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Search life-sciences literature (45,100,050 articles, preprints and more)

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Nucleosome condensate and linker DNA alter chromatin folding pathways and rates
Qiu Y, Liu S, Lin X, Unarta IC, Huang X, Zhang B
bioRxiv, 16 Nov 2024
Cited by: 0 articles | PPR: PPR940988
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Multiscale Computational Framework for the Liquid-Liquid Phase Separation of Intrinsically Disordered Proteins.
Fernando KS, Jahanmir G, Unarta IC, Chau Y
Langmuir, 40(14):7607-7619, 28 Mar 2024
Cited by: 0 articles | PMID: 38546977
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Submillisecond Atomistic Molecular Dynamics Simulations Reveal Hydrogen Bond-Driven Diffusion of a Guest Peptide in Protein-RNA Condensate.
Unarta IC, Cao S, Goonetilleke EC, Niu J, Gellman SH, Huang X
J Phys Chem B, 128(10):2347-2359, 28 Feb 2024
Cited by: 0 articles | PMID: 38416758
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Ultrahigh-Throughput Directed Evolution of Polymer-Degrading Enzymes Using Yeast Display.
Cribari MA, Unger MJ, Unarta IC, Ogorek AN, Huang X, Martell JD
J Am Chem Soc, 145(50):27380-27389, 05 Dec 2023
Cited by: 4 articles | PMID: 38051911
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Nucleotide addition and cleavage by RNA polymerase II: Coordination of two catalytic reactions using a single active site.
Unarta IC, Goonetilleke EC, Wang D, Huang X
J Biol Chem, 299(2):102844, 26 Dec 2022
Cited by: 7 articles | PMID: 36581202 | PMCID: PMC9860460
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The Ion-Dipole Correction of the 3DRISM Solvation Model to Accurately Compute Water Distributions around Negatively Charged Biomolecules.
Cao S, Qiu Y, Unarta IC, Goonetilleke EC, Huang X
J Phys Chem B, 126(43):8632-8645, 25 Oct 2022
Cited by: 1 article | PMID: 36282904
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In Silico Modeling and Scoring of PROTAC-Mediated Ternary Complex Poses.
Liao J, Nie X, Unarta IC, Ericksen SS, Tang W
J Med Chem, 65(8):6116-6132, 12 Apr 2022
Cited by: 14 articles | PMID: 35412837
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RPnet: a reverse-projection-based neural network for coarse-graining metastable conformational states for protein dynamics.
Gu H, Wang W, Cao S, Unarta IC, Yao Y, Sheong FK, Huang X
Phys Chem Chem Phys, 24(3):1462-1474, 19 Jan 2022
Cited by: 5 articles | PMID: 34985469
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Critical role of backbone coordination in the mRNA recognition by RNA induced silencing complex.
Zhu L, Jiang H, Cao S, Unarta IC, Gao X, Huang X
Commun Biol, 4(1):1345, 30 Nov 2021
Cited by: 5 articles | PMID: 34848812 | PMCID: PMC8632932
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Incorporation efficiency and inhibition mechanism of 2'-substituted nucleotide analogs against SARS-CoV-2 RNA-dependent RNA polymerase.
Yuan C, Goonetilleke EC, Unarta IC, Huang X
Phys Chem Chem Phys, 23(36):20117-20128, 22 Sep 2021
Cited by: 7 articles | PMID: 34514487
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RPnet: A Reverse Projection Based Neural Network for Coarse-graining Metastable Conformational States for Protein Dynamics
Gu H, Wang W, Cao S, Unarta IC, Yao Y, Sheong FK, Huang X
bioRxiv, 06 Aug 2021
Cited by: 0 articles | PPR: PPR379520
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Markov State Models to Study the Functional Dynamics of Proteins in the Wake of Machine Learning.
Konovalov KA, Unarta IC, Cao S, Goonetilleke EC, Huang X
JACS Au, 1(9):1330-1341, 04 Aug 2021
Cited by: 28 articles | PMID: 34604842 | PMCID: PMC8479766
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An Efficient Method to Quantify Structural Distributions in Heterogeneous cryo-EM Datasets
Gu H, Wang W, Unarta IC, Zeng W, Sheong FK, Cheung PP, Liu S, Yao Y, Huang X
bioRxiv, 28 May 2021
Cited by: 0 articles | PPR: PPR349132
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Entropy of stapled peptide inhibitors in free state is the major contributor to the improvement of binding affinity with the GK domain.
Unarta IC, Xu J, Shang Y, Cheung CHP, Zhu R, Chen X, Cao S, Cheung PP, Bierer D, Zhang M, Huang X, Li X
RSC Chem Biol, 2(4):1274-1284, 25 Jun 2021
Cited by: 4 articles | PMID: 34458841 | PMCID: PMC8341669
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Transcriptional processing of an unnatural base pair by eukaryotic RNA polymerase II.
Oh J, Shin J, Unarta IC, Wang W, Feldman AW, Karadeema RJ, Xu L, Xu J, Chong J, Krishnamurthy R, Huang X, Romesberg FE, Wang D
Nat Chem Biol, 17(8):906-914, 17 Jun 2021
Cited by: 10 articles | PMID: 34140682 | PMCID: PMC8319059
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Role of bacterial RNA polymerase gate opening dynamics in DNA loading and antibiotics inhibition elucidated by quasi-Markov State Model.
Unarta IC, Cao S, Kubo S, Wang W, Cheung PP, Gao X, Takada S, Huang X
Proc Natl Acad Sci U S A, 118(17):e2024324118, 01 Apr 2021
Cited by: 18 articles | PMID: 33883282 | PMCID: PMC8092612
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EmPC-seq: Accurate RNA-sequencing and Bioinformatics Platform to Map RNA Polymerases and Remove Background Error.
Wang Y, Chong TH, Unarta IC, Xu X, Suarez GD, Wang J, Lis JT, Huang X, Cheung PP
Bio Protoc, 11(4):e3921, 20 Feb 2021
Cited by: 0 articles | PMID: 33732808 | PMCID: PMC7952946
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Elucidating molecular mechanisms of functional conformational changes of proteins via Markov state models.
Wang X, Unarta IC, Cheung PP, Huang X
Curr Opin Struct Biol, 67:69-77, 27 Oct 2020
Cited by: 9 articles | PMID: 33126140
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Identifying Transcription Error-Enriched Genomic Loci Using Nuclear Run-on Circular-Sequencing Coupled with Background Error Modeling.
Cheung PP, Jiang B, Booth GT, Chong TH, Unarta IC, Wang Y, Suarez GD, Wang J, Lis JT, Huang X
J Mol Biol, 432(13):3933-3949, 20 Apr 2020
Cited by: 1 article | PMID: 32325070
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TAPS: A traveling-salesman based automated path searching method for functional conformational changes of biological macromolecules.
Zhu L, Sheong FK, Cao S, Liu S, Unarta IC, Huang X
J Chem Phys, 150(12):124105, 01 Mar 2019
Cited by: 9 articles | PMID: 30927873
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Structural dissection of an interaction between transcription initiation and termination factors implicated in promoter-terminator cross-talk.
Bratkowski M, Unarta IC, Zhu L, Shubbar M, Huang X, Liu X
J Biol Chem, 293(5):1651-1665, 20 Nov 2017
Cited by: 11 articles | PMID: 29158257 | PMCID: PMC5798296
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Mechanism of DNA alkylation-induced transcriptional stalling, lesion bypass, and mutagenesis.
Xu L, Wang W, Wu J, Shin JH, Wang P, Unarta IC, Chong J, Wang Y, Wang D
Proc Natl Acad Sci U S A, 114(34):E7082-E7091, 07 Aug 2017
Cited by: 25 articles | PMID: 28784758 | PMCID: PMC5576830
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Molecular mechanisms of RNA polymerase II transcription elongation elucidated by kinetic network models.
Unarta IC, Zhu L, Tse CKM, Cheung PP, Yu J, Huang X
Curr Opin Struct Biol, 49:54-62, 03 Feb 2018
Cited by: 18 articles | PMID: 29414512
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Ca²⁺-Induced Rigidity Change of the Myosin VIIa IQ Motif-Single α Helix Lever Arm Extension.
Li J, Li J, Chen Y, Deng Y, Unarta IC, Lu Q, Huang X, Zhang M
Structure, 25(4):579-591.e4, 02 Mar 2017
Cited by: 14 articles | PMID: 28262393
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Elucidation of the Dynamics of Transcription Elongation by RNA Polymerase II using Kinetic Network Models.
Zhang L, Pardo-Avila F, Unarta IC, Cheung PP, Wang G, Wang D, Huang X
Acc Chem Res, 49(4):687-694, 18 Mar 2016
Cited by: 25 articles | PMID: 26991064 | PMCID: PMC5119457
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