[{"external_id":{"pmid":["27956642"]},"issue":"52","intvolume":"       113","day":"27","citation":{"mla":"Park, Kyunghyuk, et al. “DNA Demethylation Is Initiated in the Central Cells of Arabidopsis and Rice.” <i>Proceedings of the National Academy of Sciences</i>, vol. 113, no. 52, National Academy of Sciences, 2016, pp. 15138–43, doi:<a href=\"https://doi.org/10.1073/pnas.1619047114\">10.1073/pnas.1619047114</a>.","short":"K. Park, M.Y. Kim, M. Vickers, J.-S. Park, Y. Hyun, T. Okamoto, D. Zilberman, R.L. Fischer, X. Feng, Y. Choi, S. Scholten, Proceedings of the National Academy of Sciences 113 (2016) 15138–15143.","chicago":"Park, Kyunghyuk, M. Yvonne Kim, Martin Vickers, Jin-Sup Park, Youbong Hyun, Takashi Okamoto, Daniel Zilberman, et al. “DNA Demethylation Is Initiated in the Central Cells of Arabidopsis and Rice.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2016. <a href=\"https://doi.org/10.1073/pnas.1619047114\">https://doi.org/10.1073/pnas.1619047114</a>.","ieee":"K. Park <i>et al.</i>, “DNA demethylation is initiated in the central cells of Arabidopsis and rice,” <i>Proceedings of the National Academy of Sciences</i>, vol. 113, no. 52. National Academy of Sciences, pp. 15138–15143, 2016.","apa":"Park, K., Kim, M. Y., Vickers, M., Park, J.-S., Hyun, Y., Okamoto, T., … Scholten, S. (2016). DNA demethylation is initiated in the central cells of Arabidopsis and rice. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1619047114\">https://doi.org/10.1073/pnas.1619047114</a>","ista":"Park K, Kim MY, Vickers M, Park J-S, Hyun Y, Okamoto T, Zilberman D, Fischer RL, Feng X, Choi Y, Scholten S. 2016. DNA demethylation is initiated in the central cells of Arabidopsis and rice. Proceedings of the National Academy of Sciences. 113(52), 15138–15143.","ama":"Park K, Kim MY, Vickers M, et al. DNA demethylation is initiated in the central cells of Arabidopsis and rice. <i>Proceedings of the National Academy of Sciences</i>. 2016;113(52):15138-15143. doi:<a href=\"https://doi.org/10.1073/pnas.1619047114\">10.1073/pnas.1619047114</a>"},"year":"2016","publisher":"National Academy of Sciences","status":"public","_id":"9477","oa_version":"Published Version","date_published":"2016-12-27T00:00:00Z","fulldoi":"https://doi.org/10.1073/pnas.1619047114","article_type":"original","keyword":["Multidisciplinary"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Cytosine methylation is a DNA modification with important regulatory functions in eukaryotes. In flowering plants, sexual reproduction is accompanied by extensive DNA demethylation, which is required for proper gene expression in the endosperm, a nutritive extraembryonic seed tissue. Endosperm arises from a fusion of a sperm cell carried in the pollen and a female central cell. Endosperm DNA demethylation is observed specifically on the chromosomes inherited from the central cell in Arabidopsis thaliana, rice, and maize, and requires the DEMETER DNA demethylase in Arabidopsis. DEMETER is expressed in the central cell before fertilization, suggesting that endosperm demethylation patterns are inherited from the central cell. Down-regulation of the MET1 DNA methyltransferase has also been proposed to contribute to central cell demethylation. However, with the exception of three maize genes, central cell DNA methylation has not been directly measured, leaving the origin and mechanism of endosperm demethylation uncertain. Here, we report genome-wide analysis of DNA methylation in the central cells of Arabidopsis and rice—species that diverged 150 million years ago—as well as in rice egg cells. We find that DNA demethylation in both species is initiated in central cells, which requires DEMETER in Arabidopsis. However, we do not observe a global reduction of CG methylation that would be indicative of lowered MET1 activity; on the contrary, CG methylation efficiency is elevated in female gametes compared with nonsexual tissues. Our results demonstrate that locus-specific, active DNA demethylation in the central cell is the origin of maternal chromosome hypomethylation in the endosperm."}],"date_updated":"2023-05-08T11:00:07Z","quality_controlled":"1","date_created":"2021-06-07T07:10:59Z","article_processing_charge":"No","month":"12","page":"15138-15143","volume":113,"language":[{"iso":"eng"}],"department":[{"_id":"DaZi"},{"_id":"XiFe"}],"publication_status":"published","extern":"1","pmid":1,"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"title":"DNA demethylation is initiated in the central cells of Arabidopsis and rice","oa":1,"doi":"10.1073/pnas.1619047114","main_file_link":[{"url":"https://doi.org/10.1073/pnas.1619047114","open_access":"1"}],"type":"journal_article","publication":"Proceedings of the National Academy of Sciences","author":[{"full_name":"Park, Kyunghyuk","last_name":"Park","first_name":"Kyunghyuk"},{"last_name":"Kim","full_name":"Kim, M. Yvonne","first_name":"M. Yvonne"},{"first_name":"Martin","full_name":"Vickers, Martin","last_name":"Vickers"},{"full_name":"Park, Jin-Sup","last_name":"Park","first_name":"Jin-Sup"},{"first_name":"Youbong","last_name":"Hyun","full_name":"Hyun, Youbong"},{"first_name":"Takashi","last_name":"Okamoto","full_name":"Okamoto, Takashi"},{"last_name":"Zilberman","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","full_name":"Zilberman, Daniel","first_name":"Daniel","orcid":"0000-0002-0123-8649"},{"first_name":"Robert L.","last_name":"Fischer","full_name":"Fischer, Robert L."},{"orcid":"0000-0002-4008-1234","first_name":"Xiaoqi","full_name":"Feng, Xiaoqi","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958"},{"last_name":"Choi","full_name":"Choi, Yeonhee","first_name":"Yeonhee"},{"first_name":"Stefan","last_name":"Scholten","full_name":"Scholten, Stefan"}],"scopus_import":"1"},{"intvolume":"       350","issue":"6262","external_id":{"pmid":["26494175"]},"oa_version":"None","_id":"14013","status":"public","publisher":"American Association for the Advancement of Science","citation":{"short":"P.M. Kraus, B. Mignolet, D.R. Baykusheva, A. Rupenyan, L. Horný, E.F. Penka, G. Grassi, O.I. Tolstikhin, J. Schneider, F. Jensen, L.B. Madsen, A.D. Bandrauk, F. Remacle, H.J. Wörner, Science 350 (2015) 790–795.","mla":"Kraus, P. M., et al. “Measurement and Laser Control of Attosecond Charge Migration in Ionized Iodoacetylene.” <i>Science</i>, vol. 350, no. 6262, American Association for the Advancement of Science, 2015, pp. 790–95, doi:<a href=\"https://doi.org/10.1126/science.aab2160\">10.1126/science.aab2160</a>.","chicago":"Kraus, P. M., B. Mignolet, Denitsa Rangelova Baykusheva, A. Rupenyan, L. Horný, E. F. Penka, G. Grassi, et al. “Measurement and Laser Control of Attosecond Charge Migration in Ionized Iodoacetylene.” <i>Science</i>. American Association for the Advancement of Science, 2015. <a href=\"https://doi.org/10.1126/science.aab2160\">https://doi.org/10.1126/science.aab2160</a>.","ieee":"P. M. Kraus <i>et al.</i>, “Measurement and laser control of attosecond charge migration in ionized iodoacetylene,” <i>Science</i>, vol. 350, no. 6262. American Association for the Advancement of Science, pp. 790–795, 2015.","apa":"Kraus, P. M., Mignolet, B., Baykusheva, D. R., Rupenyan, A., Horný, L., Penka, E. F., … Wörner, H. J. (2015). Measurement and laser control of attosecond charge migration in ionized iodoacetylene. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.aab2160\">https://doi.org/10.1126/science.aab2160</a>","ama":"Kraus PM, Mignolet B, Baykusheva DR, et al. Measurement and laser control of attosecond charge migration in ionized iodoacetylene. <i>Science</i>. 2015;350(6262):790-795. doi:<a href=\"https://doi.org/10.1126/science.aab2160\">10.1126/science.aab2160</a>","ista":"Kraus PM, Mignolet B, Baykusheva DR, Rupenyan A, Horný L, Penka EF, Grassi G, Tolstikhin OI, Schneider J, Jensen F, Madsen LB, Bandrauk AD, Remacle F, Wörner HJ. 2015. Measurement and laser control of attosecond charge migration in ionized iodoacetylene. Science. 350(6262), 790–795."},"year":"2015","day":"22","keyword":["Multidisciplinary"],"article_type":"original","fulldoi":"https://doi.org/10.1126/science.aab2160","date_published":"2015-10-22T00:00:00Z","date_updated":"2023-08-22T08:47:39Z","abstract":[{"lang":"eng","text":"The ultrafast motion of electrons and holes after light-matter interaction is fundamental to a broad range of chemical and biophysical processes. We advanced high-harmonic spectroscopy to resolve spatially and temporally the migration of an electron hole immediately after ionization of iodoacetylene while simultaneously demonstrating extensive control over the process. A multidimensional approach, based on the measurement and accurate theoretical description of both even and odd harmonic orders, enabled us to reconstruct both quantum amplitudes and phases of the electronic states with a resolution of ~100 attoseconds. We separately reconstructed quasi-field-free and laser-controlled charge migration as a function of the spatial orientation of the molecule and determined the shape of the hole created by ionization. Our technique opens the prospect of laser control over electronic primary processes."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","date_created":"2023-08-10T06:37:35Z","quality_controlled":"1","publication_status":"published","volume":350,"language":[{"iso":"eng"}],"page":"790-795","month":"10","type":"journal_article","doi":"10.1126/science.aab2160","title":"Measurement and laser control of attosecond charge migration in ionized iodoacetylene","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"pmid":1,"extern":"1","scopus_import":"1","author":[{"last_name":"Kraus","full_name":"Kraus, P. M.","first_name":"P. M."},{"first_name":"B.","full_name":"Mignolet, B.","last_name":"Mignolet"},{"first_name":"Denitsa Rangelova","last_name":"Baykusheva","id":"71b4d059-2a03-11ee-914d-dfa3beed6530","full_name":"Baykusheva, Denitsa Rangelova"},{"full_name":"Rupenyan, A.","last_name":"Rupenyan","first_name":"A."},{"last_name":"Horný","full_name":"Horný, L.","first_name":"L."},{"first_name":"E. F.","last_name":"Penka","full_name":"Penka, E. F."},{"full_name":"Grassi, G.","last_name":"Grassi","first_name":"G."},{"last_name":"Tolstikhin","full_name":"Tolstikhin, O. I.","first_name":"O. I."},{"first_name":"J.","full_name":"Schneider, J.","last_name":"Schneider"},{"first_name":"F.","last_name":"Jensen","full_name":"Jensen, F."},{"first_name":"L. B.","last_name":"Madsen","full_name":"Madsen, L. B."},{"last_name":"Bandrauk","full_name":"Bandrauk, A. D.","first_name":"A. D."},{"first_name":"F.","last_name":"Remacle","full_name":"Remacle, F."},{"last_name":"Wörner","full_name":"Wörner, H. J.","first_name":"H. J."}],"publication":"Science"},{"intvolume":"         6","external_id":{"pmid":["25940229"]},"oa_version":"Published Version","status":"public","_id":"14016","publisher":"Springer Nature","citation":{"apa":"Kraus, P. M., Tolstikhin, O. I., Baykusheva, D. R., Rupenyan, A., Schneider, J., Bisgaard, C. Z., … Wörner, H. J. (2015). Observation of laser-induced electronic structure in oriented polyatomic molecules. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/ncomms8039\">https://doi.org/10.1038/ncomms8039</a>","ieee":"P. M. Kraus <i>et al.</i>, “Observation of laser-induced electronic structure in oriented polyatomic molecules,” <i>Nature Communications</i>, vol. 6. Springer Nature, 2015.","ama":"Kraus PM, Tolstikhin OI, Baykusheva DR, et al. Observation of laser-induced electronic structure in oriented polyatomic molecules. <i>Nature Communications</i>. 2015;6. doi:<a href=\"https://doi.org/10.1038/ncomms8039\">10.1038/ncomms8039</a>","ista":"Kraus PM, Tolstikhin OI, Baykusheva DR, Rupenyan A, Schneider J, Bisgaard CZ, Morishita T, Jensen F, Madsen LB, Wörner HJ. 2015. Observation of laser-induced electronic structure in oriented polyatomic molecules. Nature Communications. 6, 7039.","short":"P.M. Kraus, O.I. Tolstikhin, D.R. Baykusheva, A. Rupenyan, J. Schneider, C.Z. Bisgaard, T. Morishita, F. Jensen, L.B. Madsen, H.J. Wörner, Nature Communications 6 (2015).","mla":"Kraus, P. M., et al. “Observation of Laser-Induced Electronic Structure in Oriented Polyatomic Molecules.” <i>Nature Communications</i>, vol. 6, 7039, Springer Nature, 2015, doi:<a href=\"https://doi.org/10.1038/ncomms8039\">10.1038/ncomms8039</a>.","chicago":"Kraus, P. M., O. I. Tolstikhin, Denitsa Rangelova Baykusheva, A. Rupenyan, J. Schneider, C. Z. Bisgaard, T. Morishita, F. Jensen, L. B. Madsen, and H. J. Wörner. “Observation of Laser-Induced Electronic Structure in Oriented Polyatomic Molecules.” <i>Nature Communications</i>. Springer Nature, 2015. <a href=\"https://doi.org/10.1038/ncomms8039\">https://doi.org/10.1038/ncomms8039</a>."},"year":"2015","day":"05","keyword":["General Physics and Astronomy","General Biochemistry","Genetics and Molecular Biology","General Chemistry","Multidisciplinary"],"article_type":"original","fulldoi":"https://doi.org/10.1038/ncomms8039","date_published":"2015-05-05T00:00:00Z","date_updated":"2023-08-22T08:52:56Z","abstract":[{"text":"All attosecond time-resolved measurements have so far relied on the use of intense near-infrared laser pulses. In particular, attosecond streaking, laser-induced electron diffraction and high-harmonic generation all make use of non-perturbative light–matter interactions. Remarkably, the effect of the strong laser field on the studied sample has often been neglected in previous studies. Here we use high-harmonic spectroscopy to measure laser-induced modifications of the electronic structure of molecules. We study high-harmonic spectra of spatially oriented CH3F and CH3Br as generic examples of polar polyatomic molecules. We accurately measure intensity ratios of even and odd-harmonic orders, and of the emission from aligned and unaligned molecules. We show that these robust observables reveal a substantial modification of the molecular electronic structure by the external laser field. Our insights offer new challenges and opportunities for a range of emerging strong-field attosecond spectroscopies.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","date_created":"2023-08-10T06:38:01Z","quality_controlled":"1","publication_status":"published","language":[{"iso":"eng"}],"volume":6,"month":"05","type":"journal_article","doi":"10.1038/ncomms8039","main_file_link":[{"url":"https://doi.org/10.1038/ncomms8039","open_access":"1"}],"title":"Observation of laser-induced electronic structure in oriented polyatomic molecules","oa":1,"publication_identifier":{"eissn":["2041-1723"]},"pmid":1,"extern":"1","article_number":"7039","scopus_import":"1","author":[{"full_name":"Kraus, P. M.","last_name":"Kraus","first_name":"P. M."},{"first_name":"O. I.","last_name":"Tolstikhin","full_name":"Tolstikhin, O. I."},{"first_name":"Denitsa Rangelova","last_name":"Baykusheva","id":"71b4d059-2a03-11ee-914d-dfa3beed6530","full_name":"Baykusheva, Denitsa Rangelova"},{"first_name":"A.","full_name":"Rupenyan, A.","last_name":"Rupenyan"},{"first_name":"J.","last_name":"Schneider","full_name":"Schneider, J."},{"full_name":"Bisgaard, C. Z.","last_name":"Bisgaard","first_name":"C. Z."},{"last_name":"Morishita","full_name":"Morishita, T.","first_name":"T."},{"first_name":"F.","full_name":"Jensen, F.","last_name":"Jensen"},{"last_name":"Madsen","full_name":"Madsen, L. B.","first_name":"L. B."},{"first_name":"H. J.","last_name":"Wörner","full_name":"Wörner, H. J."}],"publication":"Nature Communications"},{"article_processing_charge":"No","date_created":"2023-08-01T09:45:56Z","quality_controlled":"1","publication_status":"published","language":[{"iso":"eng"}],"volume":345,"page":"1149-1153","month":"07","type":"journal_article","doi":"10.1126/science.1254132","title":"Self-assembly of magnetite nanocubes into helical superstructures","pmid":1,"publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"extern":"1","scopus_import":"1","author":[{"first_name":"Gurvinder","last_name":"Singh","full_name":"Singh, Gurvinder"},{"first_name":"Henry","last_name":"Chan","full_name":"Chan, Henry"},{"full_name":"Baskin, Artem","last_name":"Baskin","first_name":"Artem"},{"first_name":"Elijah","last_name":"Gelman","full_name":"Gelman, Elijah"},{"last_name":"Repnin","full_name":"Repnin, Nikita","first_name":"Nikita"},{"last_name":"Král","full_name":"Král, Petr","first_name":"Petr"},{"id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","last_name":"Klajn","full_name":"Klajn, Rafal","first_name":"Rafal"}],"publication":"Science","intvolume":"       345","issue":"6201","external_id":{"pmid":["25061133"]},"oa_version":"None","_id":"13400","status":"public","publisher":"American Association for the Advancement of Science","year":"2014","citation":{"chicago":"Singh, Gurvinder, Henry Chan, Artem Baskin, Elijah Gelman, Nikita Repnin, Petr Král, and Rafal Klajn. “Self-Assembly of Magnetite Nanocubes into Helical Superstructures.” <i>Science</i>. American Association for the Advancement of Science, 2014. <a href=\"https://doi.org/10.1126/science.1254132\">https://doi.org/10.1126/science.1254132</a>.","short":"G. Singh, H. Chan, A. Baskin, E. Gelman, N. Repnin, P. Král, R. Klajn, Science 345 (2014) 1149–1153.","mla":"Singh, Gurvinder, et al. “Self-Assembly of Magnetite Nanocubes into Helical Superstructures.” <i>Science</i>, vol. 345, no. 6201, American Association for the Advancement of Science, 2014, pp. 1149–53, doi:<a href=\"https://doi.org/10.1126/science.1254132\">10.1126/science.1254132</a>.","ama":"Singh G, Chan H, Baskin A, et al. Self-assembly of magnetite nanocubes into helical superstructures. <i>Science</i>. 2014;345(6201):1149-1153. doi:<a href=\"https://doi.org/10.1126/science.1254132\">10.1126/science.1254132</a>","ista":"Singh G, Chan H, Baskin A, Gelman E, Repnin N, Král P, Klajn R. 2014. Self-assembly of magnetite nanocubes into helical superstructures. Science. 345(6201), 1149–1153.","apa":"Singh, G., Chan, H., Baskin, A., Gelman, E., Repnin, N., Král, P., &#38; Klajn, R. (2014). Self-assembly of magnetite nanocubes into helical superstructures. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1254132\">https://doi.org/10.1126/science.1254132</a>","ieee":"G. Singh <i>et al.</i>, “Self-assembly of magnetite nanocubes into helical superstructures,” <i>Science</i>, vol. 345, no. 6201. American Association for the Advancement of Science, pp. 1149–1153, 2014."},"day":"24","keyword":["Multidisciplinary"],"article_type":"original","fulldoi":"https://doi.org/10.1126/science.1254132","date_published":"2014-07-24T00:00:00Z","date_updated":"2024-10-14T12:20:09Z","abstract":[{"lang":"eng","text":"Organizing inorganic nanocrystals into complex architectures is challenging and typically relies on preexisting templates, such as properly folded DNA or polypeptide chains. We found that under carefully controlled conditions, cubic nanocrystals of magnetite self-assemble into arrays of helical superstructures in a template-free manner with >99% yield. Computer simulations revealed that the formation of helices is determined by the interplay of van der Waals and magnetic dipole-dipole interactions, Zeeman coupling, and entropic forces and can be attributed to spontaneous formation of chiral nanocube clusters. Neighboring helices within their densely packed ensembles tended to adopt the same handedness in order to maximize packing, thus revealing a novel mechanism of symmetry breaking and chirality amplification."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"title":"Nanoporous frameworks exhibiting multiple stimuli responsiveness","oa":1,"publication_identifier":{"eissn":["2041-1723"]},"pmid":1,"type":"journal_article","main_file_link":[{"url":"https://doi.org/10.1038/ncomms4588","open_access":"1"}],"doi":"10.1038/ncomms4588","article_number":"3588","extern":"1","scopus_import":"1","publication":"Nature Communications","author":[{"full_name":"Kundu, Pintu K.","last_name":"Kundu","first_name":"Pintu K."},{"full_name":"Olsen, Gregory L.","last_name":"Olsen","first_name":"Gregory L."},{"last_name":"Kiss","full_name":"Kiss, Vladimir","first_name":"Vladimir"},{"first_name":"Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","full_name":"Klajn, Rafal"}],"article_processing_charge":"No","date_created":"2023-08-01T09:46:27Z","quality_controlled":"1","publication_status":"published","volume":5,"language":[{"iso":"eng"}],"month":"04","date_published":"2014-04-07T00:00:00Z","keyword":["General Physics and Astronomy","General Biochemistry","Genetics and Molecular Biology","General Chemistry","Multidisciplinary"],"fulldoi":"https://doi.org/10.1038/ncomms4588","article_type":"original","date_updated":"2024-10-14T12:20:30Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Nanoporous frameworks are polymeric materials built from rigid molecules, which give rise to their nanoporous structures with applications in gas sorption and storage, catalysis and others. Conceptually new applications could emerge, should these beneficial properties be manipulated by external stimuli in a reversible manner. One approach to render nanoporous frameworks responsive to external signals would be to immobilize molecular switches within their nanopores. Although the majority of molecular switches require conformational freedom to isomerize, and switching in the solid state is prohibited, the nanopores may provide enough room for the switches to efficiently isomerize. Here we describe two families of nanoporous materials incorporating the spiropyran molecular switch. These materials exhibit a variety of interesting properties, including reversible photochromism and acidochromism under solvent-free conditions, light-controlled capture and release of metal ions, as well reversible chromism induced by solvation/desolvation."}],"external_id":{"pmid":["24709950"]},"intvolume":"         5","status":"public","_id":"13402","oa_version":"Published Version","day":"07","publisher":"Springer Nature","year":"2014","citation":{"ama":"Kundu PK, Olsen GL, Kiss V, Klajn R. Nanoporous frameworks exhibiting multiple stimuli responsiveness. <i>Nature Communications</i>. 2014;5. doi:<a href=\"https://doi.org/10.1038/ncomms4588\">10.1038/ncomms4588</a>","ista":"Kundu PK, Olsen GL, Kiss V, Klajn R. 2014. Nanoporous frameworks exhibiting multiple stimuli responsiveness. Nature Communications. 5, 3588.","ieee":"P. K. Kundu, G. L. Olsen, V. Kiss, and R. Klajn, “Nanoporous frameworks exhibiting multiple stimuli responsiveness,” <i>Nature Communications</i>, vol. 5. Springer Nature, 2014.","apa":"Kundu, P. K., Olsen, G. L., Kiss, V., &#38; Klajn, R. (2014). Nanoporous frameworks exhibiting multiple stimuli responsiveness. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/ncomms4588\">https://doi.org/10.1038/ncomms4588</a>","chicago":"Kundu, Pintu K., Gregory L. Olsen, Vladimir Kiss, and Rafal Klajn. “Nanoporous Frameworks Exhibiting Multiple Stimuli Responsiveness.” <i>Nature Communications</i>. Springer Nature, 2014. <a href=\"https://doi.org/10.1038/ncomms4588\">https://doi.org/10.1038/ncomms4588</a>.","mla":"Kundu, Pintu K., et al. “Nanoporous Frameworks Exhibiting Multiple Stimuli Responsiveness.” <i>Nature Communications</i>, vol. 5, 3588, Springer Nature, 2014, doi:<a href=\"https://doi.org/10.1038/ncomms4588\">10.1038/ncomms4588</a>.","short":"P.K. Kundu, G.L. Olsen, V. Kiss, R. Klajn, Nature Communications 5 (2014)."}},{"month":"12","publication_status":"published","language":[{"iso":"eng"}],"volume":111,"page":"17869-17874","quality_controlled":"1","article_processing_charge":"No","date_created":"2021-11-29T13:09:53Z","author":[{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","last_name":"Šarić","full_name":"Šarić, Anđela","first_name":"Anđela","orcid":"0000-0002-7854-2139"},{"last_name":"Chebaro","full_name":"Chebaro, Yassmine C.","first_name":"Yassmine C."},{"first_name":"Tuomas P. J.","full_name":"Knowles, Tuomas P. J.","last_name":"Knowles"},{"first_name":"Daan","last_name":"Frenkel","full_name":"Frenkel, Daan"}],"publication":"Proceedings of the National Academy of Sciences","scopus_import":"1","extern":"1","type":"journal_article","main_file_link":[{"open_access":"1","url":"https://www.pnas.org/content/111/50/17869"}],"doi":"10.1073/pnas.1410159111","title":"Crucial role of nonspecific interactions in amyloid nucleation","oa":1,"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"pmid":1,"publisher":"National Academy of Sciences","citation":{"apa":"Šarić, A., Chebaro, Y. C., Knowles, T. P. J., &#38; Frenkel, D. (2014). Crucial role of nonspecific interactions in amyloid nucleation. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1410159111\">https://doi.org/10.1073/pnas.1410159111</a>","ieee":"A. Šarić, Y. C. Chebaro, T. P. J. Knowles, and D. Frenkel, “Crucial role of nonspecific interactions in amyloid nucleation,” <i>Proceedings of the National Academy of Sciences</i>, vol. 111, no. 50. National Academy of Sciences, pp. 17869–17874, 2014.","ista":"Šarić A, Chebaro YC, Knowles TPJ, Frenkel D. 2014. Crucial role of nonspecific interactions in amyloid nucleation. Proceedings of the National Academy of Sciences. 111(50), 17869–17874.","ama":"Šarić A, Chebaro YC, Knowles TPJ, Frenkel D. Crucial role of nonspecific interactions in amyloid nucleation. <i>Proceedings of the National Academy of Sciences</i>. 2014;111(50):17869-17874. doi:<a href=\"https://doi.org/10.1073/pnas.1410159111\">10.1073/pnas.1410159111</a>","mla":"Šarić, Anđela, et al. “Crucial Role of Nonspecific Interactions in Amyloid Nucleation.” <i>Proceedings of the National Academy of Sciences</i>, vol. 111, no. 50, National Academy of Sciences, 2014, pp. 17869–74, doi:<a href=\"https://doi.org/10.1073/pnas.1410159111\">10.1073/pnas.1410159111</a>.","short":"A. Šarić, Y.C. Chebaro, T.P.J. Knowles, D. Frenkel, Proceedings of the National Academy of Sciences 111 (2014) 17869–17874.","chicago":"Šarić, Anđela, Yassmine C. Chebaro, Tuomas P. J. Knowles, and Daan Frenkel. “Crucial Role of Nonspecific Interactions in Amyloid Nucleation.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2014. <a href=\"https://doi.org/10.1073/pnas.1410159111\">https://doi.org/10.1073/pnas.1410159111</a>."},"acknowledgement":"We thank Michele Vendruscolo, Iskra Staneva, and William M. Jacobs, for helpful discussions. A.Š. acknowledges support from the Human Frontier Science Program and Emmanuel College. Y.C.C. and D.F. are supported by Engineering and Physical Sciences Research Council Programme Grant EP/I001352/1. T.P.J.K. acknowledges the Frances and Augustus Newman Foundation, the European Research Council, and the Biotechnology and Biological Sciences Research Council. D.F. acknowledges European Research Council Advanced Grant 227758.","year":"2014","day":"01","arxiv":1,"oa_version":"Published Version","_id":"10382","status":"public","intvolume":"       111","issue":"50","external_id":{"arxiv":["1412.0897"],"pmid":["25453085"]},"abstract":[{"lang":"eng","text":"Protein oligomers have been implicated as toxic agents in a wide range of amyloid-related diseases. However, it has remained unsolved whether the oligomers are a necessary step in the formation of amyloid fibrils or just a dangerous byproduct. Analogously, it has not been resolved if the amyloid nucleation process is a classical one-step nucleation process or a two-step process involving prenucleation clusters. We use coarse-grained computer simulations to study the effect of nonspecific attractions between peptides on the primary nucleation process underlying amyloid fibrillization. We find that, for peptides that do not attract, the classical one-step nucleation mechanism is possible but only at nonphysiologically high peptide concentrations. At low peptide concentrations, which mimic the physiologically relevant regime, attractive interpeptide interactions are essential for fibril formation. Nucleation then inevitably takes place through a two-step mechanism involving prefibrillar oligomers. We show that oligomers not only help peptides meet each other but also, create an environment that facilitates the conversion of monomers into the β-sheet–rich form characteristic of fibrils. Nucleation typically does not proceed through the most prevalent oligomers but through an oligomer size that is only observed in rare fluctuations, which is why such aggregates might be hard to capture experimentally. Finally, we find that the nucleation of amyloid fibrils cannot be described by classical nucleation theory: in the two-step mechanism, the critical nucleus size increases with increases in both concentration and interpeptide interactions, which is in direct contrast with predictions from classical nucleation theory."}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_updated":"2021-11-29T13:29:05Z","keyword":["multidisciplinary"],"article_type":"original","fulldoi":"https://doi.org/10.1073/pnas.1410159111","date_published":"2014-12-01T00:00:00Z"},{"oa_version":"None","_id":"9055","status":"public","publisher":"American Association for the Advancement of Science ","year":"2013","citation":{"ista":"Palacci JA, Sacanna S, Steinberg AP, Pine DJ, Chaikin PM. 2013. Living crystals of light-activated colloidal surfers. Science. 339(6122), 936–940.","ama":"Palacci JA, Sacanna S, Steinberg AP, Pine DJ, Chaikin PM. Living crystals of light-activated colloidal surfers. <i>Science</i>. 2013;339(6122):936-940. doi:<a href=\"https://doi.org/10.1126/science.1230020\">10.1126/science.1230020</a>","apa":"Palacci, J. A., Sacanna, S., Steinberg, A. P., Pine, D. J., &#38; Chaikin, P. M. (2013). Living crystals of light-activated colloidal surfers. <i>Science</i>. American Association for the Advancement of Science . <a href=\"https://doi.org/10.1126/science.1230020\">https://doi.org/10.1126/science.1230020</a>","ieee":"J. A. Palacci, S. Sacanna, A. P. Steinberg, D. J. Pine, and P. M. Chaikin, “Living crystals of light-activated colloidal surfers,” <i>Science</i>, vol. 339, no. 6122. American Association for the Advancement of Science , pp. 936–940, 2013.","chicago":"Palacci, Jérémie A, S. Sacanna, A. P. Steinberg, D. J. Pine, and P. M. Chaikin. “Living Crystals of Light-Activated Colloidal Surfers.” <i>Science</i>. American Association for the Advancement of Science , 2013. <a href=\"https://doi.org/10.1126/science.1230020\">https://doi.org/10.1126/science.1230020</a>.","short":"J.A. Palacci, S. Sacanna, A.P. Steinberg, D.J. Pine, P.M. Chaikin, Science 339 (2013) 936–940.","mla":"Palacci, Jérémie A., et al. “Living Crystals of Light-Activated Colloidal Surfers.” <i>Science</i>, vol. 339, no. 6122, American Association for the Advancement of Science , 2013, pp. 936–40, doi:<a href=\"https://doi.org/10.1126/science.1230020\">10.1126/science.1230020</a>."},"day":"22","intvolume":"       339","issue":"6122","external_id":{"pmid":["23371555"]},"date_updated":"2022-08-25T14:57:43Z","abstract":[{"text":"Spontaneous formation of colonies of bacteria or flocks of birds are examples of self-organization in active living matter. Here, we demonstrate a form of self-organization from nonequilibrium driving forces in a suspension of synthetic photoactivated colloidal particles. They lead to two-dimensional \"living crystals,\" which form, break, explode, and re-form elsewhere. The dynamic assembly results from a competition between self-propulsion of particles and an attractive interaction induced respectively by osmotic and phoretic effects and activated by light. We measured a transition from normal to giant-number fluctuations. Our experiments are quantitatively described by simple numerical simulations. We show that the existence of the living crystals is intrinsically related to the out-of-equilibrium collisions of the self-propelled particles.","lang":"eng"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","keyword":["Multidisciplinary"],"fulldoi":"https://doi.org/10.1126/science.1230020","article_type":"original","date_published":"2013-02-22T00:00:00Z","publication_status":"published","language":[{"iso":"eng"}],"volume":339,"page":"936-940","month":"02","article_processing_charge":"No","date_created":"2021-02-01T14:37:29Z","quality_controlled":"1","scopus_import":"1","author":[{"orcid":"0000-0002-7253-9465","first_name":"Jérémie A","last_name":"Palacci","id":"8fb92548-2b22-11eb-b7c1-a3f0d08d7c7d","full_name":"Palacci, Jérémie A"},{"first_name":"S.","last_name":"Sacanna","full_name":"Sacanna, S."},{"full_name":"Steinberg, A. P.","last_name":"Steinberg","first_name":"A. P."},{"first_name":"D. J.","last_name":"Pine","full_name":"Pine, D. J."},{"first_name":"P. M.","last_name":"Chaikin","full_name":"Chaikin, P. M."}],"publication":"Science","type":"journal_article","doi":"10.1126/science.1230020","title":"Living crystals of light-activated colloidal surfers","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"pmid":1,"extern":"1"},{"month":"05","publication_status":"published","volume":110,"department":[{"_id":"DaZi"}],"language":[{"iso":"eng"}],"page":"7934-7939","quality_controlled":"1","article_processing_charge":"No","date_created":"2021-06-07T07:31:02Z","author":[{"first_name":"Jessica A.","full_name":"Rodrigues, Jessica A.","last_name":"Rodrigues"},{"full_name":"Ruan, Randy","last_name":"Ruan","first_name":"Randy"},{"full_name":"Nishimura, Toshiro","last_name":"Nishimura","first_name":"Toshiro"},{"full_name":"Sharma, Manoj K.","last_name":"Sharma","first_name":"Manoj K."},{"first_name":"Rita","full_name":"Sharma, Rita","last_name":"Sharma"},{"first_name":"Pamela C","full_name":"Ronald, Pamela C","last_name":"Ronald"},{"first_name":"Robert L.","last_name":"Fischer","full_name":"Fischer, Robert L."},{"first_name":"Daniel","orcid":"0000-0002-0123-8649","last_name":"Zilberman","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","full_name":"Zilberman, Daniel"}],"publication":"Proceedings of the National Academy of Sciences","scopus_import":"1","extern":"1","type":"journal_article","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1306164110"}],"doi":"10.1073/pnas.1306164110","oa":1,"title":"Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"pmid":1,"publisher":"National Academy of Sciences","citation":{"ieee":"J. A. Rodrigues <i>et al.</i>, “Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm,” <i>Proceedings of the National Academy of Sciences</i>, vol. 110, no. 19. National Academy of Sciences, pp. 7934–7939, 2013.","apa":"Rodrigues, J. A., Ruan, R., Nishimura, T., Sharma, M. K., Sharma, R., Ronald, P. C., … Zilberman, D. (2013). Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1306164110\">https://doi.org/10.1073/pnas.1306164110</a>","ista":"Rodrigues JA, Ruan R, Nishimura T, Sharma MK, Sharma R, Ronald PC, Fischer RL, Zilberman D. 2013. Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm. Proceedings of the National Academy of Sciences. 110(19), 7934–7939.","ama":"Rodrigues JA, Ruan R, Nishimura T, et al. Imprinted expression of genes and small RNA is associated with localized hypomethylation of the maternal genome in rice endosperm. <i>Proceedings of the National Academy of Sciences</i>. 2013;110(19):7934-7939. doi:<a href=\"https://doi.org/10.1073/pnas.1306164110\">10.1073/pnas.1306164110</a>","mla":"Rodrigues, Jessica A., et al. “Imprinted Expression of Genes and Small RNA Is Associated with Localized Hypomethylation of the Maternal Genome in Rice Endosperm.” <i>Proceedings of the National Academy of Sciences</i>, vol. 110, no. 19, National Academy of Sciences, 2013, pp. 7934–39, doi:<a href=\"https://doi.org/10.1073/pnas.1306164110\">10.1073/pnas.1306164110</a>.","short":"J.A. Rodrigues, R. Ruan, T. Nishimura, M.K. Sharma, R. Sharma, P.C. Ronald, R.L. Fischer, D. Zilberman, Proceedings of the National Academy of Sciences 110 (2013) 7934–7939.","chicago":"Rodrigues, Jessica A., Randy Ruan, Toshiro Nishimura, Manoj K. Sharma, Rita Sharma, Pamela C Ronald, Robert L. Fischer, and Daniel Zilberman. “Imprinted Expression of Genes and Small RNA Is Associated with Localized Hypomethylation of the Maternal Genome in Rice Endosperm.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2013. <a href=\"https://doi.org/10.1073/pnas.1306164110\">https://doi.org/10.1073/pnas.1306164110</a>."},"year":"2013","day":"07","oa_version":"Published Version","status":"public","_id":"9481","intvolume":"       110","issue":"19","external_id":{"pmid":["23613580"]},"abstract":[{"lang":"eng","text":"Arabidopsis thaliana endosperm, a transient tissue that nourishes the embryo, exhibits extensive localized DNA demethylation on maternally inherited chromosomes. Demethylation mediates parent-of-origin–specific (imprinted) gene expression but is apparently unnecessary for the extensive accumulation of maternally biased small RNA (sRNA) molecules detected in seeds. Endosperm DNA in the distantly related monocots rice and maize is likewise locally hypomethylated, but whether this hypomethylation is generally parent-of-origin specific is unknown. Imprinted expression of sRNA also remains uninvestigated in monocot seeds. Here, we report high-coverage sequencing of the Kitaake rice cultivar that enabled us to show that localized hypomethylation in rice endosperm occurs solely on the maternal genome, preferring regions of high DNA accessibility. Maternally expressed imprinted genes are enriched for hypomethylation at putative promoter regions and transcriptional termini and paternally expressed genes at promoters and gene bodies, mirroring our recent results in A. thaliana. However, unlike in A. thaliana, rice endosperm sRNA populations are dominated by specific strong sRNA-producing loci, and imprinted 24-nt sRNAs are expressed from both parental genomes and correlate with hypomethylation. Overlaps between imprinted sRNA loci and imprinted genes expressed from opposite alleles suggest that sRNAs may regulate genomic imprinting. Whereas sRNAs in seedling tissues primarily originate from small class II (cut-and-paste) transposable elements, those in endosperm are more uniformly derived, including sequences from other transposon classes, as well as genic and intergenic regions. Our data indicate that the endosperm exhibits a unique pattern of sRNA expression and suggest that localized hypomethylation of maternal endosperm DNA is conserved in flowering plants."}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_updated":"2021-12-14T08:26:44Z","keyword":["Multidisciplinary"],"fulldoi":"https://doi.org/10.1073/pnas.1306164110","article_type":"original","date_published":"2013-05-07T00:00:00Z"},{"extern":"1","doi":"10.1126/science.1224839","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4034762/"}],"type":"journal_article","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"pmid":1,"oa":1,"title":"Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes","author":[{"first_name":"Christian A.","last_name":"Ibarra","full_name":"Ibarra, Christian A."},{"full_name":"Feng, Xiaoqi","last_name":"Feng","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","first_name":"Xiaoqi","orcid":"0000-0002-4008-1234"},{"first_name":"Vera K.","last_name":"Schoft","full_name":"Schoft, Vera K."},{"first_name":"Tzung-Fu","full_name":"Hsieh, Tzung-Fu","last_name":"Hsieh"},{"last_name":"Uzawa","full_name":"Uzawa, Rie","first_name":"Rie"},{"first_name":"Jessica A.","last_name":"Rodrigues","full_name":"Rodrigues, Jessica A."},{"first_name":"Assaf","last_name":"Zemach","full_name":"Zemach, Assaf"},{"full_name":"Chumak, Nina","last_name":"Chumak","first_name":"Nina"},{"full_name":"Machlicova, Adriana","last_name":"Machlicova","first_name":"Adriana"},{"first_name":"Toshiro","full_name":"Nishimura, Toshiro","last_name":"Nishimura"},{"first_name":"Denisse","last_name":"Rojas","full_name":"Rojas, Denisse"},{"full_name":"Fischer, Robert L.","last_name":"Fischer","first_name":"Robert L."},{"first_name":"Hisashi","last_name":"Tamaru","full_name":"Tamaru, Hisashi"},{"orcid":"0000-0002-0123-8649","first_name":"Daniel","full_name":"Zilberman, Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman"}],"publication":"Science","scopus_import":"1","quality_controlled":"1","date_created":"2023-01-16T09:21:24Z","article_processing_charge":"No","month":"09","language":[{"iso":"eng"}],"department":[{"_id":"XiFe"}],"volume":337,"publication_status":"published","page":"1360-1364","fulldoi":"https://doi.org/10.1126/science.1224839","article_type":"original","keyword":["Multidisciplinary"],"date_published":"2012-09-14T00:00:00Z","abstract":[{"lang":"eng","text":"The Arabidopsis thaliana central cell, the companion cell of the egg, undergoes DNA demethylation before fertilization, but the targeting preferences, mechanism, and biological significance of this process remain unclear. Here, we show that active DNA demethylation mediated by the DEMETER DNA glycosylase accounts for all of the demethylation in the central cell and preferentially targets small, AT-rich, and nucleosome-depleted euchromatic transposable elements. The vegetative cell, the companion cell of sperm, also undergoes DEMETER-dependent demethylation of similar sequences, and lack of DEMETER in vegetative cells causes reduced small RNA–directed DNA methylation of transposons in sperm. Our results demonstrate that demethylation in companion cells reinforces transposon methylation in plant gametes and likely contributes to stable silencing of transposable elements across generations."}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_updated":"2025-01-14T12:37:28Z","intvolume":"       337","external_id":{"pmid":["22984074"]},"issue":"6100","year":"2012","citation":{"short":"C.A. Ibarra, X. Feng, V.K. Schoft, T.-F. Hsieh, R. Uzawa, J.A. Rodrigues, A. Zemach, N. Chumak, A. Machlicova, T. Nishimura, D. Rojas, R.L. Fischer, H. Tamaru, D. Zilberman, Science 337 (2012) 1360–1364.","mla":"Ibarra, Christian A., et al. “Active DNA Demethylation in Plant Companion Cells Reinforces Transposon Methylation in Gametes.” <i>Science</i>, vol. 337, no. 6100, American Association for the Advancement of Science, 2012, pp. 1360–64, doi:<a href=\"https://doi.org/10.1126/science.1224839\">10.1126/science.1224839</a>.","chicago":"Ibarra, Christian A., Xiaoqi Feng, Vera K. Schoft, Tzung-Fu Hsieh, Rie Uzawa, Jessica A. Rodrigues, Assaf Zemach, et al. “Active DNA Demethylation in Plant Companion Cells Reinforces Transposon Methylation in Gametes.” <i>Science</i>. American Association for the Advancement of Science, 2012. <a href=\"https://doi.org/10.1126/science.1224839\">https://doi.org/10.1126/science.1224839</a>.","apa":"Ibarra, C. A., Feng, X., Schoft, V. K., Hsieh, T.-F., Uzawa, R., Rodrigues, J. A., … Zilberman, D. (2012). Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1224839\">https://doi.org/10.1126/science.1224839</a>","ieee":"C. A. Ibarra <i>et al.</i>, “Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes,” <i>Science</i>, vol. 337, no. 6100. American Association for the Advancement of Science, pp. 1360–1364, 2012.","ama":"Ibarra CA, Feng X, Schoft VK, et al. Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes. <i>Science</i>. 2012;337(6100):1360-1364. doi:<a href=\"https://doi.org/10.1126/science.1224839\">10.1126/science.1224839</a>","ista":"Ibarra CA, Feng X, Schoft VK, Hsieh T-F, Uzawa R, Rodrigues JA, Zemach A, Chumak N, Machlicova A, Nishimura T, Rojas D, Fischer RL, Tamaru H, Zilberman D. 2012. Active DNA demethylation in plant companion cells reinforces transposon methylation in gametes. Science. 337(6100), 1360–1364."},"acknowledgement":"We thank S. Harmer for assistance with the analysis of histone modifications, the BioOptics team at the Vienna Biocenter Campus for sorting sperm and vegetative cell nuclei, K. Slotkin for the LAT52p-amiRNA=GFP plasmid, and G. Drews for the DD45p-GFP transgenic line. This work was partially funded by an NIH grant (GM69415) to R.L.F., NSF grants (MCB-0918821 and IOS-1025890) to R.L.F. and D.Z., a Young Investigator Grant from the Arnold and Mabel Beckman Foundation to D.Z., an Austrian Science Fund (FWF) grant P21389-B03 to H.T., a Ruth L. Kirschstein NIH Predoctoral Fellowship (GM093633) to C.A.I., a Fulbright Scholarship to J.A.R., a fellowship from the Jane Coffin Childs Memorial Fund to A.Z., and a Robert and Colleen Haas Scholarship to D.R. Sequencing data are deposited in GEO (GSE38935).","publisher":"American Association for the Advancement of Science","day":"14","oa_version":"Published Version","status":"public","_id":"12198"},{"external_id":{"pmid":["21325613"]},"issue":"10","intvolume":"       108","day":"12","year":"2011","citation":{"apa":"Bachmann, A., Wildemann, D., Praetorius, F. M., Fischer, G., &#38; Kiefhaber, T. (2011). Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction. <i>PNAS</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1012668108\">https://doi.org/10.1073/pnas.1012668108</a>","ieee":"A. Bachmann, D. Wildemann, F. M. Praetorius, G. Fischer, and T. Kiefhaber, “Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction,” <i>PNAS</i>, vol. 108, no. 10. Proceedings of the National Academy of Sciences, pp. 3952–3957, 2011.","ama":"Bachmann A, Wildemann D, Praetorius FM, Fischer G, Kiefhaber T. Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction. <i>PNAS</i>. 2011;108(10):3952-3957. doi:<a href=\"https://doi.org/10.1073/pnas.1012668108\">10.1073/pnas.1012668108</a>","ista":"Bachmann A, Wildemann D, Praetorius FM, Fischer G, Kiefhaber T. 2011. Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction. PNAS. 108(10), 3952–3957.","short":"A. Bachmann, D. Wildemann, F.M. Praetorius, G. Fischer, T. Kiefhaber, PNAS 108 (2011) 3952–3957.","mla":"Bachmann, Annett, et al. “Mapping Backbone and Side-Chain Interactions in the Transition State of a Coupled Protein Folding and Binding Reaction.” <i>PNAS</i>, vol. 108, no. 10, Proceedings of the National Academy of Sciences, 2011, pp. 3952–57, doi:<a href=\"https://doi.org/10.1073/pnas.1012668108\">10.1073/pnas.1012668108</a>.","chicago":"Bachmann, Annett, Dirk Wildemann, Florian M Praetorius, Gunter Fischer, and Thomas Kiefhaber. “Mapping Backbone and Side-Chain Interactions in the Transition State of a Coupled Protein Folding and Binding Reaction.” <i>PNAS</i>. Proceedings of the National Academy of Sciences, 2011. <a href=\"https://doi.org/10.1073/pnas.1012668108\">https://doi.org/10.1073/pnas.1012668108</a>."},"publisher":"Proceedings of the National Academy of Sciences","_id":"14305","status":"public","oa_version":"Published Version","date_published":"2011-01-12T00:00:00Z","article_type":"original","fulldoi":"https://doi.org/10.1073/pnas.1012668108","keyword":["Multidisciplinary"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Understanding the mechanism of protein folding requires a detailed knowledge of the structural properties of the barriers separating unfolded from native conformations. The S-peptide from ribonuclease S forms its α-helical structure only upon binding to the folded S-protein. We characterized the transition state for this binding-induced folding reaction at high resolution by determining the effect of site-specific backbone thioxylation and side-chain modifications on the kinetics and thermodynamics of the reaction, which allows us to monitor formation of backbone hydrogen bonds and side-chain interactions in the transition state. The experiments reveal that α-helical structure in the S-peptide is absent in the transition state of binding. Recognition between the unfolded S-peptide and the S-protein is mediated by loosely packed hydrophobic side-chain interactions in two well defined regions on the S-peptide. Close packing and helix formation occurs rapidly after binding. Introducing hydrophobic residues at positions outside the recognition region can drastically slow down association."}],"date_updated":"2023-11-07T11:50:29Z","quality_controlled":"1","date_created":"2023-09-06T12:54:36Z","article_processing_charge":"No","month":"01","page":"3952-3957","language":[{"iso":"eng"}],"volume":108,"publication_status":"published","extern":"1","pmid":1,"publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"title":"Mapping backbone and side-chain interactions in the transition state of a coupled protein folding and binding reaction","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.1012668108"}],"doi":"10.1073/pnas.1012668108","type":"journal_article","publication":"PNAS","author":[{"last_name":"Bachmann","full_name":"Bachmann, Annett","first_name":"Annett"},{"first_name":"Dirk","last_name":"Wildemann","full_name":"Wildemann, Dirk"},{"first_name":"Florian M","id":"dfec9381-4341-11ee-8fd8-faa02bba7d62","last_name":"Praetorius","full_name":"Praetorius, Florian M"},{"first_name":"Gunter","last_name":"Fischer","full_name":"Fischer, Gunter"},{"last_name":"Kiefhaber","full_name":"Kiefhaber, Thomas","first_name":"Thomas"}],"scopus_import":"1"},{"status":"public","_id":"9452","oa_version":"None","day":"14","year":"2010","citation":{"ieee":"A. Zemach, I. E. McDaniel, P. Silva, and D. Zilberman, “Genome-wide evolutionary analysis of eukaryotic DNA methylation,” <i>Science</i>, vol. 328, no. 5980. American Association for the Advancement of Science, pp. 916–919, 2010.","apa":"Zemach, A., McDaniel, I. E., Silva, P., &#38; Zilberman, D. (2010). Genome-wide evolutionary analysis of eukaryotic DNA methylation. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1186366\">https://doi.org/10.1126/science.1186366</a>","ama":"Zemach A, McDaniel IE, Silva P, Zilberman D. Genome-wide evolutionary analysis of eukaryotic DNA methylation. <i>Science</i>. 2010;328(5980):916-919. doi:<a href=\"https://doi.org/10.1126/science.1186366\">10.1126/science.1186366</a>","ista":"Zemach A, McDaniel IE, Silva P, Zilberman D. 2010. Genome-wide evolutionary analysis of eukaryotic DNA methylation. Science. 328(5980), 916–919.","mla":"Zemach, Assaf, et al. “Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation.” <i>Science</i>, vol. 328, no. 5980, American Association for the Advancement of Science, 2010, pp. 916–19, doi:<a href=\"https://doi.org/10.1126/science.1186366\">10.1126/science.1186366</a>.","short":"A. Zemach, I.E. McDaniel, P. Silva, D. Zilberman, Science 328 (2010) 916–919.","chicago":"Zemach, Assaf , Ivy E. McDaniel, Pedro Silva, and Daniel Zilberman. “Genome-Wide Evolutionary Analysis of Eukaryotic DNA Methylation.” <i>Science</i>. American Association for the Advancement of Science, 2010. <a href=\"https://doi.org/10.1126/science.1186366\">https://doi.org/10.1126/science.1186366</a>."},"publisher":"American Association for the Advancement of Science","external_id":{"pmid":["20395474 "]},"issue":"5980","intvolume":"       328","date_updated":"2021-12-14T08:35:37Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","abstract":[{"lang":"eng","text":"Eukaryotic cytosine methylation represses transcription but also occurs in the bodies of active genes, and the extent of methylation biology conservation is unclear. We quantified DNA methylation in 17 eukaryotic genomes and found that gene body methylation is conserved between plants and animals, whereas selective methylation of transposons is not. We show that methylation of plant transposons in the CHG context extends to green algae and that exclusion of histone H2A.Z from methylated DNA is conserved between plants and animals, and we present evidence for RNA-directed DNA methylation of fungal genes. Our data demonstrate that extant DNA methylation systems are mosaics of conserved and derived features, and indicate that gene body methylation is an ancient property of eukaryotic genomes."}],"date_published":"2010-05-14T00:00:00Z","article_type":"original","fulldoi":"https://doi.org/10.1126/science.1186366","keyword":["Multidisciplinary"],"page":"916-919","language":[{"iso":"eng"}],"department":[{"_id":"DaZi"}],"volume":328,"publication_status":"published","month":"05","date_created":"2021-06-04T08:26:08Z","article_processing_charge":"No","quality_controlled":"1","scopus_import":"1","publication":"Science","author":[{"full_name":"Zemach, Assaf ","last_name":"Zemach","first_name":"Assaf "},{"last_name":"McDaniel","full_name":"McDaniel, Ivy E.","first_name":"Ivy E."},{"last_name":"Silva","full_name":"Silva, Pedro","first_name":"Pedro"},{"orcid":"0000-0002-0123-8649","first_name":"Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","full_name":"Zilberman, Daniel"}],"pmid":1,"publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"title":"Genome-wide evolutionary analysis of eukaryotic DNA methylation","doi":"10.1126/science.1186366","type":"journal_article","extern":"1"},{"issue":"7253","external_id":{"pmid":["19606145"]},"intvolume":"       460","day":"16","publisher":"Springer Nature","year":"2009","citation":{"ama":"Nakanishi H, Bishop KJM, Kowalczyk B, et al. Photoconductance and inverse photoconductance in films of functionalized metal nanoparticles. <i>Nature</i>. 2009;460(7253):371-375. doi:<a href=\"https://doi.org/10.1038/nature08131\">10.1038/nature08131</a>","ista":"Nakanishi H, Bishop KJM, Kowalczyk B, Nitzan A, Weiss EA, Tretiakov KV, Apodaca MM, Klajn R, Stoddart JF, Grzybowski BA. 2009. Photoconductance and inverse photoconductance in films of functionalized metal nanoparticles. Nature. 460(7253), 371–375.","ieee":"H. Nakanishi <i>et al.</i>, “Photoconductance and inverse photoconductance in films of functionalized metal nanoparticles,” <i>Nature</i>, vol. 460, no. 7253. Springer Nature, pp. 371–375, 2009.","apa":"Nakanishi, H., Bishop, K. J. M., Kowalczyk, B., Nitzan, A., Weiss, E. A., Tretiakov, K. V., … Grzybowski, B. A. (2009). Photoconductance and inverse photoconductance in films of functionalized metal nanoparticles. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nature08131\">https://doi.org/10.1038/nature08131</a>","chicago":"Nakanishi, Hideyuki, Kyle J. M. Bishop, Bartlomiej Kowalczyk, Abraham Nitzan, Emily A. Weiss, Konstantin V. Tretiakov, Mario M. Apodaca, Rafal Klajn, J. Fraser Stoddart, and Bartosz A. Grzybowski. “Photoconductance and Inverse Photoconductance in Films of Functionalized Metal Nanoparticles.” <i>Nature</i>. Springer Nature, 2009. <a href=\"https://doi.org/10.1038/nature08131\">https://doi.org/10.1038/nature08131</a>.","mla":"Nakanishi, Hideyuki, et al. “Photoconductance and Inverse Photoconductance in Films of Functionalized Metal Nanoparticles.” <i>Nature</i>, vol. 460, no. 7253, Springer Nature, 2009, pp. 371–75, doi:<a href=\"https://doi.org/10.1038/nature08131\">10.1038/nature08131</a>.","short":"H. Nakanishi, K.J.M. Bishop, B. Kowalczyk, A. Nitzan, E.A. Weiss, K.V. Tretiakov, M.M. Apodaca, R. Klajn, J.F. Stoddart, B.A. Grzybowski, Nature 460 (2009) 371–375."},"status":"public","_id":"13418","oa_version":"None","date_published":"2009-07-16T00:00:00Z","keyword":["Multidisciplinary"],"article_type":"original","fulldoi":"https://doi.org/10.1038/nature08131","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"In traditional photoconductors1,2,3, the impinging light generates mobile charge carriers in the valence and/or conduction bands, causing the material’s conductivity to increase4. Such positive photoconductance is observed in both bulk and nanostructured5,6 photoconductors. Here we describe a class of nanoparticle-based materials whose conductivity can either increase or decrease on irradiation with visible light of wavelengths close to the particles’ surface plasmon resonance. The remarkable feature of these plasmonic materials is that the sign of the conductivity change and the nature of the electron transport between the nanoparticles depend on the molecules comprising the self-assembled monolayers (SAMs)7,8 stabilizing the nanoparticles. For SAMs made of electrically neutral (polar and non-polar) molecules, conductivity increases on irradiation. If, however, the SAMs contain electrically charged (either negatively or positively) groups, conductivity decreases. The optical and electrical characteristics of these previously undescribed inverse photoconductors can be engineered flexibly by adjusting the material properties of the nanoparticles and of the coating SAMs. In particular, in films comprising mixtures of different nanoparticles or nanoparticles coated with mixed SAMs, the overall photoconductance is a weighted average of the changes induced by the individual components. These and other observations can be rationalized in terms of light-induced creation of mobile charge carriers whose transport through the charged SAMs is inhibited by carrier trapping in transient polaron-like states9,10. The nanoparticle-based photoconductors we describe could have uses in chemical sensors and/or in conjunction with flexible substrates."}],"date_updated":"2023-08-08T09:00:59Z","quality_controlled":"1","article_processing_charge":"No","date_created":"2023-08-01T10:29:50Z","month":"07","page":"371-375","publication_status":"published","language":[{"iso":"eng"}],"volume":460,"extern":"1","title":"Photoconductance and inverse photoconductance in films of functionalized metal nanoparticles","publication_identifier":{"eissn":["1476-4687"],"issn":["0028-0836"]},"pmid":1,"type":"journal_article","doi":"10.1038/nature08131","publication":"Nature","author":[{"last_name":"Nakanishi","full_name":"Nakanishi, Hideyuki","first_name":"Hideyuki"},{"first_name":"Kyle J. M.","full_name":"Bishop, Kyle J. M.","last_name":"Bishop"},{"last_name":"Kowalczyk","full_name":"Kowalczyk, Bartlomiej","first_name":"Bartlomiej"},{"first_name":"Abraham","last_name":"Nitzan","full_name":"Nitzan, Abraham"},{"first_name":"Emily A.","last_name":"Weiss","full_name":"Weiss, Emily A."},{"last_name":"Tretiakov","full_name":"Tretiakov, Konstantin V.","first_name":"Konstantin V."},{"last_name":"Apodaca","full_name":"Apodaca, Mario M.","first_name":"Mario M."},{"first_name":"Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","full_name":"Klajn, Rafal"},{"full_name":"Stoddart, J. Fraser","last_name":"Stoddart","first_name":"J. Fraser"},{"first_name":"Bartosz A.","last_name":"Grzybowski","full_name":"Grzybowski, Bartosz A."}],"scopus_import":"1"},{"fulldoi":"https://doi.org/10.1126/science.1172417","article_type":"original","keyword":["Multidisciplinary"],"date_published":"2009-06-12T00:00:00Z","date_updated":"2021-12-14T08:53:26Z","abstract":[{"text":"Parent-of-origin-specific (imprinted) gene expression is regulated in Arabidopsis thaliana endosperm by cytosine demethylation of the maternal genome mediated by the DNA glycosylase DEMETER, but the extent of the methylation changes is not known. Here, we show that virtually the entire endosperm genome is demethylated, coupled with extensive local non-CG hypermethylation of small interfering RNA–targeted sequences. Mutation of DEMETER partially restores endosperm CG methylation to levels found in other tissues, indicating that CG demethylation is specific to maternal sequences. Endosperm demethylation is accompanied by CHH hypermethylation of embryo transposable elements. Our findings demonstrate extensive reconfiguration of the endosperm methylation landscape that likely reinforces transposon silencing in the embryo.","lang":"eng"}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","intvolume":"       324","external_id":{"pmid":["19520962"]},"issue":"5933","oa_version":"Submitted Version","_id":"9453","status":"public","citation":{"ieee":"T.-F. Hsieh <i>et al.</i>, “Genome-wide demethylation of Arabidopsis endosperm,” <i>Science</i>, vol. 324, no. 5933. American Association for the Advancement of Science, pp. 1451–1454, 2009.","apa":"Hsieh, T.-F., Ibarra, C. A., Silva, P., Zemach, A., Eshed-Williams, L., Fischer, R. L., &#38; Zilberman, D. (2009). Genome-wide demethylation of Arabidopsis endosperm. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1172417\">https://doi.org/10.1126/science.1172417</a>","ista":"Hsieh T-F, Ibarra CA, Silva P, Zemach A, Eshed-Williams L, Fischer RL, Zilberman D. 2009. Genome-wide demethylation of Arabidopsis endosperm. Science. 324(5933), 1451–1454.","ama":"Hsieh T-F, Ibarra CA, Silva P, et al. Genome-wide demethylation of Arabidopsis endosperm. <i>Science</i>. 2009;324(5933):1451-1454. doi:<a href=\"https://doi.org/10.1126/science.1172417\">10.1126/science.1172417</a>","mla":"Hsieh, Tzung-Fu, et al. “Genome-Wide Demethylation of Arabidopsis Endosperm.” <i>Science</i>, vol. 324, no. 5933, American Association for the Advancement of Science, 2009, pp. 1451–54, doi:<a href=\"https://doi.org/10.1126/science.1172417\">10.1126/science.1172417</a>.","short":"T.-F. Hsieh, C.A. Ibarra, P. Silva, A. Zemach, L. Eshed-Williams, R.L. Fischer, D. Zilberman, Science 324 (2009) 1451–1454.","chicago":"Hsieh, Tzung-Fu, Christian A. Ibarra, Pedro Silva, Assaf Zemach, Leor Eshed-Williams, Robert L. Fischer, and Daniel Zilberman. “Genome-Wide Demethylation of Arabidopsis Endosperm.” <i>Science</i>. American Association for the Advancement of Science, 2009. <a href=\"https://doi.org/10.1126/science.1172417\">https://doi.org/10.1126/science.1172417</a>."},"year":"2009","publisher":"American Association for the Advancement of Science","day":"12","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4044190/"}],"doi":"10.1126/science.1172417","type":"journal_article","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"pmid":1,"title":"Genome-wide demethylation of Arabidopsis endosperm","oa":1,"extern":"1","scopus_import":"1","author":[{"first_name":"Tzung-Fu","last_name":"Hsieh","full_name":"Hsieh, Tzung-Fu"},{"last_name":"Ibarra","full_name":"Ibarra, Christian A.","first_name":"Christian A."},{"first_name":"Pedro","last_name":"Silva","full_name":"Silva, Pedro"},{"first_name":"Assaf","last_name":"Zemach","full_name":"Zemach, Assaf"},{"first_name":"Leor","full_name":"Eshed-Williams, Leor","last_name":"Eshed-Williams"},{"first_name":"Robert L.","full_name":"Fischer, Robert L.","last_name":"Fischer"},{"id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","full_name":"Zilberman, Daniel","orcid":"0000-0002-0123-8649","first_name":"Daniel"}],"publication":"Science","date_created":"2021-06-04T08:55:41Z","article_processing_charge":"No","quality_controlled":"1","volume":324,"department":[{"_id":"DaZi"}],"language":[{"iso":"eng"}],"publication_status":"published","page":"1451-1454","month":"06"},{"publication":"PLoS ONE","author":[{"first_name":"Roberta","last_name":"Schulte","full_name":"Schulte, Roberta"},{"last_name":"Talamas","full_name":"Talamas, Jessica","first_name":"Jessica"},{"full_name":"Doucet, Christine","last_name":"Doucet","first_name":"Christine"},{"first_name":"Martin W","orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER"}],"scopus_import":"1","article_number":"e2061","extern":"1","title":"Single bead affinity detection (SINBAD) for the analysis of protein-protein interactions","oa":1,"publication_identifier":{"issn":["1932-6203"]},"pmid":1,"type":"journal_article","main_file_link":[{"url":" https://doi.org/10.1371/journal.pone.0002061","open_access":"1"}],"doi":"10.1371/journal.pone.0002061","month":"04","publication_status":"published","language":[{"iso":"eng"}],"volume":3,"quality_controlled":"1","article_processing_charge":"No","date_created":"2022-04-07T07:55:57Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"We present a miniaturized pull-down method for the detection of protein-protein interactions using standard affinity chromatography reagents. Binding events between different proteins, which are color-coded with quantum dots (QDs), are visualized on single affinity chromatography beads by fluorescence microscopy. The use of QDs for single molecule detection allows the simultaneous analysis of multiple protein-protein binding events and reduces the amount of time and material needed to perform a pull-down experiment."}],"date_updated":"2024-10-14T11:29:56Z","date_published":"2008-04-30T00:00:00Z","keyword":["Multidisciplinary"],"fulldoi":"https://doi.org/10.1371/journal.pone.0002061","article_type":"original","day":"30","publisher":"Public Library of Science","year":"2008","citation":{"chicago":"Schulte, Roberta, Jessica Talamas, Christine Doucet, and Martin Hetzer. “Single Bead Affinity Detection (SINBAD) for the Analysis of Protein-Protein Interactions.” <i>PLoS ONE</i>. Public Library of Science, 2008. <a href=\"https://doi.org/10.1371/journal.pone.0002061\">https://doi.org/10.1371/journal.pone.0002061</a>.","short":"R. Schulte, J. Talamas, C. Doucet, M. Hetzer, PLoS ONE 3 (2008).","mla":"Schulte, Roberta, et al. “Single Bead Affinity Detection (SINBAD) for the Analysis of Protein-Protein Interactions.” <i>PLoS ONE</i>, vol. 3, no. 4, e2061, Public Library of Science, 2008, doi:<a href=\"https://doi.org/10.1371/journal.pone.0002061\">10.1371/journal.pone.0002061</a>.","ama":"Schulte R, Talamas J, Doucet C, Hetzer M. Single bead affinity detection (SINBAD) for the analysis of protein-protein interactions. <i>PLoS ONE</i>. 2008;3(4). doi:<a href=\"https://doi.org/10.1371/journal.pone.0002061\">10.1371/journal.pone.0002061</a>","ista":"Schulte R, Talamas J, Doucet C, Hetzer M. 2008. Single bead affinity detection (SINBAD) for the analysis of protein-protein interactions. PLoS ONE. 3(4), e2061.","ieee":"R. Schulte, J. Talamas, C. Doucet, and M. Hetzer, “Single bead affinity detection (SINBAD) for the analysis of protein-protein interactions,” <i>PLoS ONE</i>, vol. 3, no. 4. Public Library of Science, 2008.","apa":"Schulte, R., Talamas, J., Doucet, C., &#38; Hetzer, M. (2008). Single bead affinity detection (SINBAD) for the analysis of protein-protein interactions. <i>PLoS ONE</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0002061\">https://doi.org/10.1371/journal.pone.0002061</a>"},"_id":"11114","status":"public","oa_version":"Published Version","issue":"4","external_id":{"pmid":["18446240"]},"intvolume":"         3"},{"date_updated":"2021-12-14T08:54:36Z","abstract":[{"lang":"eng","text":"Eukaryotic chromatin is separated into functional domains differentiated by posttranslational histone modifications, histone variants, and DNA methylation1–6. Methylation is associated with repression of transcriptional initiation in plants and animals, and is frequently found in transposable elements. Proper methylation patterns are critical for eukaryotic development4,5, and aberrant methylation-induced silencing of tumor suppressor genes is a common feature of human cancer7. In contrast to methylation, the histone variant H2A.Z is preferentially deposited by the Swr1 ATPase complex near 5′ ends of genes where it promotes transcriptional competence8–20. How DNA methylation and H2A.Z influence transcription remains largely unknown. Here we show that in the plant Arabidopsis thaliana, regions of DNA methylation are quantitatively deficient in H2A.Z. Exclusion of H2A.Z is seen at sites of DNA methylation in the bodies of actively transcribed genes and in methylated transposons. Mutation of the MET1 DNA methyltransferase, which causes both losses and gains of DNA methylation4,5, engenders opposite changes in H2A.Z deposition, while mutation of the PIE1 subunit of the Swr1 complex that deposits H2A.Z17 leads to genome-wide hypermethylation. Our findings indicate that DNA methylation can influence chromatin structure and effect gene silencing by excluding H2A.Z, and that H2A.Z protects genes from DNA methylation."}],"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","keyword":["Multidisciplinary"],"fulldoi":"https://doi.org/10.1038/nature07324","article_type":"letter_note","date_published":"2008-11-06T00:00:00Z","oa_version":"Submitted Version","status":"public","_id":"9457","publisher":"Springer Nature","year":"2008","citation":{"short":"D. Zilberman, D. Coleman-Derr, T. Ballinger, S. Henikoff, Nature 456 (2008) 125–129.","mla":"Zilberman, Daniel, et al. “Histone H2A.Z and DNA Methylation Are Mutually Antagonistic Chromatin Marks.” <i>Nature</i>, vol. 456, no. 7218, Springer Nature, 2008, pp. 125–29, doi:<a href=\"https://doi.org/10.1038/nature07324\">10.1038/nature07324</a>.","chicago":"Zilberman, Daniel, Devin Coleman-Derr, Tracy Ballinger, and Steven Henikoff. “Histone H2A.Z and DNA Methylation Are Mutually Antagonistic Chromatin Marks.” <i>Nature</i>. Springer Nature, 2008. <a href=\"https://doi.org/10.1038/nature07324\">https://doi.org/10.1038/nature07324</a>.","ieee":"D. Zilberman, D. Coleman-Derr, T. Ballinger, and S. Henikoff, “Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks,” <i>Nature</i>, vol. 456, no. 7218. Springer Nature, pp. 125–129, 2008.","apa":"Zilberman, D., Coleman-Derr, D., Ballinger, T., &#38; Henikoff, S. (2008). Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/nature07324\">https://doi.org/10.1038/nature07324</a>","ama":"Zilberman D, Coleman-Derr D, Ballinger T, Henikoff S. Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks. <i>Nature</i>. 2008;456(7218):125-129. doi:<a href=\"https://doi.org/10.1038/nature07324\">10.1038/nature07324</a>","ista":"Zilberman D, Coleman-Derr D, Ballinger T, Henikoff S. 2008. Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks. Nature. 456(7218), 125–129."},"day":"06","intvolume":"       456","issue":"7218","external_id":{"pmid":["18815594"]},"scopus_import":"1","author":[{"first_name":"Daniel","orcid":"0000-0002-0123-8649","last_name":"Zilberman","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","full_name":"Zilberman, Daniel"},{"first_name":"Devin","last_name":"Coleman-Derr","full_name":"Coleman-Derr, Devin"},{"full_name":"Ballinger, Tracy","last_name":"Ballinger","first_name":"Tracy"},{"first_name":"Steven","last_name":"Henikoff","full_name":"Henikoff, Steven"}],"publication":"Nature","type":"journal_article","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2877514/","open_access":"1"}],"doi":"10.1038/nature07324","title":"Histone H2A.Z and DNA methylation are mutually antagonistic chromatin marks","oa":1,"pmid":1,"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"extern":"1","publication_status":"published","language":[{"iso":"eng"}],"department":[{"_id":"DaZi"}],"volume":456,"page":"125-129","month":"11","article_processing_charge":"No","date_created":"2021-06-04T11:49:32Z","quality_controlled":"1"},{"page":"10305-10309","volume":104,"language":[{"iso":"eng"}],"publication_status":"published","month":"06","date_created":"2023-08-01T10:31:19Z","article_processing_charge":"No","quality_controlled":"1","scopus_import":"1","publication":"Proceedings of the National Academy of Sciences","author":[{"first_name":"Rafal","full_name":"Klajn, Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b"},{"full_name":"Bishop, Kyle J. M.","last_name":"Bishop","first_name":"Kyle J. M."},{"full_name":"Grzybowski, Bartosz A.","last_name":"Grzybowski","first_name":"Bartosz A."}],"pmid":1,"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"title":"Light-controlled self-assembly of reversible and irreversible nanoparticle suprastructures","oa":1,"doi":"10.1073/pnas.0611371104","main_file_link":[{"url":"https://doi.org/10.1073/pnas.0611371104","open_access":"1"}],"type":"journal_article","extern":"1","status":"public","_id":"13425","oa_version":"Published Version","day":"19","citation":{"mla":"Klajn, Rafal, et al. “Light-Controlled Self-Assembly of Reversible and Irreversible Nanoparticle Suprastructures.” <i>Proceedings of the National Academy of Sciences</i>, vol. 104, no. 25, Proceedings of the National Academy of Sciences, 2007, pp. 10305–09, doi:<a href=\"https://doi.org/10.1073/pnas.0611371104\">10.1073/pnas.0611371104</a>.","short":"R. Klajn, K.J.M. Bishop, B.A. Grzybowski, Proceedings of the National Academy of Sciences 104 (2007) 10305–10309.","chicago":"Klajn, Rafal, Kyle J. M. Bishop, and Bartosz A. Grzybowski. “Light-Controlled Self-Assembly of Reversible and Irreversible Nanoparticle Suprastructures.” <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences, 2007. <a href=\"https://doi.org/10.1073/pnas.0611371104\">https://doi.org/10.1073/pnas.0611371104</a>.","apa":"Klajn, R., Bishop, K. J. M., &#38; Grzybowski, B. A. (2007). Light-controlled self-assembly of reversible and irreversible nanoparticle suprastructures. <i>Proceedings of the National Academy of Sciences</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.0611371104\">https://doi.org/10.1073/pnas.0611371104</a>","ieee":"R. Klajn, K. J. M. Bishop, and B. A. Grzybowski, “Light-controlled self-assembly of reversible and irreversible nanoparticle suprastructures,” <i>Proceedings of the National Academy of Sciences</i>, vol. 104, no. 25. Proceedings of the National Academy of Sciences, pp. 10305–10309, 2007.","ama":"Klajn R, Bishop KJM, Grzybowski BA. Light-controlled self-assembly of reversible and irreversible nanoparticle suprastructures. <i>Proceedings of the National Academy of Sciences</i>. 2007;104(25):10305-10309. doi:<a href=\"https://doi.org/10.1073/pnas.0611371104\">10.1073/pnas.0611371104</a>","ista":"Klajn R, Bishop KJM, Grzybowski BA. 2007. Light-controlled self-assembly of reversible and irreversible nanoparticle suprastructures. Proceedings of the National Academy of Sciences. 104(25), 10305–10309."},"year":"2007","publisher":"Proceedings of the National Academy of Sciences","external_id":{"pmid":["17563381"]},"issue":"25","intvolume":"       104","date_updated":"2023-08-08T11:24:51Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Nanoparticles (NPs) decorated with ligands combining photoswitchable dipoles and covalent cross-linkers can be assembled by light into organized, three-dimensional suprastructures of various types and sizes. NPs covered with only few photoactive ligands form metastable crystals that can be assembled and disassembled “on demand” by using light of different wavelengths. For higher surface concentrations, self-assembly is irreversible, and the NPs organize into permanently cross-linked structures including robust supracrystals and plastic spherical aggregates.","lang":"eng"}],"date_published":"2007-06-19T00:00:00Z","article_type":"original","fulldoi":"https://doi.org/10.1073/pnas.0611371104","keyword":["Multidisciplinary"]},{"scopus_import":"1","author":[{"full_name":"Klajn, Rafal","last_name":"Klajn","id":"8e84690e-1e48-11ed-a02b-a1e6fb8bb53b","first_name":"Rafal"},{"last_name":"Bishop","full_name":"Bishop, Kyle J. M.","first_name":"Kyle J. M."},{"last_name":"Fialkowski","full_name":"Fialkowski, Marcin","first_name":"Marcin"},{"first_name":"Maciej","full_name":"Paszewski, Maciej","last_name":"Paszewski"},{"full_name":"Campbell, Christopher J.","last_name":"Campbell","first_name":"Christopher J."},{"first_name":"Timothy P.","full_name":"Gray, Timothy P.","last_name":"Gray"},{"first_name":"Bartosz A.","full_name":"Grzybowski, Bartosz A.","last_name":"Grzybowski"}],"publication":"Science","type":"journal_article","doi":"10.1126/science.1139131","title":"Plastic and moldable metals by self-assembly of sticky nanoparticle aggregates","pmid":1,"publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"extern":"1","publication_status":"published","volume":316,"language":[{"iso":"eng"}],"page":"261-264","month":"04","article_processing_charge":"No","date_created":"2023-08-01T10:36:08Z","quality_controlled":"1","date_updated":"2023-08-08T11:28:29Z","abstract":[{"text":"Deformable, spherical aggregates of metal nanoparticles connected by long-chain dithiol ligands self-assemble into nanostructured materials of macroscopic dimensions. These materials are plastic and moldable against arbitrarily shaped masters and can be thermally hardened into polycrystalline metal structures of controllable porosity. In addition, in both plastic and hardened states, the assemblies are electrically conductive and exhibit Ohmic characteristics down to ∼20 volts per meter. The self-assembly method leading to such materials is applicable both to pure metals and to bimetallic structures of various elemental compositions.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["Multidisciplinary"],"fulldoi":"https://doi.org/10.1126/science.1139131","article_type":"letter_note","date_published":"2007-04-13T00:00:00Z","oa_version":"None","status":"public","_id":"13427","publisher":"American Association for the Advancement of Science","citation":{"ama":"Klajn R, Bishop KJM, Fialkowski M, et al. Plastic and moldable metals by self-assembly of sticky nanoparticle aggregates. <i>Science</i>. 2007;316(5822):261-264. doi:<a href=\"https://doi.org/10.1126/science.1139131\">10.1126/science.1139131</a>","ista":"Klajn R, Bishop KJM, Fialkowski M, Paszewski M, Campbell CJ, Gray TP, Grzybowski BA. 2007. Plastic and moldable metals by self-assembly of sticky nanoparticle aggregates. Science. 316(5822), 261–264.","apa":"Klajn, R., Bishop, K. J. M., Fialkowski, M., Paszewski, M., Campbell, C. J., Gray, T. P., &#38; Grzybowski, B. A. (2007). Plastic and moldable metals by self-assembly of sticky nanoparticle aggregates. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1139131\">https://doi.org/10.1126/science.1139131</a>","ieee":"R. Klajn <i>et al.</i>, “Plastic and moldable metals by self-assembly of sticky nanoparticle aggregates,” <i>Science</i>, vol. 316, no. 5822. American Association for the Advancement of Science, pp. 261–264, 2007.","chicago":"Klajn, Rafal, Kyle J. M. Bishop, Marcin Fialkowski, Maciej Paszewski, Christopher J. Campbell, Timothy P. Gray, and Bartosz A. Grzybowski. “Plastic and Moldable Metals by Self-Assembly of Sticky Nanoparticle Aggregates.” <i>Science</i>. American Association for the Advancement of Science, 2007. <a href=\"https://doi.org/10.1126/science.1139131\">https://doi.org/10.1126/science.1139131</a>.","short":"R. Klajn, K.J.M. Bishop, M. Fialkowski, M. Paszewski, C.J. Campbell, T.P. Gray, B.A. Grzybowski, Science 316 (2007) 261–264.","mla":"Klajn, Rafal, et al. “Plastic and Moldable Metals by Self-Assembly of Sticky Nanoparticle Aggregates.” <i>Science</i>, vol. 316, no. 5822, American Association for the Advancement of Science, 2007, pp. 261–64, doi:<a href=\"https://doi.org/10.1126/science.1139131\">10.1126/science.1139131</a>."},"year":"2007","day":"13","intvolume":"       316","issue":"5822","external_id":{"pmid":["17431176"]}},{"intvolume":"       104","issue":"27","oa_version":"None","status":"public","_id":"8483","publisher":"National Academy of Sciences","citation":{"chicago":"Schanda, Paul, V. Forge, and B. Brutscher. “Protein Folding and Unfolding Studied at Atomic Resolution by Fast Two-Dimensional NMR Spectroscopy.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2007. <a href=\"https://doi.org/10.1073/pnas.0702069104\">https://doi.org/10.1073/pnas.0702069104</a>.","short":"P. Schanda, V. Forge, B. Brutscher, Proceedings of the National Academy of Sciences 104 (2007) 11257–11262.","mla":"Schanda, Paul, et al. “Protein Folding and Unfolding Studied at Atomic Resolution by Fast Two-Dimensional NMR Spectroscopy.” <i>Proceedings of the National Academy of Sciences</i>, vol. 104, no. 27, National Academy of Sciences, 2007, pp. 11257–62, doi:<a href=\"https://doi.org/10.1073/pnas.0702069104\">10.1073/pnas.0702069104</a>.","ista":"Schanda P, Forge V, Brutscher B. 2007. Protein folding and unfolding studied at atomic resolution by fast two-dimensional NMR spectroscopy. Proceedings of the National Academy of Sciences. 104(27), 11257–11262.","ama":"Schanda P, Forge V, Brutscher B. Protein folding and unfolding studied at atomic resolution by fast two-dimensional NMR spectroscopy. <i>Proceedings of the National Academy of Sciences</i>. 2007;104(27):11257-11262. doi:<a href=\"https://doi.org/10.1073/pnas.0702069104\">10.1073/pnas.0702069104</a>","apa":"Schanda, P., Forge, V., &#38; Brutscher, B. (2007). Protein folding and unfolding studied at atomic resolution by fast two-dimensional NMR spectroscopy. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.0702069104\">https://doi.org/10.1073/pnas.0702069104</a>","ieee":"P. Schanda, V. Forge, and B. Brutscher, “Protein folding and unfolding studied at atomic resolution by fast two-dimensional NMR spectroscopy,” <i>Proceedings of the National Academy of Sciences</i>, vol. 104, no. 27. National Academy of Sciences, pp. 11257–11262, 2007."},"year":"2007","day":"03","keyword":["Multidisciplinary"],"article_type":"original","fulldoi":"https://doi.org/10.1073/pnas.0702069104","date_published":"2007-07-03T00:00:00Z","date_updated":"2021-01-12T08:19:35Z","abstract":[{"text":"Atom-resolved real-time studies of kinetic processes in proteins have been hampered in the past by the lack of experimental techniques that yield sufficient temporal and atomic resolution. Here we present band-selective optimized flip-angle short transient (SOFAST) real-time 2D NMR spectroscopy, a method that allows simultaneous observation of reaction kinetics for a large number of nuclear sites along the polypeptide chain of a protein with an unprecedented time resolution of a few seconds. SOFAST real-time 2D NMR spectroscopy combines fast NMR data acquisition techniques with rapid sample mixing inside the NMR magnet to initiate the kinetic event. We demonstrate the use of SOFAST real-time 2D NMR to monitor the conformational transition of α-lactalbumin from a molten globular to the native state for a large number of amide sites along the polypeptide chain. The kinetic behavior observed for the disappearance of the molten globule and the appearance of the native state is monoexponential and uniform along the polypeptide chain. This observation confirms previous findings that a single transition state ensemble controls folding of α-lactalbumin from the molten globule to the native state. In a second application, the spontaneous unfolding of native ubiquitin under nondenaturing conditions is characterized by amide hydrogen exchange rate constants measured at high pH by using SOFAST real-time 2D NMR. Our data reveal that ubiquitin unfolds in a gradual manner with distinct unfolding regimes.","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","date_created":"2020-09-18T10:12:54Z","quality_controlled":"1","publication_status":"published","volume":104,"language":[{"iso":"eng"}],"page":"11257-11262","month":"07","type":"journal_article","doi":"10.1073/pnas.0702069104","title":"Protein folding and unfolding studied at atomic resolution by fast two-dimensional NMR spectroscopy","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"extern":"1","author":[{"orcid":"0000-0002-9350-7606","first_name":"Paul","last_name":"Schanda","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul"},{"first_name":"V.","full_name":"Forge, V.","last_name":"Forge"},{"first_name":"B.","full_name":"Brutscher, B.","last_name":"Brutscher"}],"publication":"Proceedings of the National Academy of Sciences"},{"date_created":"2022-04-07T07:56:32Z","article_processing_charge":"No","quality_controlled":"1","page":"440-443","volume":312,"language":[{"iso":"eng"}],"publication_status":"published","month":"04","pmid":1,"publication_identifier":{"issn":["0036-8075","1095-9203"]},"title":"Nuclear pores form de novo from both sides of the nuclear envelope","doi":"10.1126/science.1124196","type":"journal_article","extern":"1","scopus_import":"1","publication":"Science","author":[{"full_name":"D'Angelo, Maximiliano A.","last_name":"D'Angelo","first_name":"Maximiliano A."},{"first_name":"Daniel J.","last_name":"Anderson","full_name":"Anderson, Daniel J."},{"last_name":"Richard","full_name":"Richard, Erin","first_name":"Erin"},{"full_name":"HETZER, Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","orcid":"0000-0002-2111-992X","first_name":"Martin W"}],"external_id":{"pmid":["16627745"]},"issue":"5772","intvolume":"       312","_id":"11118","status":"public","oa_version":"None","day":"21","year":"2006","citation":{"ieee":"M. A. D’Angelo, D. J. Anderson, E. Richard, and M. Hetzer, “Nuclear pores form de novo from both sides of the nuclear envelope,” <i>Science</i>, vol. 312, no. 5772. American Association for the Advancement of Science, pp. 440–443, 2006.","apa":"D’Angelo, M. A., Anderson, D. J., Richard, E., &#38; Hetzer, M. (2006). Nuclear pores form de novo from both sides of the nuclear envelope. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1124196\">https://doi.org/10.1126/science.1124196</a>","ista":"D’Angelo MA, Anderson DJ, Richard E, Hetzer M. 2006. Nuclear pores form de novo from both sides of the nuclear envelope. Science. 312(5772), 440–443.","ama":"D’Angelo MA, Anderson DJ, Richard E, Hetzer M. Nuclear pores form de novo from both sides of the nuclear envelope. <i>Science</i>. 2006;312(5772):440-443. doi:<a href=\"https://doi.org/10.1126/science.1124196\">10.1126/science.1124196</a>","short":"M.A. D’Angelo, D.J. Anderson, E. Richard, M. Hetzer, Science 312 (2006) 440–443.","mla":"D’Angelo, Maximiliano A., et al. “Nuclear Pores Form de Novo from Both Sides of the Nuclear Envelope.” <i>Science</i>, vol. 312, no. 5772, American Association for the Advancement of Science, 2006, pp. 440–43, doi:<a href=\"https://doi.org/10.1126/science.1124196\">10.1126/science.1124196</a>.","chicago":"D’Angelo, Maximiliano A., Daniel J. Anderson, Erin Richard, and Martin Hetzer. “Nuclear Pores Form de Novo from Both Sides of the Nuclear Envelope.” <i>Science</i>. American Association for the Advancement of Science, 2006. <a href=\"https://doi.org/10.1126/science.1124196\">https://doi.org/10.1126/science.1124196</a>."},"publisher":"American Association for the Advancement of Science","date_published":"2006-04-21T00:00:00Z","fulldoi":"https://doi.org/10.1126/science.1124196","article_type":"original","keyword":["Multidisciplinary"],"date_updated":"2024-10-14T11:30:50Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Nuclear pore complexes are multiprotein channels that span the double lipid bilayer of the nuclear envelope. How new pores are inserted into the intact nuclear envelope of proliferating and differentiating eukaryotic cells is unknown. We found that the Nup107-160 complex was incorporated into assembly sites in the nuclear envelope from both the nucleoplasmic and the cytoplasmic sides. Nuclear pore insertion required the generation of Ran guanosine triphosphate in the nuclear and cytoplasmic compartments. Newly formed nuclear pore complexes did not contain structural components of preexisting pores, suggesting that they can form de novo."}]},{"article_type":"original","fulldoi":"https://doi.org/10.1126/science.1095989","keyword":["Multidisciplinary"],"date_published":"2004-02-27T00:00:00Z","date_updated":"2021-12-14T09:13:53Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","intvolume":"       303","external_id":{"pmid":["14988555"]},"issue":"5662","oa_version":"None","status":"public","_id":"9454","citation":{"ista":"Chan SW-L, Zilberman D, Xie  Zhixin, Johansen  Lisa K., Carrington JC, Jacobsen SE. 2004. RNA silencing genes control de novo DNA methylation. Science. 303(5662), 1336.","ama":"Chan SW-L, Zilberman D, Xie  Zhixin, Johansen  Lisa K., Carrington JC, Jacobsen SE. RNA silencing genes control de novo DNA methylation. <i>Science</i>. 2004;303(5662):1336. doi:<a href=\"https://doi.org/10.1126/science.1095989\">10.1126/science.1095989</a>","ieee":"S. W.-L. Chan, D. Zilberman,  Zhixin Xie,  Lisa K. Johansen, J. C. Carrington, and S. E. Jacobsen, “RNA silencing genes control de novo DNA methylation,” <i>Science</i>, vol. 303, no. 5662. American Association for the Advancement of Science, p. 1336, 2004.","apa":"Chan, S. W.-L., Zilberman, D., Xie,  Zhixin, Johansen,  Lisa K., Carrington, J. C., &#38; Jacobsen, S. E. (2004). RNA silencing genes control de novo DNA methylation. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1095989\">https://doi.org/10.1126/science.1095989</a>","chicago":"Chan, Simon W.-L., Daniel Zilberman,  Zhixin Xie,  Lisa K. Johansen, James C. Carrington, and Steven E. Jacobsen. “RNA Silencing Genes Control de Novo DNA Methylation.” <i>Science</i>. American Association for the Advancement of Science, 2004. <a href=\"https://doi.org/10.1126/science.1095989\">https://doi.org/10.1126/science.1095989</a>.","short":"S.W.-L. Chan, D. Zilberman,  Zhixin Xie,  Lisa K. Johansen, J.C. Carrington, S.E. Jacobsen, Science 303 (2004) 1336.","mla":"Chan, Simon W. L., et al. “RNA Silencing Genes Control de Novo DNA Methylation.” <i>Science</i>, vol. 303, no. 5662, American Association for the Advancement of Science, 2004, p. 1336, doi:<a href=\"https://doi.org/10.1126/science.1095989\">10.1126/science.1095989</a>."},"year":"2004","publisher":"American Association for the Advancement of Science","day":"27","doi":"10.1126/science.1095989","type":"journal_article","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"pmid":1,"title":"RNA silencing genes control de novo DNA methylation","extern":"1","scopus_import":"1","author":[{"full_name":"Chan, Simon W.-L.","last_name":"Chan","first_name":"Simon W.-L."},{"orcid":"0000-0002-0123-8649","first_name":"Daniel","full_name":"Zilberman, Daniel","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman"},{"last_name":"Xie","full_name":"Xie,  Zhixin","first_name":" Zhixin"},{"last_name":"Johansen","full_name":"Johansen,  Lisa K.","first_name":" Lisa K."},{"last_name":"Carrington","full_name":"Carrington, James C.","first_name":"James C."},{"last_name":"Jacobsen","full_name":"Jacobsen, Steven E.","first_name":"Steven E."}],"publication":"Science","date_created":"2021-06-04T11:12:35Z","article_processing_charge":"No","quality_controlled":"1","language":[{"iso":"eng"}],"department":[{"_id":"DaZi"}],"volume":303,"publication_status":"published","page":"1336","month":"02"}]