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Dr. Ramesh Yelagandula
Research
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Publications
 
Home » Epigenetics, Cell fate and Disease<
Epigenetics, Cell fate and Disease
Publications
  1. Proteome-scale tagging and functional screening in mammalian cells by ORFtag Filip Nemčko1,2,9, Moritz Himmelsbach2,3,4,5,9, Vincent Loubiere1, Ramesh Yelagandula5,8, Michaela Pagani1, Nina Fasching5,7, Julius Brennecke5,*, Ulrich Elling5,*, Alexander Stark1,6,*, Stefan L. Ameres3,4,5,* bioRxiv. 2024 Jan 17. doi: 10.1101/2024.01.16.575827

  2. Genomic surveillance of SARS-CoV-2 evolution by a centralised pipeline and weekly focused sequencing, Austria, January 2021 to March 2023 Olga Frank1, David Acitores Balboa1, Maria Novatchkova1,2, Ezgi Özkan1, Marcus Martin Strobl2, Ramesh Yelagandula1, Tanino Guiseppe Albanese3, Lukas Endler4,5, Fabian Amman4,5, Vera Felsenstein1,6, Milanka Gavrilovic1, Melanie Acosta1, Timothej Patocka6, Alexander Vogt6, Ido Tamir6, Julia Klikovits7, Alexander Zoufaly8,9, Tamara Seitz8, Manuela Födinger9,10, Andreas Bergthaler4, Alexander Indra7, Daniela Schmid7,11, Peter Klimek1,2, Alexander Stark2,13, Franz Allerberger7, Bernhard Benka7, Katharina Reich14, Luisa Cochella2,15, Ulrich Elling1 Eurosurveillance. 2024 Jun 6. doi: 10.2807/1560-7917.ES.2024.29.23.2300542

  3. Micropillar arrays, wide window acquisition and AI-based data analysis improve comprehensi-veness in multiple proteomic applications Matzinger M, Schmücker A, Yelagandula R, Stejskal K, Krššáková G, Berger F, Mechtler K, Mayer RL. Nature communications. 2024 Feb 3. doi: 10.1038/s41467-024-45391-z.

  4. Loss of Cohesin regulator PDS5A reveals repressive role of Polycomb loops Daniel Bsteh1,2,4, Hagar F. Moussa2, Georg Michlits2, Yelagandula R2, Jingkui Wang3, Ulrich Elling2, Oliver Bell1,2,5, * Nature communications. 2023 Dec 9. doi: https://doi.org/10.1038/s41467-023-43869-w

  5. Ascl1 and Ngn2 convert mouse embryonic stem cells to neurons via functionally distinct paths Vainorius G, Novatchkova M, Michlits G, Baar JC, Raupach C, Lee J, Yelagandula R, Wernig M, Elling U. Nature Communications. 2023 Sep 2;14(1):5341. doi: 10.1038/s41467-023-40803-y.

  6. Histone variants shape chromatin states in Arabidopsis Jamge B, Lorković ZJ, Axelsson E, Osakabe A, Shukla V, Yelagandula R, Akimcheva S, Kuehn AL, Berger F. Elife. 2023 Jul 19;12:RP87714. doi: 10.7554/eLife.87714.

  7. ZFP462 safeguards neural lineage specification by targeting G9A/GLP-mediated heterochromatin to silence enhancers Yelagandula R1,4,6,*, Karin Stecher1,6, Maria Novatchkova1, Luca Michetti1,5, Georg Michlits1, Jingkui Wang2, Pablo Hofbauer1, Carina Pribitzer2, Gintautas Vainorius1, Luke Isbel3, Sasha Mendjan1, Dirk Schübeler3, Ulrich Elling1, Julius Brennecke1, Oliver Bell1,4,7,* (co-corresponding author) Nature Cell Biology, 25, 1, 42-55, 2023 Jan 05. doi: https://doi.org/10.1038/s41556-022-01051-2

  8. High throughput Mutational Surveillance of the SARS-CoV-2 Spike Gene Ezgi Özkan2,*, Marcus Martin Strobl1,*, Maria Novatchkova1,*, Yelagandula R2,*, Aleksandr Bykov2, Alexander Vogt3, Robert Heinen1,2,4, Kristina Uzunova1,2,4, Bence Hajdusits2, Darja Kordic2, Manuela Födinger3, Andreas Bergthaler3, Alexander Indra4, Alexander Stark1, Franz Allerberger4, Ulrich Elling2,#, Luisa Cochella1,# (co-first author) medRxiv. 2021 July 24. doi: https://www.medrxiv.org/content/10.1101/2021.07.22.21259587v1

  9. Multiplexed detection of SARS-CoV-2 and other respiratory infections in high throughput by SARSeq Yelagandula R1, Aleksandr Bykov2, Alexander Vogt3, Robert Heinen1,2,4, Ezgi Özkan2, Marcus Martin Strobl1, Juliane Christina Baar1, Kristina Uzunova1,2,4, Bence Hajdusits2, Darja Kordic2, Erna Suljic5, Amina Kurtovic-Kozaric5, Sebija Izetbegovic5, Justine Schaefer6,7, Peter Hufnagl6, Alexander Zoufaly8,9, Tamara Seitz8, VCDI, Manuela Födinger9,10, Franz Allerberger6, Alexander Stark2,11, Luisa Cochella2, # & Ulrich Elling1, # Nature Communications.2021 May 25;12(1):3132. doi: https://doi.org/10.1038/s41467-021-22664-5

  10. The histone variant H2A.W and linker histone H1 co-regulate heterochromatin accessibility and DNA methylation Pierre Bourguet1*, Colette Picard2*, Yelagandula R3,5 *, Thierry Pélissier1, Zdravko J. Lorković3, Marie-Noëlle Pouch-Pélissier1, Steven E. Jacobsen2,4, Frédéric Berger3, and Olivier Mathieu1† (co-first author) Nature Communications. 2021 May 11;12(1):2683. doi: https://doi.org/10.1038/s41467-021-22993-5

  11. The chromatin remodeler DDM1 prevents transposon mobility through deposition of histone variant H2A.W Akihisa Osakabe1†, Bhagyshree Jamge1†, Elin Axelsson1, Sean A. Montgomery1, Svetlana Akimcheva1, Annika Luisa Kuehn1, Rahul Pisupati1, Yelagandula R1, Tetsuji Kakutani2,3,4, and Frédéric Berger1*. Nature Cell Biology. 2021 Apr 8 doi: https://doi.org/10.1038/s41556-021-00658-1

  12. The evolution and functional divergence of the histone H2B family in plants Danhua Jiang1,2,3*, Michael Borg1*, Zdravko J. Lorković1, Sean A. Montgomery1, Akihisa Osakabe1, Yelagandula R1, Elin Axelsson1 & Frédéric Berger1†. Plos Genetics. 2020. doi: https://doi.org/10.1371/journal.pgen.1008964

  13. Canonical PRC1 controls sequence-independent propagation of Polycomb-dependent gene silencing Hagar F. Moussa1*, Daniel Bsteh1*, Yelagandula R1, Carina Pribitzer1, Karin Stecher1, Katarina Bartalska1,4, Jorge A. Zepeda-Martinez1, Jingkui Wang2, Ulrich Elling1, Jacob I. Stuckey3,5, Lindsey I. James3, Stephen V. Frye3, and Oliver Bell1†. Nature Communications. 2019 Apr 29;10(1):1931. doi: https://doi.org/10.1038/s41467-019-09628-6

  14. Pathway-Based High-Throughput Chemical Screen Identifies Compounds That Decouple Heterochromatin Transformations MacDonald IA, Butler KV, Herring LE, Clinkscales SE, Yelagandula R, Stecher K, Bell O, Graves LM, Jin J, Hathaway NA. SLAS Discovery. 2019 May 30:2472555219849838. doi: https://doi.org/10.1177/2472555219849838

  15. Histone acetylation recruits the SWR1 complex to regulate active DNA demethylation in Arabidopsis Nie WF, Lei M, Zhang M, Tang K, Huang H, Zhang C, Miki D, Liu P, Yang Y, Wang X, Zhang H, Lang Z, Liu N, Xu X, Yelagandula R, Zhang H, Wang Z, Chai X, Andreucci A, Yu JQ, Berger F, Lozano-Duran R, Zhu JK. ProcNatlAcadSci USA.2019 Aug13;116(33):16641-16650. https://doi.org/10.1073/pnas.1906023116

  16. Histone H2A variants confer specific properties to nucleosomes and impact on chromatin accessibility Akihisa Osakabe1#, Zdravko J. Lorkovic1#, Wataru Kobayashi2, Hiroaki Tachiwana2,5, Yelagandula R1,4, Hitoshi Kurumizaka2,3, Frédéric Berger1*. Nucleic Acids Research. 2018 Jun 26. https://doi.org/10.1093/nar/gky540

  17. Genome-Wide Profiling of Histone Modifications and Histone Variants in Arabidopsis thaliana and Marchantia polymorpha Yelagandula R, Osakabe A, Axelsson E, Berger F, Kawashima T. Methods Mol Biol. 2017;1610:93-106. https://doi.org/10.1007/978-1-4939-7003-2_7

  18. The histone H3 variant H3.3 regulates gene body DNA methylation in Arabidopsis thaliana Wollmann H1,*, Stroud H2,*, Yelagandula R1,*, Tarutani Y3, Jiang D, Jing L1, Jamge B1, Takeuchi H3, Holec S1, Nie X1, Kakutani T3, Jacobsen SE2, Berger F1. (co-first author) Genome Biology. 2017 May 18;18(1):94. https://doi.org/10.1186/s13059-017-1221-3

  19. Live-Cell Imaging of F-Actin Dynamics During Fertilization in Arabidopsis thaliana Susaki D, Maruyama D, Yelagandula R, Berger F, Kawashima T. Methods Mol Biol. 2017;1669:47-54. https://doi.org/10.1007/978-1-4939-7286-9_4

  20. Diversification of histone H2A variants during plant evolution Kawashima T, Lorković ZJ, Nishihama R, Ishizaki K, Axelsson E, Yelagandula R, Kohchi T, Berger F. Trends Plant Sci. 2015 Jul;20(7):419-25. https://doi.org/10.1016/j.tplants.2015.04.005

  21. Dynamic F-actin movement is essential for fertilization in Arabidopsis thaliana Tomokazu Kawashima, Daisuke Maruyama, Murat Shagirov, Li Jing, Yuki Hamamura, Yelagandula R, Yusuke Toyama, and Frédéric Berger. Elife. 2014 Oct 10;3. https://doi.org/10.7554/eLife.04501

  22. The histone variant H2A.W defines heterochromatin and promotes chromatin condensation in Arabidopsis Yelagandula R1,2,8, Hume Stroud3,8,10, Sarah Holec1, Keda Zhou6, Suhua Feng3,4,5, Xuehua Zhong3,9, Uma M. Muthurajan6, Xin Nie1,2, Tomokazu Kawashima1, Martin Groth3,5, Karolin Luger6,7, Steven E. Jacobsen3,4,5, and Frédéric Berger1,2. Cell. 2014 Jul 3; 158(1):98-109. https://doi.org/10.1016/j.cell.2014.06.006

  23. DNA methylation dynamics during sexual reproduction in Arabidopsis thaliana Jullien PE, Susaki D, Yelagandula R, Higashiyama T, Berger F. Current Biology. 2012 Oct 9;22(19):1825-30. https://doi.org/10.1016/j.cub.2012.07.061

  24. A unified phylogeny-based nomenclature for histone variants Talbert PB, Ahmad K, Almouzni G, Ausió J, Berger F, Bhalla PL, Bonner WM, Cande WZ, Chadwick BP, Chan SW, Cross GA, Cui L, Dimitrov SI, Doenecke D, Eirin-López JM, Gorovsky MA, Hake SB, Hamkalo BA, Holec S, Jacobsen SE, Kamieniarz K, Khochbin S, Ladurner AG, Landsman D, Latham JA, Loppin B, Malik HS, Marzluff WF, Pehrson JR, Postberg J, Schneider R, Singh MB, Smith MM, Thompson E, Torres-Padilla ME, Tremethick DJ, Turner BM, Waterborg JH, Wollmann H, Yelagandula R, Zhu B, Henikoff S. Epigenetics Chromatin. 2012 Jun 21;5:7. https://doi.org/10.1186/1756-8935-5-7

  25. Genome-level identification of targets of Hox protein Ultrabithorax in Drosophila: novel mechanisms for target selection Agrawal P, Habib F, Yelagandula R, Shashidhara LS. Scientific Reports. 2011;1:205. https://doi.org/10.1038/srep00205
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Last updated on:Friday, 7th June, 2024

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