10.1002/jcc.24374. Epub 2016 Mar 30. J Comput Chem. 2016. PMID: 27030560

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