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Items: 15

1.

Sequence-dependent RNA helix conformational preferences predictably impact tertiary structure formation.

Yesselman JD, Denny SK, Bisaria N, Herschlag D, Greenleaf WJ, Das R.

Proc Natl Acad Sci U S A. 2019 Aug 2. pii: 201901530. doi: 10.1073/pnas.1901530116. [Epub ahead of print]

PMID:
31375637
2.

RNA Circularization Diminishes Immunogenicity and Can Extend Translation Duration In Vivo.

Wesselhoeft RA, Kowalski PS, Parker-Hale FC, Huang Y, Bisaria N, Anderson DG.

Mol Cell. 2019 May 2;74(3):508-520.e4. doi: 10.1016/j.molcel.2019.02.015. Epub 2019 Mar 19.

PMID:
30902547
3.

The Story of RNA Folding, as Told in Epochs.

Herschlag D, Bonilla S, Bisaria N.

Cold Spring Harb Perspect Biol. 2018 Oct 1;10(10). pii: a032433. doi: 10.1101/cshperspect.a032433. Review.

PMID:
30275276
4.

High-Throughput Investigation of Diverse Junction Elements in RNA Tertiary Folding.

Denny SK, Bisaria N, Yesselman JD, Das R, Herschlag D, Greenleaf WJ.

Cell. 2018 Jul 12;174(2):377-390.e20. doi: 10.1016/j.cell.2018.05.038. Epub 2018 Jun 28.

5.

Hidden Structural Modules in a Cooperative RNA Folding Transition.

Gracia B, Al-Hashimi HM, Bisaria N, Das R, Herschlag D, Russell R.

Cell Rep. 2018 Mar 20;22(12):3240-3250. doi: 10.1016/j.celrep.2018.02.101.

6.

Single-Molecule Fluorescence Reveals Commonalities and Distinctions among Natural and in Vitro-Selected RNA Tertiary Motifs in a Multistep Folding Pathway.

Bonilla S, Limouse C, Bisaria N, Gebala M, Mabuchi H, Herschlag D.

J Am Chem Soc. 2017 Dec 27;139(51):18576-18589. doi: 10.1021/jacs.7b08870. Epub 2017 Dec 15.

7.

Quantitative tests of a reconstitution model for RNA folding thermodynamics and kinetics.

Bisaria N, Greenfeld M, Limouse C, Mabuchi H, Herschlag D.

Proc Natl Acad Sci U S A. 2017 Sep 12;114(37):E7688-E7696. doi: 10.1073/pnas.1703507114. Epub 2017 Aug 24.

8.

Lessons from Enzyme Kinetics Reveal Specificity Principles for RNA-Guided Nucleases in RNA Interference and CRISPR-Based Genome Editing.

Bisaria N, Jarmoskaite I, Herschlag D.

Cell Syst. 2017 Jan 25;4(1):21-29. doi: 10.1016/j.cels.2016.12.010. Review.

9.

Kinetic and thermodynamic framework for P4-P6 RNA reveals tertiary motif modularity and modulation of the folding preferred pathway.

Bisaria N, Greenfeld M, Limouse C, Pavlichin DS, Mabuchi H, Herschlag D.

Proc Natl Acad Sci U S A. 2016 Aug 23;113(34):E4956-65. doi: 10.1073/pnas.1525082113. Epub 2016 Aug 4.

10.

Does Cation Size Affect Occupancy and Electrostatic Screening of the Nucleic Acid Ion Atmosphere?

Gebala M, Bonilla S, Bisaria N, Herschlag D.

J Am Chem Soc. 2016 Aug 31;138(34):10925-34. doi: 10.1021/jacs.6b04289. Epub 2016 Aug 22.

11.

RNA Structural Modules Control the Rate and Pathway of RNA Folding and Assembly.

Gracia B, Xue Y, Bisaria N, Herschlag D, Al-Hashimi HM, Russell R.

J Mol Biol. 2016 Oct 9;428(20):3972-3985. doi: 10.1016/j.jmb.2016.07.013. Epub 2016 Jul 22.

12.

Cation-Anion Interactions within the Nucleic Acid Ion Atmosphere Revealed by Ion Counting.

Gebala M, Giambaşu GM, Lipfert J, Bisaria N, Bonilla S, Li G, York DM, Herschlag D.

J Am Chem Soc. 2015 Nov 25;137(46):14705-15. doi: 10.1021/jacs.5b08395. Epub 2015 Nov 12.

13.
14.

Roles of long-range tertiary interactions in limiting dynamics of the Tetrahymena group I ribozyme.

Shi X, Bisaria N, Benz-Moy TL, Bonilla S, Pavlichin DS, Herschlag D.

J Am Chem Soc. 2014 May 7;136(18):6643-8. doi: 10.1021/ja413033d. Epub 2014 Apr 28.

15.

A new system for comparative functional genomics of Saccharomyces yeasts.

Caudy AA, Guan Y, Jia Y, Hansen C, DeSevo C, Hayes AP, Agee J, Alvarez-Dominguez JR, Arellano H, Barrett D, Bauerle C, Bisaria N, Bradley PH, Breunig JS, Bush E, Cappel D, Capra E, Chen W, Clore J, Combs PA, Doucette C, Demuren O, Fellowes P, Freeman S, Frenkel E, Gadala-Maria D, Gawande R, Glass D, Grossberg S, Gupta A, Hammonds-Odie L, Hoisos A, Hsi J, Hsu YH, Inukai S, Karczewski KJ, Ke X, Kojima M, Leachman S, Lieber D, Liebowitz A, Liu J, Liu Y, Martin T, Mena J, Mendoza R, Myhrvold C, Millian C, Pfau S, Raj S, Rich M, Rokicki J, Rounds W, Salazar M, Salesi M, Sharma R, Silverman S, Singer C, Sinha S, Staller M, Stern P, Tang H, Weeks S, Weidmann M, Wolf A, Young C, Yuan J, Crutchfield C, McClean M, Murphy CT, Llinás M, Botstein D, Troyanskaya OG, Dunham MJ.

Genetics. 2013 Sep;195(1):275-87. doi: 10.1534/genetics.113.152918. Epub 2013 Jul 12.

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