My Bibliography

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Tokodai Y, Matyas M, Ishigamori A, O"Connor E, Zhang A, Yamazaki S, Tsunehide Y, Lohar N, Yao L, Stoner R, Paez-Beltran LE, Kanamitsu K, Nakaya N, Ichikawa S, Brumbaugh J, Kasinath V, Yakushiji F. Structure-guided design and development of cyclic peptide allosteric activators of Polycomb Repressive Complex 2. bioRxiv : the preprint server for biology. 2025 June. doi: 10.1101/2025.06.26.661818.

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Song J, Yao L, Gooding A, Thron V, Kasinath V, Cech T. Diverse RNA Structures Induce PRC2 Dimerization and Inhibit Histone Methyltransferase Activity. [preprint]. 2024 August. doi: 10.1101/2024.08.29.610323.

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Cookis T, Lydecker A, Sauer P, Kasinath V, Nogales E. Structural basis for the inhibition of PRC2 by active transcription histone posttranslational modifications. bioRxiv. 2024 Feb 10;. doi: 10.1101/2024.02.09.579730. PubMed PMID: 38370759; PubMed Central PMCID: PMC10871338.

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Cookis T, Lydecker A, Sauer P, Kasinath V, Nogales E. Structural basis for the inhibition of PRC2 by active transcription histone posttranslational modifications. [preprint]. 2024 February. doi: 10.1101/2024.02.09.579730.

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Song J, Gooding AR, Hemphill WO, Love BD, Robertson A, Yao L, Zon LI, North TE, Kasinath V, Cech TR. Structural basis for inactivation of PRC2 by G-quadruplex RNA. Science. 2023 Sep 22;381(6664):1331-1337. doi: 10.1126/science.adh0059. Epub 2023 Sep 21. PubMed PMID: 37733873; PubMed Central PMCID: PMC11191771.

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Song J, Gooding A, Hemphill W, Love B, Robertson A, Yao L, Zon L, North T, Kasinath V, Cech T. Structural basis for inactivation of PRC2 by G-quadruplex RNA. Science. 2023 September; 381(6664):1331-1337. doi: 10.1126/science.adh0059.

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Jansson-Fritzberg LI, Sousa CI, Smallegan MJ, Song JJ, Gooding AR, Kasinath V, Rinn JL, Cech TR. DNMT1 inhibition by pUG-fold quadruplex RNA. RNA. 2023 Mar;29(3):346-360. doi: 10.1261/rna.079479.122. Epub 2022 Dec 27. PubMed PMID: 36574982; PubMed Central PMCID: PMC9945446.

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Jansson-Fritzberg L, Sousa C, Smallegan M, Song J, Gooding A, Kasinath V, Rinn J, Cech T. DNMT1 inhibition by pUG-fold quadruplex RNA. RNA. 2023 March; 29(3):346-360. doi: 10.1261/rna.079479.122.

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Song J, Gooding AR, Hemphill WO, Kasinath V, Cech TR. Structural basis for inactivation of PRC2 by G-quadruplex RNA. bioRxiv. 2023 Feb 6;. doi: 10.1101/2023.02.06.527314. PubMed PMID: 36798278; PubMed Central PMCID: PMC9934548.

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Jansson-Fritzberg L, Sousa C, Smallegan M, Song J, Gooding A, Kasinath V, Rinn J, Cech T. DNMT1 inhibition by pUG-fold quadruplex RNA. [preprint]. 2022 October. doi: 10.1101/2022.10.14.512272.

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Gupta N, Roberts EJ, Song P, Xu S, Hess HF, Wu F, Jorgens D, Dernburg A, Zwart PH, Kasinath V. Deep learning-based identification of sub-nuclear structures in FIB-SEM images. [preprint]. 2022 July. Available from: https://arxiv.org/abs/2207.09598. doi: https://doi.org/10.48550/arXiv.2207.09598.

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Iragavarapu AG, Yao L, Kasinath V. Structural insights into the interactions of Polycomb Repressive Complex 2 with chromatin. Biochem Soc Trans. 2021 Dec 17;49(6):2639-2653. doi: 10.1042/BST20210450. Review. PubMed PMID: 34747969; PubMed Central PMCID: PMC10284349.

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Iragavarapu A, Yao L, Kasinath V. Structural insights into the interactions of Polycomb Repressive Complex 2 with chromatin. Biochemical Society Transactions. 2021 December; 49(6):2639-2653. doi: 10.1042/BST20210450.

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Kasinath V, Beck C, Sauer P, Poepsel S, Kosmatka J, Faini M, Toso D, Aebersold R, Nogales E. JARID2 and AEBP2 regulate PRC2 in the presence of H2AK119ub1 and other histone modifications. Science. 2021 Jan 22;371(6527). doi: 10.1126/science.abc3393. PubMed PMID: 33479123; PubMed Central PMCID: PMC7993630.

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Kasinath V, Beck C, Sauer P, Poepsel S, Kosmatka J, Faini M, Toso D, Aebersold R, Nogales E. JARID2 and AEBP2 regulate PRC2 in the presence of H2AK119ub1 and other histone modifications. Science. 2021 January; 371(6527):-. doi: 10.1126/science.abc3393.

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Kasinath V, Beck C, Sauer P, Poepsel S, Kosmatka J, Faini M, Toso D, Aebersold R, Nogales E. JARID2 and AEBP2 regulate PRC2 activity in the presence of H2A ubiquitination or other histone modifications. [preprint]. 2020 April. doi: 10.1101/2020.04.20.049213.

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Kasinath V, Poepsel S, Nogales E. Recent Structural Insights into Polycomb Repressive Complex 2 Regulation and Substrate Binding. Biochemistry. 2019 Feb 5;58(5):346-354. doi: 10.1021/acs.biochem.8b01064. Epub 2018 Dec 3. PubMed PMID: 30451485; PubMed Central PMCID: PMC6438374.

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Kasinath V, Faini M, Poepsel S, Reif D, Feng XA, Stjepanovic G, Aebersold R, Nogales E. Structures of human PRC2 with its cofactors AEBP2 and JARID2. Science. 2018 Feb 23;359(6378):940-944. doi: 10.1126/science.aar5700. Epub 2018 Jan 18. PubMed PMID: 29348366; PubMed Central PMCID: PMC5840869.

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Kasinath V, Faini M, Poepsel S, Reif D, Feng X, Stjepanovic G, Aebersold R, Nogales E. Structures of human PRC2 with its cofactors AEBP2 and JARID2. Science. 2018 February; 359(6378):940-944. doi: 10.1126/science.aar5700.

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Poepsel S, Kasinath V, Nogales E. Cryo-EM structures of PRC2 simultaneously engaged with two functionally distinct nucleosomes. Nat Struct Mol Biol. 2018 Feb;25(2):154-162. doi: 10.1038/s41594-018-0023-y. Epub 2018 Jan 29. PubMed PMID: 29379173; PubMed Central PMCID: PMC5805599.

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Caro JA, Harpole KW, Kasinath V, Lim J, Granja J, Valentine KG, Sharp KA, Wand AJ. Entropy in molecular recognition by proteins. Proc Natl Acad Sci U S A. 2017 Jun 20;114(25):6563-6568. doi: 10.1073/pnas.1621154114. Epub 2017 Jun 5. PubMed PMID: 28584100; PubMed Central PMCID: PMC5488930.

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Sharp KA, O'Brien E, Kasinath V, Wand AJ. On the relationship between NMR-derived amide order parameters and protein backbone entropy changes. Proteins. 2015 May;83(5):922-30. doi: 10.1002/prot.24789. Epub 2015 Mar 25. PubMed PMID: 25739366; PubMed Central PMCID: PMC4400257.

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Kasinath V, Fu Y, Sharp KA, Wand AJ. A sharp thermal transition of fast aromatic-ring dynamics in ubiquitin. Angew Chem Int Ed Engl. 2015 Jan 2;54(1):102-7. doi: 10.1002/anie.201408220. Epub 2014 Dec 4. PubMed PMID: 25476230; PubMed Central PMCID: PMC4286287.

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Moorman VR, Valentine KG, Bédard S, Kasinath V, Dogan J, Love FM, Wand AJ. Dynamic and thermodynamic response of the Ras protein Cdc42Hs upon association with the effector domain of PAK3. J Mol Biol. 2014 Oct 23;426(21):3520-38. doi: 10.1016/j.jmb.2014.07.031. Epub 2014 Aug 7. PubMed PMID: 25109462; PubMed Central PMCID: PMC4188707.

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Sharp KA, Kasinath V, Wand AJ. Banding of NMR-derived methyl order parameters: implications for protein dynamics. Proteins. 2014 Sep;82(9):2106-17. doi: 10.1002/prot.24566. Epub 2014 Apr 18. PubMed PMID: 24677353; PubMed Central PMCID: PMC4142109.

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Kasinath V, Sharp KA, Wand AJ. Microscopic insights into the NMR relaxation-based protein conformational entropy meter. J Am Chem Soc. 2013 Oct 9;135(40):15092-100. doi: 10.1021/ja405200u. Epub 2013 Sep 25. PubMed PMID: 24007504; PubMed Central PMCID: PMC3821934.

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Kasinath V, Valentine KG, Wand AJ. A 13C labeling strategy reveals a range of aromatic side chain motion in calmodulin. J Am Chem Soc. 2013 Jul 3;135(26):9560-3. doi: 10.1021/ja4001129. Epub 2013 Jun 19. PubMed PMID: 23767407; PubMed Central PMCID: PMC3726223.

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Fu Y, Kasinath V, Moorman VR, Nucci NV, Hilser VJ, Wand AJ. Coupled motion in proteins revealed by pressure perturbation. J Am Chem Soc. 2012 May 23;134(20):8543-50. doi: 10.1021/ja3004655. Epub 2012 Apr 10. PubMed PMID: 22452540; PubMed Central PMCID: PMC3415598.

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Gledhill JM Jr, Kasinath V, Wand AJ. Optimized linear prediction for radial sampled multidimensional NMR experiments. J Magn Reson. 2011 Sep;212(1):240-4. doi: 10.1016/j.jmr.2011.06.019. Epub 2011 Jun 28. PubMed PMID: 21767968; PubMed Central PMCID: PMC3163723.

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Ghodke HB, Krishnan R, Vignesh K, Kumar GV, Narayana C, Krishnan Y. The I-tetraplex building block: rational design and controlled fabrication of robust 1D DNA scaffolds through non-Watson-Crick interactions. Angew Chem Int Ed Engl. 2007;46(15):2646-9. doi: 10.1002/anie.200604461. PubMed PMID: 17330917.