[{"date_created":"2018-12-11T12:02:29Z","date_published":"2008-06-13T00:00:00Z","year":"2008","doi":"10.1128/EC.00065-08","month":"06","publisher":"American Society for Microbiology","title":"Contribution of galactofuranose to the virulence of the opportunistic pathogen Aspergillus fumigatus","publist_id":"3354","volume":7,"date_updated":"2021-01-12T07:42:26Z","page":"1268 - 1277","issue":"8","publication":"Eukaryotic Cell","quality_controlled":0,"_id":"3291","extern":1,"type":"journal_article","publication_status":"published","citation":{"short":"P.S. Schmalhorst, S. Krappmann, W. Vervecken, M. Rohde, M. Müller, G. Braus, R. Contreras, A. Braun, H. Bakker, F. Routier, Eukaryotic Cell 7 (2008) 1268–1277.","ista":"Schmalhorst PS, Krappmann S, Vervecken W, Rohde M, Müller M, Braus G, Contreras R, Braun A, Bakker H, Routier F. 2008. Contribution of galactofuranose to the virulence of the opportunistic pathogen Aspergillus fumigatus. Eukaryotic Cell. 7(8), 1268–1277.","ama":"Schmalhorst PS, Krappmann S, Vervecken W, et al. Contribution of galactofuranose to the virulence of the opportunistic pathogen Aspergillus fumigatus. <i>Eukaryotic Cell</i>. 2008;7(8):1268-1277. doi:<a href=\"https://doi.org/10.1128/EC.00065-08\">10.1128/EC.00065-08</a>","mla":"Schmalhorst, Philipp S., et al. “Contribution of Galactofuranose to the Virulence of the Opportunistic Pathogen Aspergillus Fumigatus.” <i>Eukaryotic Cell</i>, vol. 7, no. 8, American Society for Microbiology, 2008, pp. 1268–77, doi:<a href=\"https://doi.org/10.1128/EC.00065-08\">10.1128/EC.00065-08</a>.","chicago":"Schmalhorst, Philipp S, Sven Krappmann, Wouter Vervecken, Manfred Rohde, Meike Müller, Gerhard Braus, Roland Contreras, Armin Braun, Hans Bakker, and Françoise Routier. “Contribution of Galactofuranose to the Virulence of the Opportunistic Pathogen Aspergillus Fumigatus.” <i>Eukaryotic Cell</i>. American Society for Microbiology, 2008. <a href=\"https://doi.org/10.1128/EC.00065-08\">https://doi.org/10.1128/EC.00065-08</a>.","apa":"Schmalhorst, P. S., Krappmann, S., Vervecken, W., Rohde, M., Müller, M., Braus, G., … Routier, F. (2008). Contribution of galactofuranose to the virulence of the opportunistic pathogen Aspergillus fumigatus. <i>Eukaryotic Cell</i>. American Society for Microbiology. <a href=\"https://doi.org/10.1128/EC.00065-08\">https://doi.org/10.1128/EC.00065-08</a>","ieee":"P. S. Schmalhorst <i>et al.</i>, “Contribution of galactofuranose to the virulence of the opportunistic pathogen Aspergillus fumigatus,” <i>Eukaryotic Cell</i>, vol. 7, no. 8. American Society for Microbiology, pp. 1268–1277, 2008."},"day":"13","author":[{"id":"309D50DA-F248-11E8-B48F-1D18A9856A87","full_name":"Philipp Schmalhorst","last_name":"Schmalhorst","orcid":"0000-0002-5795-0133","first_name":"Philipp S"},{"last_name":"Krappmann","full_name":"Krappmann, Sven","first_name":"Sven"},{"first_name":"Wouter","full_name":"Vervecken, Wouter","last_name":"Vervecken"},{"first_name":"Manfred","full_name":"Rohde, Manfred","last_name":"Rohde"},{"full_name":"Müller, Meike","last_name":"Müller","first_name":"Meike"},{"full_name":"Braus, Gerhard H.","last_name":"Braus","first_name":"Gerhard"},{"first_name":"Roland","last_name":"Contreras","full_name":"Contreras, Roland"},{"first_name":"Armin","full_name":"Braun, Armin","last_name":"Braun"},{"first_name":"Hans","full_name":"Bakker, Hans","last_name":"Bakker"},{"first_name":"Françoise","last_name":"Routier","full_name":"Routier, Françoise H"}],"status":"public","intvolume":"         7","abstract":[{"lang":"eng","text":"The filamentous fungus Aspergillus fumigatus is responsible for a lethal disease called Invasive Aspergillosis that affects immunocompromised patients. This disease, like other human fungal diseases, is generally treated by compounds targeting the primary fungal cell membrane sterol. Recently, glucan synthesis inhibitors were added to the limited antifungal arsenal and encouraged the search for novel targets in cell wall biosynthesis. Although galactomannan is a major component of the A. fumigatus cell wall and extracellular matrix, the biosynthesis and role of galactomannan are currently unknown. By a targeted gene deletion approach, we demonstrate that UDP-galactopyranose mutase, a key enzyme of galactofuranose metabolism, controls the biosynthesis of galactomannan and galactofuranose containing glycoconjugates. The glfA deletion mutant generated in this study is devoid of galactofuranose and displays attenuated virulence in a low-dose mouse model of invasive aspergillosis that likely reflects the impaired growth of the mutant at mammalian body temperature. Furthermore, the absence of galactofuranose results in a thinner cell wall that correlates with an increased susceptibility to several antifungal agents. The UDP-galactopyranose mutase thus appears to be an appealing adjunct therapeutic target in combination with other drugs against A. fumigatus. Its absence from mammalian cells indeed offers a considerable advantage to achieve therapeutic selectivity. "}]},{"publication":"Cell","oa":1,"date_updated":"2021-01-12T07:42:32Z","volume":134,"publist_id":"3333","page":"416 - 426","_id":"3307","extern":1,"quality_controlled":0,"publication_status":"published","day":"01","citation":{"apa":"Green, R., Malaspinas, A., Krause, J., Briggs, A., Johnson, P., Uhler, C., … Pääbo, S. (2008). A complete neandertal mitochondrial genome sequence determined by highhhroughput sequencing. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2008.06.021\">https://doi.org/10.1016/j.cell.2008.06.021</a>","ieee":"R. Green <i>et al.</i>, “A complete neandertal mitochondrial genome sequence determined by highhhroughput sequencing,” <i>Cell</i>, vol. 134. Cell Press, pp. 416–426, 2008.","chicago":"Green, Richard, Anna Malaspinas, Johannes Krause, Adrian Briggs, Philip Johnson, Caroline Uhler, Matthias Meyer, et al. “A Complete Neandertal Mitochondrial Genome Sequence Determined by Highhhroughput Sequencing.” <i>Cell</i>. Cell Press, 2008. <a href=\"https://doi.org/10.1016/j.cell.2008.06.021\">https://doi.org/10.1016/j.cell.2008.06.021</a>.","ama":"Green R, Malaspinas A, Krause J, et al. A complete neandertal mitochondrial genome sequence determined by highhhroughput sequencing. <i>Cell</i>. 2008;134:416-426. doi:<a href=\"https://doi.org/10.1016/j.cell.2008.06.021\">10.1016/j.cell.2008.06.021</a>","mla":"Green, Richard, et al. “A Complete Neandertal Mitochondrial Genome Sequence Determined by Highhhroughput Sequencing.” <i>Cell</i>, vol. 134, Cell Press, 2008, pp. 416–26, doi:<a href=\"https://doi.org/10.1016/j.cell.2008.06.021\">10.1016/j.cell.2008.06.021</a>.","short":"R. Green, A. Malaspinas, J. Krause, A. Briggs, P. Johnson, C. Uhler, M. Meyer, J. Good, T. Maricic, U. Stenzel, K. Prüfer, M. Siebauer, H. Burbano, M. Ronan, J. Rothberg, M. Egholm, P. Rudan, D. Brajković, Ž. Kućan, I. Gušić, M. Wikström, L. Laakkonen, J. Kelso, M. Slatkin, S. Pääbo, Cell 134 (2008) 416–426.","ista":"Green R, Malaspinas A, Krause J, Briggs A, Johnson P, Uhler C, Meyer M, Good J, Maricic T, Stenzel U, Prüfer K, Siebauer M, Burbano H, Ronan M, Rothberg J, Egholm M, Rudan P, Brajković D, Kućan Ž, Gušić I, Wikström M, Laakkonen L, Kelso J, Slatkin M, Pääbo S. 2008. A complete neandertal mitochondrial genome sequence determined by highhhroughput sequencing. Cell. 134, 416–426."},"type":"journal_article","intvolume":"       134","abstract":[{"text":"A complete mitochondrial (mt) genome sequence was reconstructed from a 38,000 year-old Neandertal individual with 8341 mtDNA sequences identified among 4.8 Gb of DNA generated from ∼0.3 g of bone. Analysis of the assembled sequence unequivocally establishes that the Neandertal mtDNA falls outside the variation of extant human mtDNAs, and allows an estimate of the divergence date between the two mtDNA lineages of 660,000 ± 140,000 years. Of the 13 proteins encoded in the mtDNA, subunit 2 of cytochrome c oxidase of the mitochondrial electron transport chain has experienced the largest number of amino acid substitutions in human ancestors since the separation from Neandertals. There is evidence that purifying selection in the Neandertal mtDNA was reduced compared with other primate lineages, suggesting that the effective population size of Neandertals was small.","lang":"eng"}],"author":[{"last_name":"Green","full_name":"Green, Richard E","first_name":"Richard"},{"first_name":"Anna","last_name":"Malaspinas","full_name":"Malaspinas, Anna-Sapfo "},{"first_name":"Johannes","last_name":"Krause","full_name":"Krause, Johannes"},{"first_name":"Adrian","full_name":"Briggs, Adrian W","last_name":"Briggs"},{"first_name":"Philip","last_name":"Johnson","full_name":"Johnson, Philip L"},{"id":"49ADD78E-F248-11E8-B48F-1D18A9856A87","first_name":"Caroline","orcid":"0000-0002-7008-0216","full_name":"Caroline Uhler","last_name":"Uhler"},{"first_name":"Matthias","last_name":"Meyer","full_name":"Meyer, Matthias"},{"last_name":"Good","full_name":"Good, Jeffrey M","first_name":"Jeffrey"},{"full_name":"Maricic, Tomislav","last_name":"Maricic","first_name":"Tomislav"},{"last_name":"Stenzel","full_name":"Stenzel, Udo","first_name":"Udo"},{"first_name":"Kay","last_name":"Prüfer","full_name":"Prüfer, Kay"},{"first_name":"Michael","last_name":"Siebauer","full_name":"Siebauer, Michael F"},{"last_name":"Burbano","full_name":"Burbano, Hernän A","first_name":"Hernän"},{"last_name":"Ronan","full_name":"Ronan, Michael T","first_name":"Michael"},{"full_name":"Rothberg, Jonathan M","last_name":"Rothberg","first_name":"Jonathan"},{"first_name":"Michael","full_name":"Egholm, Michael","last_name":"Egholm"},{"first_name":"Pavao","full_name":"Rudan, Pavao","last_name":"Rudan"},{"last_name":"Brajković","full_name":"Brajković, Dejana","first_name":"Dejana"},{"last_name":"Kućan","full_name":"Kućan, Željko","first_name":"Željko"},{"full_name":"Gušić, Ivan","last_name":"Gušić","first_name":"Ivan"},{"first_name":"Mårten","full_name":"Wikström, Mårten K","last_name":"Wikström"},{"last_name":"Laakkonen","full_name":"Laakkonen, Liisa J","first_name":"Liisa"},{"first_name":"Janet","full_name":"Kelso, Janet F","last_name":"Kelso"},{"full_name":"Slatkin, Montgomery","last_name":"Slatkin","first_name":"Montgomery"},{"first_name":"Svante","last_name":"Pääbo","full_name":"Pääbo, Svante H"}],"status":"public","main_file_link":[{"url":"http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2602844/","open_access":"1"}],"date_created":"2018-12-11T12:02:35Z","doi":"10.1016/j.cell.2008.06.021","month":"08","year":"2008","date_published":"2008-08-01T00:00:00Z","publisher":"Cell Press","title":"A complete neandertal mitochondrial genome sequence determined by highhhroughput sequencing"},{"date_created":"2022-04-07T07:55:00Z","publisher":"Elsevier","scopus_import":"1","language":[{"iso":"eng"}],"month":"12","article_type":"original","date_published":"2008-12-01T00:00:00Z","issue":"6","publication":"Current Opinion in Cell Biology","page":"669-677","intvolume":"        20","status":"public","day":"01","type":"journal_article","external_id":{"pmid":["18938243"]},"title":"Reorganization of the nuclear envelope during open mitosis","doi":"10.1016/j.ceb.2008.09.010","year":"2008","_id":"11109","pmid":1,"extern":"1","publication_identifier":{"issn":["0955-0674"]},"user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","quality_controlled":"1","oa_version":"None","date_updated":"2022-07-18T08:55:32Z","volume":20,"article_processing_charge":"No","abstract":[{"lang":"eng","text":"The nuclear envelope (NE) provides a selective barrier between the nuclear interior and the cytoplasm and constitutes a central component of intracellular architecture. During mitosis in metazoa, the NE breaks down leading to the complete mixing of the nuclear content with the cytosol. Interestingly, many NE components actively participate in mitotic progression. After chromosome segregation, the NE is reassembled around decondensing chromatin and the nuclear compartment is reestablished in the daughter cells. Here, we summarize recent progress in deciphering the molecular mechanisms underlying NE dynamics during cell division."}],"author":[{"first_name":"Ulrike","full_name":"Kutay, Ulrike","last_name":"Kutay"},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","last_name":"HETZER","orcid":"0000-0002-2111-992X","first_name":"Martin W"}],"keyword":["Cell Biology"],"publication_status":"published","citation":{"chicago":"Kutay, Ulrike, and Martin Hetzer. “Reorganization of the Nuclear Envelope during Open Mitosis.” <i>Current Opinion in Cell Biology</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.ceb.2008.09.010\">https://doi.org/10.1016/j.ceb.2008.09.010</a>.","ieee":"U. Kutay and M. Hetzer, “Reorganization of the nuclear envelope during open mitosis,” <i>Current Opinion in Cell Biology</i>, vol. 20, no. 6. Elsevier, pp. 669–677, 2008.","apa":"Kutay, U., &#38; Hetzer, M. (2008). Reorganization of the nuclear envelope during open mitosis. <i>Current Opinion in Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ceb.2008.09.010\">https://doi.org/10.1016/j.ceb.2008.09.010</a>","short":"U. Kutay, M. Hetzer, Current Opinion in Cell Biology 20 (2008) 669–677.","ista":"Kutay U, Hetzer M. 2008. Reorganization of the nuclear envelope during open mitosis. Current Opinion in Cell Biology. 20(6), 669–677.","mla":"Kutay, Ulrike, and Martin Hetzer. “Reorganization of the Nuclear Envelope during Open Mitosis.” <i>Current Opinion in Cell Biology</i>, vol. 20, no. 6, Elsevier, 2008, pp. 669–77, doi:<a href=\"https://doi.org/10.1016/j.ceb.2008.09.010\">10.1016/j.ceb.2008.09.010</a>.","ama":"Kutay U, Hetzer M. Reorganization of the nuclear envelope during open mitosis. <i>Current Opinion in Cell Biology</i>. 2008;20(6):669-677. doi:<a href=\"https://doi.org/10.1016/j.ceb.2008.09.010\">10.1016/j.ceb.2008.09.010</a>"}},{"external_id":{"pmid":["18786826"]},"title":"Structure, dynamics and function of nuclear pore complexes","doi":"10.1016/j.tcb.2008.07.009","year":"2008","abstract":[{"text":"Nuclear pore complexes are large aqueous channels that penetrate the nuclear envelope, thereby connecting the nuclear interior with the cytoplasm. Until recently, these macromolecular complexes were viewed as static structures, the only function of which was to control the molecular trafficking between the two compartments. It has now become evident that this simplistic scenario is inaccurate and that nuclear pore complexes are highly dynamic multiprotein assemblies involved in diverse cellular processes ranging from the organization of the cytoskeleton to gene expression. In this review, we discuss the most recent developments in the nuclear-pore-complex field, focusing on the assembly, disassembly, maintenance and function of this macromolecular structure.","lang":"eng"}],"author":[{"first_name":"Maximiliano A.","full_name":"D’Angelo, Maximiliano A.","last_name":"D’Angelo"},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","last_name":"HETZER","orcid":"0000-0002-2111-992X","first_name":"Martin W"}],"keyword":["Cell Biology"],"citation":{"ista":"D’Angelo MA, Hetzer M. 2008. Structure, dynamics and function of nuclear pore complexes. Trends in Cell Biology. 18(10), 456–466.","short":"M.A. D’Angelo, M. Hetzer, Trends in Cell Biology 18 (2008) 456–466.","mla":"D’Angelo, Maximiliano A., and Martin Hetzer. “Structure, Dynamics and Function of Nuclear Pore Complexes.” <i>Trends in Cell Biology</i>, vol. 18, no. 10, Elsevier, 2008, pp. 456–66, doi:<a href=\"https://doi.org/10.1016/j.tcb.2008.07.009\">10.1016/j.tcb.2008.07.009</a>.","ama":"D’Angelo MA, Hetzer M. Structure, dynamics and function of nuclear pore complexes. <i>Trends in Cell Biology</i>. 2008;18(10):456-466. doi:<a href=\"https://doi.org/10.1016/j.tcb.2008.07.009\">10.1016/j.tcb.2008.07.009</a>","chicago":"D’Angelo, Maximiliano A., and Martin Hetzer. “Structure, Dynamics and Function of Nuclear Pore Complexes.” <i>Trends in Cell Biology</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.tcb.2008.07.009\">https://doi.org/10.1016/j.tcb.2008.07.009</a>.","ieee":"M. A. D’Angelo and M. Hetzer, “Structure, dynamics and function of nuclear pore complexes,” <i>Trends in Cell Biology</i>, vol. 18, no. 10. Elsevier, pp. 456–466, 2008.","apa":"D’Angelo, M. A., &#38; Hetzer, M. (2008). Structure, dynamics and function of nuclear pore complexes. <i>Trends in Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.tcb.2008.07.009\">https://doi.org/10.1016/j.tcb.2008.07.009</a>"},"publication_status":"published","extern":"1","publication_identifier":{"issn":["0962-8924"]},"_id":"11110","pmid":1,"oa_version":"None","quality_controlled":"1","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","article_processing_charge":"No","date_updated":"2022-07-18T08:55:33Z","volume":18,"scopus_import":"1","publisher":"Elsevier","language":[{"iso":"eng"}],"month":"10","article_type":"review","date_published":"2008-10-01T00:00:00Z","date_created":"2022-04-07T07:55:10Z","intvolume":"        18","status":"public","day":"01","type":"journal_article","publication":"Trends in Cell Biology","issue":"10","page":"456-466"},{"article_processing_charge":"No","volume":182,"date_updated":"2022-07-18T08:56:02Z","quality_controlled":"1","oa_version":"None","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","publication_identifier":{"eissn":["1540-8140"],"issn":["0021-9525"]},"extern":"1","pmid":1,"_id":"11111","citation":{"short":"D.J. Anderson, M. Hetzer, Journal of Cell Biology 182 (2008) 911–924.","ista":"Anderson DJ, Hetzer M. 2008. Reshaping of the endoplasmic reticulum limits the rate for nuclear envelope formation. Journal of Cell Biology. 182(5), 911–924.","mla":"Anderson, Daniel J., and Martin Hetzer. “Reshaping of the Endoplasmic Reticulum Limits the Rate for Nuclear Envelope Formation.” <i>Journal of Cell Biology</i>, vol. 182, no. 5, Rockefeller University Press, 2008, pp. 911–24, doi:<a href=\"https://doi.org/10.1083/jcb.200805140\">10.1083/jcb.200805140</a>.","ama":"Anderson DJ, Hetzer M. Reshaping of the endoplasmic reticulum limits the rate for nuclear envelope formation. <i>Journal of Cell Biology</i>. 2008;182(5):911-924. doi:<a href=\"https://doi.org/10.1083/jcb.200805140\">10.1083/jcb.200805140</a>","chicago":"Anderson, Daniel J., and Martin Hetzer. “Reshaping of the Endoplasmic Reticulum Limits the Rate for Nuclear Envelope Formation.” <i>Journal of Cell Biology</i>. Rockefeller University Press, 2008. <a href=\"https://doi.org/10.1083/jcb.200805140\">https://doi.org/10.1083/jcb.200805140</a>.","ieee":"D. J. Anderson and M. Hetzer, “Reshaping of the endoplasmic reticulum limits the rate for nuclear envelope formation,” <i>Journal of Cell Biology</i>, vol. 182, no. 5. Rockefeller University Press, pp. 911–924, 2008.","apa":"Anderson, D. J., &#38; Hetzer, M. (2008). Reshaping of the endoplasmic reticulum limits the rate for nuclear envelope formation. <i>Journal of Cell Biology</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1083/jcb.200805140\">https://doi.org/10.1083/jcb.200805140</a>"},"publication_status":"published","keyword":["Cell Biology"],"author":[{"first_name":"Daniel J.","full_name":"Anderson, Daniel J.","last_name":"Anderson"},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","first_name":"Martin W","orcid":"0000-0002-2111-992X","last_name":"HETZER","full_name":"HETZER, Martin W"}],"abstract":[{"lang":"eng","text":"During mitosis in metazoans, segregated chromosomes become enclosed by the nuclear envelope (NE), a double membrane that is continuous with the endoplasmic reticulum (ER). Recent in vitro data suggest that NE formation occurs by chromatin-mediated reorganization of the tubular ER; however, the basic principles of such a membrane-reshaping process remain uncharacterized. Here, we present a quantitative analysis of nuclear membrane assembly in mammalian cells using time-lapse microscopy. From the initial recruitment of ER tubules to chromatin, the formation of a membrane-enclosed, transport-competent nucleus occurs within ∼12 min. Overexpression of the ER tubule-forming proteins reticulon 3, reticulon 4, and DP1 inhibits NE formation and nuclear expansion, whereas their knockdown accelerates nuclear assembly. This suggests that the transition from membrane tubules to sheets is rate-limiting for nuclear assembly. Our results provide evidence that ER-shaping proteins are directly involved in the reconstruction of the nuclear compartment and that morphological restructuring of the ER is the principal mechanism of NE formation in vivo."}],"doi":"10.1083/jcb.200805140","year":"2008","title":"Reshaping of the endoplasmic reticulum limits the rate for nuclear envelope formation","external_id":{"pmid":["18779370"]},"page":"911-924","publication":"Journal of Cell Biology","issue":"5","type":"journal_article","day":"08","status":"public","intvolume":"       182","date_created":"2022-04-07T07:55:23Z","article_type":"original","date_published":"2008-09-08T00:00:00Z","month":"09","language":[{"iso":"eng"}],"scopus_import":"1","publisher":"Rockefeller University Press"},{"date_created":"2022-04-07T07:55:34Z","date_published":"2008-08-01T00:00:00Z","article_type":"original","month":"08","language":[{"iso":"eng"}],"scopus_import":"1","publisher":"Elsevier","page":"386-392","publication":"Current Opinion in Cell Biology","issue":"4","type":"journal_article","day":"01","status":"public","intvolume":"        20","year":"2008","doi":"10.1016/j.ceb.2008.03.016","external_id":{"pmid":["18495454"]},"title":"The life cycle of the metazoan nuclear envelope","article_processing_charge":"No","date_updated":"2022-07-18T08:56:07Z","volume":20,"oa_version":"None","quality_controlled":"1","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","extern":"1","publication_identifier":{"issn":["0955-0674"]},"pmid":1,"_id":"11112","citation":{"chicago":"Anderson, Daniel J, and Martin Hetzer. “The Life Cycle of the Metazoan Nuclear Envelope.” <i>Current Opinion in Cell Biology</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.ceb.2008.03.016\">https://doi.org/10.1016/j.ceb.2008.03.016</a>.","ieee":"D. J. Anderson and M. Hetzer, “The life cycle of the metazoan nuclear envelope,” <i>Current Opinion in Cell Biology</i>, vol. 20, no. 4. Elsevier, pp. 386–392, 2008.","apa":"Anderson, D. J., &#38; Hetzer, M. (2008). The life cycle of the metazoan nuclear envelope. <i>Current Opinion in Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ceb.2008.03.016\">https://doi.org/10.1016/j.ceb.2008.03.016</a>","short":"D.J. Anderson, M. Hetzer, Current Opinion in Cell Biology 20 (2008) 386–392.","ista":"Anderson DJ, Hetzer M. 2008. The life cycle of the metazoan nuclear envelope. Current Opinion in Cell Biology. 20(4), 386–392.","ama":"Anderson DJ, Hetzer M. The life cycle of the metazoan nuclear envelope. <i>Current Opinion in Cell Biology</i>. 2008;20(4):386-392. doi:<a href=\"https://doi.org/10.1016/j.ceb.2008.03.016\">10.1016/j.ceb.2008.03.016</a>","mla":"Anderson, Daniel J., and Martin Hetzer. “The Life Cycle of the Metazoan Nuclear Envelope.” <i>Current Opinion in Cell Biology</i>, vol. 20, no. 4, Elsevier, 2008, pp. 386–92, doi:<a href=\"https://doi.org/10.1016/j.ceb.2008.03.016\">10.1016/j.ceb.2008.03.016</a>."},"publication_status":"published","keyword":["Cell Biology"],"author":[{"first_name":"Daniel J","last_name":"Anderson","full_name":"Anderson, Daniel J"},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","full_name":"HETZER, Martin W","orcid":"0000-0002-2111-992X","first_name":"Martin W"}],"abstract":[{"text":"The nuclear envelope is a double-layered membrane that encloses the nuclear genome and transcriptional machinery. In dividing cells of metazoa, the nucleus completely disassembles during mitosis, creating the need to re-establish the nuclear compartment at the end of each cell division. Given the crucial role of the nuclear envelope in gene regulation and cellular organization, it is not surprising that its biogenesis and organization have become active research areas. We will review recent insights into nuclear membrane dynamics during the cell cycle.","lang":"eng"}]},{"article_type":"letter_note","date_published":"2008-01-15T00:00:00Z","month":"01","language":[{"iso":"eng"}],"publisher":"The Company of Biologists","scopus_import":"1","date_created":"2022-04-07T07:55:46Z","type":"journal_article","day":"15","status":"public","intvolume":"       121","page":"137-142","issue":"2","publication":"Journal of Cell Science","year":"2008","doi":"10.1242/jcs.005777","title":"Shaping the endoplasmic reticulum into the nuclear envelope","external_id":{"pmid":["18187447"]},"main_file_link":[{"url":"https://doi.org/10.1242/jcs.005777","open_access":"1"}],"publication_status":"published","citation":{"chicago":"Anderson, Daniel J., and Martin Hetzer. “Shaping the Endoplasmic Reticulum into the Nuclear Envelope.” <i>Journal of Cell Science</i>. The Company of Biologists, 2008. <a href=\"https://doi.org/10.1242/jcs.005777\">https://doi.org/10.1242/jcs.005777</a>.","ieee":"D. J. Anderson and M. Hetzer, “Shaping the endoplasmic reticulum into the nuclear envelope,” <i>Journal of Cell Science</i>, vol. 121, no. 2. The Company of Biologists, pp. 137–142, 2008.","apa":"Anderson, D. J., &#38; Hetzer, M. (2008). Shaping the endoplasmic reticulum into the nuclear envelope. <i>Journal of Cell Science</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.005777\">https://doi.org/10.1242/jcs.005777</a>","ista":"Anderson DJ, Hetzer M. 2008. Shaping the endoplasmic reticulum into the nuclear envelope. Journal of Cell Science. 121(2), 137–142.","short":"D.J. Anderson, M. Hetzer, Journal of Cell Science 121 (2008) 137–142.","ama":"Anderson DJ, Hetzer M. Shaping the endoplasmic reticulum into the nuclear envelope. <i>Journal of Cell Science</i>. 2008;121(2):137-142. doi:<a href=\"https://doi.org/10.1242/jcs.005777\">10.1242/jcs.005777</a>","mla":"Anderson, Daniel J., and Martin Hetzer. “Shaping the Endoplasmic Reticulum into the Nuclear Envelope.” <i>Journal of Cell Science</i>, vol. 121, no. 2, The Company of Biologists, 2008, pp. 137–42, doi:<a href=\"https://doi.org/10.1242/jcs.005777\">10.1242/jcs.005777</a>."},"keyword":["Cell Biology"],"author":[{"first_name":"Daniel J.","last_name":"Anderson","full_name":"Anderson, Daniel J."},{"id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","orcid":"0000-0002-2111-992X","full_name":"HETZER, Martin W","last_name":"HETZER","first_name":"Martin W"}],"abstract":[{"text":"The nuclear envelope (NE), a double membrane enclosing the nucleus of eukaryotic cells, controls the flow of information between the nucleoplasm and the cytoplasm and provides a scaffold for the organization of chromatin and the cytoskeleton. In dividing metazoan cells, the NE breaks down at the onset of mitosis and then reforms around segregated chromosomes to generate the daughter nuclei. Recent data from intact cells and cell-free nuclear assembly systems suggest that the endoplasmic reticulum (ER) is the source of membrane for NE assembly. At the end of mitosis, ER membrane tubules are targeted to chromatin via tubule ends and reorganized into flat nuclear membrane sheets by specific DNA-binding membrane proteins. In contrast to previous models, which proposed vesicle fusion to be the principal mechanism of NE formation, these new studies suggest that the nuclear membrane forms by the chromatin-mediated reshaping of the ER.","lang":"eng"}],"oa":1,"volume":121,"date_updated":"2022-07-18T08:56:10Z","article_processing_charge":"No","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","quality_controlled":"1","oa_version":"Published Version","pmid":1,"_id":"11113","extern":"1","publication_identifier":{"eissn":["1477-9137"],"issn":["0021-9533"]}},{"year":"2008","doi":"10.1371/journal.pone.0002061","title":"Single bead affinity detection (SINBAD) for the analysis of protein-protein interactions","external_id":{"pmid":["18446240"]},"main_file_link":[{"url":" https://doi.org/10.1371/journal.pone.0002061","open_access":"1"}],"article_number":"e2061","publication_status":"published","citation":{"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>","short":"R. Schulte, J. Talamas, C. Doucet, M. Hetzer, PLoS ONE 3 (2008).","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.","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>","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.","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>."},"author":[{"last_name":"Schulte","full_name":"Schulte, Roberta","first_name":"Roberta"},{"first_name":"Jessica","last_name":"Talamas","full_name":"Talamas, Jessica"},{"full_name":"Doucet, Christine","last_name":"Doucet","first_name":"Christine"},{"orcid":"0000-0002-2111-992X","last_name":"HETZER","full_name":"HETZER, Martin W","first_name":"Martin W","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed"}],"keyword":["Multidisciplinary"],"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."}],"volume":3,"oa":1,"date_updated":"2022-07-18T08:56:36Z","article_processing_charge":"No","user_id":"72615eeb-f1f3-11ec-aa25-d4573ddc34fd","oa_version":"Published Version","quality_controlled":"1","_id":"11114","pmid":1,"publication_identifier":{"issn":["1932-6203"]},"extern":"1","article_type":"original","date_published":"2008-04-30T00:00:00Z","month":"04","language":[{"iso":"eng"}],"publisher":"Public Library of Science","scopus_import":"1","date_created":"2022-04-07T07:55:57Z","type":"journal_article","day":"30","status":"public","intvolume":"         3","issue":"4","publication":"PLoS ONE"},{"abstract":[{"lang":"eng","text":"Mutation rate varies greatly between nucleotide sites of the human genome and depends both on the global genomic location and the local sequence context of a site. In particular, CpG context elevates the mutation rate by an order of magnitude. Mutations also vary widely in their effect on the molecular function, phenotype, and fitness. Independence of the probability of occurrence of a new mutation's effect has been a fundamental premise in genetics. However, highly mutable contexts may be preserved by negative selection at important sites but destroyed by mutation at sites under no selection. Thus, there may be a positive correlation between the rate of mutations at a nucleotide site and the magnitude of their effect on fitness. We studied the impact of CpG context on the rate of human-chimpanzee divergence and on intrahuman nucleotide diversity at non-synonymous coding sites. We compared nucleotides that occupy identical positions within codons of identical amino acids and only differ by being within versus outside CpG context. Nucleotides within CpG context are under a stronger negative selection, as revealed by their lower, proportionally to the mutation rate, rate of evolution and nucleotide diversity. In particular, the probability of fixation of a non-synonymous transition at a CpG site is two times lower than at a CpG site. Thus, sites with different mutation rates are not necessarily selectively equivalent. This suggests that the mutation rate may complement sequence conservation as a characteristic predictive of functional importance of nucleotide sites."}],"intvolume":"         4","author":[{"first_name":"Steffen","last_name":"Schmidt","full_name":"Schmidt, Steffen"},{"first_name":"Anna","full_name":"Gerasimova, Anna","last_name":"Gerasimova"},{"id":"44FDEF62-F248-11E8-B48F-1D18A9856A87","last_name":"Kondrashov","full_name":"Fyodor Kondrashov","orcid":"0000-0001-8243-4694","first_name":"Fyodor"},{"last_name":"Adzuhbei","full_name":"Adzuhbei, Ivan A","first_name":"Ivan"},{"first_name":"Alexey","last_name":"Kondrashov","full_name":"Kondrashov, Alexey S"},{"full_name":"Sunyaev, Shamil R","last_name":"Sunyaev","first_name":"Shamil"}],"status":"public","publication_status":"published","citation":{"mla":"Schmidt, Steffen, et al. “Hypermutable Non-Synonymous Sites Are under Stronger Negative Selection.” <i>PLoS Genetics</i>, vol. 4, no. 11, Public Library of Science, 2008, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1000281\">10.1371/journal.pgen.1000281</a>.","ama":"Schmidt S, Gerasimova A, Kondrashov F, Adzuhbei I, Kondrashov A, Sunyaev S. Hypermutable non-synonymous sites are under stronger negative selection. <i>PLoS Genetics</i>. 2008;4(11). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1000281\">10.1371/journal.pgen.1000281</a>","ista":"Schmidt S, Gerasimova A, Kondrashov F, Adzuhbei I, Kondrashov A, Sunyaev S. 2008. Hypermutable non-synonymous sites are under stronger negative selection. PLoS Genetics. 4(11).","short":"S. Schmidt, A. Gerasimova, F. Kondrashov, I. Adzuhbei, A. Kondrashov, S. Sunyaev, PLoS Genetics 4 (2008).","ieee":"S. Schmidt, A. Gerasimova, F. Kondrashov, I. Adzuhbei, A. Kondrashov, and S. Sunyaev, “Hypermutable non-synonymous sites are under stronger negative selection,” <i>PLoS Genetics</i>, vol. 4, no. 11. Public Library of Science, 2008.","apa":"Schmidt, S., Gerasimova, A., Kondrashov, F., Adzuhbei, I., Kondrashov, A., &#38; Sunyaev, S. (2008). Hypermutable non-synonymous sites are under stronger negative selection. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1000281\">https://doi.org/10.1371/journal.pgen.1000281</a>","chicago":"Schmidt, Steffen, Anna Gerasimova, Fyodor Kondrashov, Ivan Adzuhbei, Alexey Kondrashov, and Shamil Sunyaev. “Hypermutable Non-Synonymous Sites Are under Stronger Negative Selection.” <i>PLoS Genetics</i>. Public Library of Science, 2008. <a href=\"https://doi.org/10.1371/journal.pgen.1000281\">https://doi.org/10.1371/journal.pgen.1000281</a>."},"day":"01","type":"journal_article","_id":"844","extern":1,"acknowledgement":"This work was supported in part by NIH grants R01 GM078598 and U54 LM008748.","quality_controlled":0,"issue":"11","publication":"PLoS Genetics","date_updated":"2021-01-12T08:19:16Z","volume":4,"publist_id":"6800","publisher":"Public Library of Science","title":"Hypermutable non-synonymous sites are under stronger negative selection","doi":"10.1371/journal.pgen.1000281","year":"2008","month":"11","date_published":"2008-11-01T00:00:00Z","date_created":"2018-12-11T11:48:48Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"}},{"type":"journal_article","publication_status":"published","citation":{"mla":"Schanda, Paul, et al. “Folding of the KIX Domain: Characterization of the Equilibrium Analog of a Folding Intermediate Using 15N/13C Relaxation Dispersion and Fast 1H/2H Amide Exchange NMR Spectroscopy.” <i>Journal of Molecular Biology</i>, vol. 380, no. 4, Elsevier, 2008, pp. 726–41, doi:<a href=\"https://doi.org/10.1016/j.jmb.2008.05.040\">10.1016/j.jmb.2008.05.040</a>.","ama":"Schanda P, Brutscher B, Konrat R, Tollinger M. Folding of the KIX domain: Characterization of the equilibrium analog of a folding intermediate using 15N/13C relaxation dispersion and fast 1H/2H amide exchange NMR spectroscopy. <i>Journal of Molecular Biology</i>. 2008;380(4):726-741. doi:<a href=\"https://doi.org/10.1016/j.jmb.2008.05.040\">10.1016/j.jmb.2008.05.040</a>","ista":"Schanda P, Brutscher B, Konrat R, Tollinger M. 2008. Folding of the KIX domain: Characterization of the equilibrium analog of a folding intermediate using 15N/13C relaxation dispersion and fast 1H/2H amide exchange NMR spectroscopy. Journal of Molecular Biology. 380(4), 726–741.","short":"P. Schanda, B. Brutscher, R. Konrat, M. Tollinger, Journal of Molecular Biology 380 (2008) 726–741.","apa":"Schanda, P., Brutscher, B., Konrat, R., &#38; Tollinger, M. (2008). Folding of the KIX domain: Characterization of the equilibrium analog of a folding intermediate using 15N/13C relaxation dispersion and fast 1H/2H amide exchange NMR spectroscopy. <i>Journal of Molecular Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jmb.2008.05.040\">https://doi.org/10.1016/j.jmb.2008.05.040</a>","ieee":"P. Schanda, B. Brutscher, R. Konrat, and M. Tollinger, “Folding of the KIX domain: Characterization of the equilibrium analog of a folding intermediate using 15N/13C relaxation dispersion and fast 1H/2H amide exchange NMR spectroscopy,” <i>Journal of Molecular Biology</i>, vol. 380, no. 4. Elsevier, pp. 726–741, 2008.","chicago":"Schanda, Paul, Bernhard Brutscher, Robert Konrat, and Martin Tollinger. “Folding of the KIX Domain: Characterization of the Equilibrium Analog of a Folding Intermediate Using 15N/13C Relaxation Dispersion and Fast 1H/2H Amide Exchange NMR Spectroscopy.” <i>Journal of Molecular Biology</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.jmb.2008.05.040\">https://doi.org/10.1016/j.jmb.2008.05.040</a>."},"day":"18","author":[{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","full_name":"Schanda, Paul","last_name":"Schanda","orcid":"0000-0002-9350-7606","first_name":"Paul"},{"full_name":"Brutscher, Bernhard","last_name":"Brutscher","first_name":"Bernhard"},{"last_name":"Konrat","full_name":"Konrat, Robert","first_name":"Robert"},{"last_name":"Tollinger","full_name":"Tollinger, Martin","first_name":"Martin"}],"keyword":["Molecular Biology"],"status":"public","abstract":[{"text":"The KIX domain of the transcription co-activator CBP is a three-helix bundle protein that folds via rapid accumulation of an intermediate state, followed by a slower folding phase. Recent NMR relaxation dispersion studies revealed the presence of a low-populated (excited) state of KIX that exists in equilibrium with the natively folded form under non-denaturing conditions, and likely represents the equilibrium analog of the folding intermediate. Here, we combine amide hydrogen/deuterium exchange measurements using rapid NMR data acquisition techniques with backbone 15N and 13C relaxation dispersion experiments to further investigate the equilibrium folding of the KIX domain. Residual structure within the folding intermediate is detected by both methods, and their combination enables reliable quantification of the amount of persistent residual structure. Three well-defined folding subunits are found, which display variable stability and correspond closely to the individual helices in the native state. While two of the three helices (α2 and α3) are partially formed in the folding intermediate (to ∼ 50% and ∼ 80%, respectively, at 20 °C), the third helix is disordered. The observed helical content within the excited state exceeds the helical propensities predicted for the corresponding peptide regions, suggesting that the two helices are weakly mutually stabilized, while methyl 13C relaxation dispersion data indicate that a defined packing arrangement is unlikely. Temperature-dependent experiments reveal that the largest enthalpy and entropy changes along the folding reaction occur during the final transition from the intermediate to the native state. Our experimental data are consistent with a folding mechanism where helices α2 and α3 form rapidly, although to different extents, while helix α1 consolidates only as folding proceeds to complete the native state-structure.","lang":"eng"}],"intvolume":"       380","date_updated":"2021-01-12T08:19:34Z","volume":380,"page":"726-741","article_processing_charge":"No","issue":"4","publication":"Journal of Molecular Biology","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","oa_version":"None","_id":"8480","extern":"1","publication_identifier":{"issn":["0022-2836"]},"article_type":"original","date_published":"2008-07-18T00:00:00Z","month":"07","year":"2008","doi":"10.1016/j.jmb.2008.05.040","language":[{"iso":"eng"}],"publisher":"Elsevier","title":"Folding of the KIX domain: Characterization of the equilibrium analog of a folding intermediate using 15N/13C relaxation dispersion and fast 1H/2H amide exchange NMR spectroscopy","date_created":"2020-09-18T10:12:29Z"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","oa_version":"None","_id":"8481","publication_identifier":{"issn":["0022-2836"]},"extern":"1","date_updated":"2021-01-12T08:19:34Z","volume":380,"page":"386-403","article_processing_charge":"No","issue":"2","publication":"Journal of Molecular Biology","keyword":["Molecular Biology"],"status":"public","author":[{"full_name":"Bersch, Beate","last_name":"Bersch","first_name":"Beate"},{"full_name":"Favier, Adrien","last_name":"Favier","first_name":"Adrien"},{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","first_name":"Paul","last_name":"Schanda","full_name":"Schanda, Paul","orcid":"0000-0002-9350-7606"},{"first_name":"Sébastien","full_name":"van Aelst, Sébastien","last_name":"van Aelst"},{"first_name":"Tatiana","full_name":"Vallaeys, Tatiana","last_name":"Vallaeys"},{"first_name":"Jacques","full_name":"Covès, Jacques","last_name":"Covès"},{"full_name":"Mergeay, Max","last_name":"Mergeay","first_name":"Max"},{"last_name":"Wattiez","full_name":"Wattiez, Ruddy","first_name":"Ruddy"}],"abstract":[{"lang":"eng","text":"The copK gene is localized on the pMOL30 plasmid of Cupriavidus metallidurans CH34 within the complex cop cluster of genes, for which 21 genes have been identified. The expression of the corresponding periplasmic CopK protein is strongly upregulated in the presence of copper, leading to a high periplasmic accumulation. The structure and metal-binding properties of CopK were investigated by NMR and mass spectrometry. The protein is dimeric in the apo state with a dissociation constant in the range of 10- 5 M estimated from analytical ultracentrifugation. Mass spectrometry revealed that CopK has two high-affinity Cu(I)-binding sites per monomer with different Cu(I) affinities. Binding of Cu(II) was observed but appeared to be non-specific. The solution structure of apo-CopK revealed an all-β fold formed of two β-sheets in perpendicular orientation with an unstructured C-terminal tail. The dimer interface is formed by the surface of the C-terminal β-sheet. Binding of the first Cu(I)-ion induces a major structural modification involving dissociation of the dimeric apo-protein. Backbone chemical shifts determined for the 1Cu(I)-bound form confirm the conservation of the N-terminal β-sheet, while the last strand of the C-terminal sheet appears in slow conformational exchange. We hypothesize that the partial disruption of the C-terminal β-sheet is related to dimer dissociation. NH-exchange data acquired on the apo-protein are consistent with a lower thermodynamic stability of the C-terminal sheet. CopK contains seven methionine residues, five of which appear highly conserved. Chemical shift data suggest implication of two or three methionines (Met54, Met38, Met28) in the first Cu(I) site. Addition of a second Cu(I) ion further increases protein plasticity. Comparison of the structural and metal-binding properties of CopK with other periplasmic copper-binding proteins reveals two conserved features within these functionally related proteins: the all-β fold and the methionine-rich Cu(I)-binding site."}],"intvolume":"       380","type":"journal_article","publication_status":"published","day":"04","citation":{"ista":"Bersch B, Favier A, Schanda P, van Aelst S, Vallaeys T, Covès J, Mergeay M, Wattiez R. 2008. Molecular structure and metal-binding properties of the periplasmic CopK protein expressed in Cupriavidus metallidurans CH34 during copper challenge. Journal of Molecular Biology. 380(2), 386–403.","short":"B. Bersch, A. Favier, P. Schanda, S. van Aelst, T. Vallaeys, J. Covès, M. Mergeay, R. Wattiez, Journal of Molecular Biology 380 (2008) 386–403.","ama":"Bersch B, Favier A, Schanda P, et al. Molecular structure and metal-binding properties of the periplasmic CopK protein expressed in Cupriavidus metallidurans CH34 during copper challenge. <i>Journal of Molecular Biology</i>. 2008;380(2):386-403. doi:<a href=\"https://doi.org/10.1016/j.jmb.2008.05.017\">10.1016/j.jmb.2008.05.017</a>","mla":"Bersch, Beate, et al. “Molecular Structure and Metal-Binding Properties of the Periplasmic CopK Protein Expressed in Cupriavidus Metallidurans CH34 during Copper Challenge.” <i>Journal of Molecular Biology</i>, vol. 380, no. 2, Elsevier, 2008, pp. 386–403, doi:<a href=\"https://doi.org/10.1016/j.jmb.2008.05.017\">10.1016/j.jmb.2008.05.017</a>.","chicago":"Bersch, Beate, Adrien Favier, Paul Schanda, Sébastien van Aelst, Tatiana Vallaeys, Jacques Covès, Max Mergeay, and Ruddy Wattiez. “Molecular Structure and Metal-Binding Properties of the Periplasmic CopK Protein Expressed in Cupriavidus Metallidurans CH34 during Copper Challenge.” <i>Journal of Molecular Biology</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.jmb.2008.05.017\">https://doi.org/10.1016/j.jmb.2008.05.017</a>.","ieee":"B. Bersch <i>et al.</i>, “Molecular structure and metal-binding properties of the periplasmic CopK protein expressed in Cupriavidus metallidurans CH34 during copper challenge,” <i>Journal of Molecular Biology</i>, vol. 380, no. 2. Elsevier, pp. 386–403, 2008.","apa":"Bersch, B., Favier, A., Schanda, P., van Aelst, S., Vallaeys, T., Covès, J., … Wattiez, R. (2008). Molecular structure and metal-binding properties of the periplasmic CopK protein expressed in Cupriavidus metallidurans CH34 during copper challenge. <i>Journal of Molecular Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jmb.2008.05.017\">https://doi.org/10.1016/j.jmb.2008.05.017</a>"},"date_created":"2020-09-18T10:12:37Z","language":[{"iso":"eng"}],"publisher":"Elsevier","title":"Molecular structure and metal-binding properties of the periplasmic CopK protein expressed in Cupriavidus metallidurans CH34 during copper challenge","article_type":"original","date_published":"2008-07-04T00:00:00Z","year":"2008","month":"07","doi":"10.1016/j.jmb.2008.05.017"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","quality_controlled":"1","_id":"8482","publication_identifier":{"issn":["1090-7807"]},"extern":"1","volume":190,"date_updated":"2021-01-12T08:19:35Z","article_processing_charge":"No","page":"333-338","issue":"2","publication":"Journal of Magnetic Resonance","keyword":["Nuclear and High Energy Physics","Biophysics","Biochemistry","Condensed Matter Physics"],"author":[{"first_name":"Thomas","last_name":"Kern","full_name":"Kern, Thomas"},{"first_name":"Paul","full_name":"Schanda, Paul","last_name":"Schanda","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425"},{"full_name":"Brutscher, Bernhard","last_name":"Brutscher","first_name":"Bernhard"}],"status":"public","abstract":[{"lang":"eng","text":"The SOFAST-HMQC experiment [P. Schanda, B. Brutscher, Very fast two-dimensional NMR spectroscopy for real-time investigation of dynamic events in proteins on the time scale of seconds, J. Am. Chem. Soc. 127 (2005) 8014–8015] allows recording two-dimensional correlation spectra of macromolecules such as proteins in only a few seconds acquisition time. To achieve the highest possible sensitivity, SOFAST-HMQC experiments are preferably performed on high-field NMR spectrometers equipped with cryogenically cooled probes. The duty cycle of over 80% in fast-pulsing SOFAST-HMQC experiments, however, may cause problems when using a cryogenic probe. Here we introduce SE-IPAP-SOFAST-HMQC, a new pulse sequence that provides comparable sensitivity to standard SOFAST-HMQC, while avoiding heteronuclear decoupling during 1H detection, and thus significantly reducing the radiofrequency load of the probe during the experiment. The experiment is also attractive for fast and sensitive measurement of heteronuclear one-bond spin coupling constants."}],"intvolume":"       190","type":"journal_article","publication_status":"published","day":"01","citation":{"ista":"Kern T, Schanda P, Brutscher B. 2008. Sensitivity-enhanced IPAP-SOFAST-HMQC for fast-pulsing 2D NMR with reduced radiofrequency load. Journal of Magnetic Resonance. 190(2), 333–338.","short":"T. Kern, P. Schanda, B. Brutscher, Journal of Magnetic Resonance 190 (2008) 333–338.","mla":"Kern, Thomas, et al. “Sensitivity-Enhanced IPAP-SOFAST-HMQC for Fast-Pulsing 2D NMR with Reduced Radiofrequency Load.” <i>Journal of Magnetic Resonance</i>, vol. 190, no. 2, Elsevier, 2008, pp. 333–38, doi:<a href=\"https://doi.org/10.1016/j.jmr.2007.11.015\">10.1016/j.jmr.2007.11.015</a>.","ama":"Kern T, Schanda P, Brutscher B. Sensitivity-enhanced IPAP-SOFAST-HMQC for fast-pulsing 2D NMR with reduced radiofrequency load. <i>Journal of Magnetic Resonance</i>. 2008;190(2):333-338. doi:<a href=\"https://doi.org/10.1016/j.jmr.2007.11.015\">10.1016/j.jmr.2007.11.015</a>","chicago":"Kern, Thomas, Paul Schanda, and Bernhard Brutscher. “Sensitivity-Enhanced IPAP-SOFAST-HMQC for Fast-Pulsing 2D NMR with Reduced Radiofrequency Load.” <i>Journal of Magnetic Resonance</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.jmr.2007.11.015\">https://doi.org/10.1016/j.jmr.2007.11.015</a>.","apa":"Kern, T., Schanda, P., &#38; Brutscher, B. (2008). Sensitivity-enhanced IPAP-SOFAST-HMQC for fast-pulsing 2D NMR with reduced radiofrequency load. <i>Journal of Magnetic Resonance</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jmr.2007.11.015\">https://doi.org/10.1016/j.jmr.2007.11.015</a>","ieee":"T. Kern, P. Schanda, and B. Brutscher, “Sensitivity-enhanced IPAP-SOFAST-HMQC for fast-pulsing 2D NMR with reduced radiofrequency load,” <i>Journal of Magnetic Resonance</i>, vol. 190, no. 2. Elsevier, pp. 333–338, 2008."},"date_created":"2020-09-18T10:12:46Z","language":[{"iso":"eng"}],"publisher":"Elsevier","title":"Sensitivity-enhanced IPAP-SOFAST-HMQC for fast-pulsing 2D NMR with reduced radiofrequency load","article_type":"letter_note","date_published":"2008-02-01T00:00:00Z","year":"2008","doi":"10.1016/j.jmr.2007.11.015","month":"02"},{"date_created":"2020-09-18T10:48:12Z","year":"2008","month":"11","doi":"10.1137/070703235","article_type":"original","date_published":"2008-11-05T00:00:00Z","publisher":"Society for Industrial & Applied Mathematics","title":"Geometry of Arnold diffusion","language":[{"iso":"eng"}],"issue":"4","publication":"SIAM Review","date_updated":"2021-01-12T08:19:46Z","volume":50,"article_processing_charge":"No","page":"702-720","_id":"8509","extern":"1","publication_identifier":{"issn":["0036-1445","1095-7200"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"None","quality_controlled":"1","publication_status":"published","citation":{"short":"V. Kaloshin, M. Levi, SIAM Review 50 (2008) 702–720.","ista":"Kaloshin V, Levi M. 2008. Geometry of Arnold diffusion. SIAM Review. 50(4), 702–720.","ama":"Kaloshin V, Levi M. Geometry of Arnold diffusion. <i>SIAM Review</i>. 2008;50(4):702-720. doi:<a href=\"https://doi.org/10.1137/070703235\">10.1137/070703235</a>","mla":"Kaloshin, Vadim, and Mark Levi. “Geometry of Arnold Diffusion.” <i>SIAM Review</i>, vol. 50, no. 4, Society for Industrial &#38; Applied Mathematics, 2008, pp. 702–20, doi:<a href=\"https://doi.org/10.1137/070703235\">10.1137/070703235</a>.","chicago":"Kaloshin, Vadim, and Mark Levi. “Geometry of Arnold Diffusion.” <i>SIAM Review</i>. Society for Industrial &#38; Applied Mathematics, 2008. <a href=\"https://doi.org/10.1137/070703235\">https://doi.org/10.1137/070703235</a>.","ieee":"V. Kaloshin and M. Levi, “Geometry of Arnold diffusion,” <i>SIAM Review</i>, vol. 50, no. 4. Society for Industrial &#38; Applied Mathematics, pp. 702–720, 2008.","apa":"Kaloshin, V., &#38; Levi, M. (2008). Geometry of Arnold diffusion. <i>SIAM Review</i>. Society for Industrial &#38; Applied Mathematics. <a href=\"https://doi.org/10.1137/070703235\">https://doi.org/10.1137/070703235</a>"},"day":"05","type":"journal_article","abstract":[{"lang":"eng","text":"The goal of this paper is to present to nonspecialists what is perhaps the simplest possible geometrical picture explaining the mechanism of Arnold diffusion. We choose to speak of a specific model—that of geometric rays in a periodic optical medium. This model is equivalent to that of a particle in a periodic potential in ${\\mathbb R}^{n}$ with energy prescribed and to the geodesic flow in a Riemannian metric on ${\\mathbb R}^{n} $."}],"intvolume":"        50","keyword":["Theoretical Computer Science","Applied Mathematics","Computational Mathematics"],"author":[{"id":"FE553552-CDE8-11E9-B324-C0EBE5697425","last_name":"Kaloshin","full_name":"Kaloshin, Vadim","orcid":"0000-0002-6051-2628","first_name":"Vadim"},{"last_name":"Levi","full_name":"Levi, Mark","first_name":"Mark"}],"status":"public"},{"status":"public","author":[{"first_name":"Vadim","full_name":"Kaloshin, Vadim","last_name":"Kaloshin","orcid":"0000-0002-6051-2628","id":"FE553552-CDE8-11E9-B324-C0EBE5697425"},{"first_name":"Mark","last_name":"Levi","full_name":"Levi, Mark"}],"keyword":["Applied Mathematics","General Mathematics"],"intvolume":"        45","abstract":[{"text":"In this paper, using the ideas of Bessi and Mather, we present a simple mechanical system exhibiting Arnold diffusion. This system of a particle in a small periodic potential can be also interpreted as ray propagation in a periodic optical medium with a near-constant index of refraction. Arnold diffusion in this context manifests itself as an arbitrary finite change of direction for nearly constant index of refraction.","lang":"eng"}],"type":"journal_article","day":"01","citation":{"chicago":"Kaloshin, Vadim, and Mark Levi. “An Example of Arnold Diffusion for Near-Integrable Hamiltonians.” <i>Bulletin of the American Mathematical Society</i>. American Mathematical Society, 2008. <a href=\"https://doi.org/10.1090/s0273-0979-08-01211-1\">https://doi.org/10.1090/s0273-0979-08-01211-1</a>.","apa":"Kaloshin, V., &#38; Levi, M. (2008). An example of Arnold diffusion for near-integrable Hamiltonians. <i>Bulletin of the American Mathematical Society</i>. American Mathematical Society. <a href=\"https://doi.org/10.1090/s0273-0979-08-01211-1\">https://doi.org/10.1090/s0273-0979-08-01211-1</a>","ieee":"V. Kaloshin and M. Levi, “An example of Arnold diffusion for near-integrable Hamiltonians,” <i>Bulletin of the American Mathematical Society</i>, vol. 45, no. 3. American Mathematical Society, pp. 409–427, 2008.","short":"V. Kaloshin, M. Levi, Bulletin of the American Mathematical Society 45 (2008) 409–427.","ista":"Kaloshin V, Levi M. 2008. An example of Arnold diffusion for near-integrable Hamiltonians. Bulletin of the American Mathematical Society. 45(3), 409–427.","mla":"Kaloshin, Vadim, and Mark Levi. “An Example of Arnold Diffusion for Near-Integrable Hamiltonians.” <i>Bulletin of the American Mathematical Society</i>, vol. 45, no. 3, American Mathematical Society, 2008, pp. 409–27, doi:<a href=\"https://doi.org/10.1090/s0273-0979-08-01211-1\">10.1090/s0273-0979-08-01211-1</a>.","ama":"Kaloshin V, Levi M. An example of Arnold diffusion for near-integrable Hamiltonians. <i>Bulletin of the American Mathematical Society</i>. 2008;45(3):409-427. doi:<a href=\"https://doi.org/10.1090/s0273-0979-08-01211-1\">10.1090/s0273-0979-08-01211-1</a>"},"publication_status":"published","oa_version":"None","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["0273-0979"]},"extern":"1","_id":"8510","article_processing_charge":"No","page":"409-427","volume":45,"date_updated":"2021-01-12T08:19:47Z","publication":"Bulletin of the American Mathematical Society","issue":"3","language":[{"iso":"eng"}],"title":"An example of Arnold diffusion for near-integrable Hamiltonians","publisher":"American Mathematical Society","article_type":"original","date_published":"2008-07-01T00:00:00Z","month":"07","year":"2008","doi":"10.1090/s0273-0979-08-01211-1","date_created":"2020-09-18T10:48:20Z"},{"publisher":"BioMed Central","title":"Evolution of a behavior-linked microsatellite-containing element in the 5′ flanking region of the primate AVPR1A gene","date_published":"2008-01-01T00:00:00Z","year":"2008","doi":"10.1186/1471-2148-8-180","month":"01","date_created":"2018-12-11T11:49:04Z","tmp":{"image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"status":"public","author":[{"first_name":"Zoe","last_name":"Donaldson","full_name":"Donaldson, Zoe R"},{"first_name":"Fyodor","full_name":"Fyodor Kondrashov","last_name":"Kondrashov","orcid":"0000-0001-8243-4694","id":"44FDEF62-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Andrea","last_name":"Putnam","full_name":"Putnam, Andrea S"},{"first_name":"Yaohui","full_name":"Bai, Yaohui","last_name":"Bai"},{"last_name":"Stoinski","full_name":"Stoinski, Tara S","first_name":"Tara"},{"full_name":"Hammock, Elizabeth A","last_name":"Hammock","first_name":"Elizabeth"},{"full_name":"Young, Larry","last_name":"Young","first_name":"Larry"}],"abstract":[{"lang":"eng","text":"Background. The arginine vasopressin V1a receptor (V1aR) modulates social cognition and behavior in a wide variety of species. Variation in a repetitive microsatellite element in the 5′ flanking region of the V1aR gene (AVPR1A) in rodents has been associated with variation in brain V1aR expression and in social behavior. In humans, the 5′ flanking region of AVPR1A contains a tandem duplication of two ∼350 bp, microsatellite-containing elements located approximately 3.5 kb upstream of the transcription start site. The first block, referred to as DupA, contains a polymorphic (GT) 25microsatellite; the second block, DupB, has a complex (CT) 4-(TT)-(CT)8-(GT)24polymorphic motif, known as RS3. Polymorphisms in RS3 have been associated with variation in sociobehavioral traits in humans, including autism spectrum disorders. Thus, evolution of these regions may have contributed to variation in social behavior in primates. We examined the structure of these regions in six ape, six monkey, and one prosimian species. Results. Both tandem repeat blocks are present upstream of the AVPR1A coding region in five of the ape species we investigated, while monkeys have only one copy of this region. As in humans, the microsatellites within DupA and DupB are polymorphic in many primate species. Furthermore, both single (lacking DupB) and duplicated alleles (containing both DupA and DupB) are present in chimpanzee (Pan troglodytes) populations with allele frequencies of 0.795 and 0.205 for the single and duplicated alleles, respectively, based on the analysis of 47 wild-caught individuals. Finally, a phylogenetic reconstruction suggests two alternate evolutionary histories for this locus. Conclusion. There is no obvious relationship between the presence of the RS3 duplication and social organization in primates. However, polymorphisms identified in some species may be useful in future genetic association studies. In particular, the presence of both single and duplicated alleles in chimpanzees provides a unique opportunity to assess the functional role of this duplication in contributing to variation in social behavior in primates. While our initial studies show no signs of directional selection on this locus in chimps, pharmacological and genetic association studies support a potential role for this region in influencing V1aR expression and social behavior."}],"intvolume":"         8","type":"journal_article","publication_status":"published","citation":{"mla":"Donaldson, Zoe, et al. “Evolution of a Behavior-Linked Microsatellite-Containing Element in the 5′ Flanking Region of the Primate AVPR1A Gene.” <i>BMC Evolutionary Biology</i>, vol. 8, no. 1, BioMed Central, 2008, doi:<a href=\"https://doi.org/10.1186/1471-2148-8-180\">10.1186/1471-2148-8-180</a>.","ama":"Donaldson Z, Kondrashov F, Putnam A, et al. Evolution of a behavior-linked microsatellite-containing element in the 5′ flanking region of the primate AVPR1A gene. <i>BMC Evolutionary Biology</i>. 2008;8(1). doi:<a href=\"https://doi.org/10.1186/1471-2148-8-180\">10.1186/1471-2148-8-180</a>","ista":"Donaldson Z, Kondrashov F, Putnam A, Bai Y, Stoinski T, Hammock E, Young L. 2008. Evolution of a behavior-linked microsatellite-containing element in the 5′ flanking region of the primate AVPR1A gene. BMC Evolutionary Biology. 8(1).","short":"Z. Donaldson, F. Kondrashov, A. Putnam, Y. Bai, T. Stoinski, E. Hammock, L. Young, BMC Evolutionary Biology 8 (2008).","apa":"Donaldson, Z., Kondrashov, F., Putnam, A., Bai, Y., Stoinski, T., Hammock, E., &#38; Young, L. (2008). Evolution of a behavior-linked microsatellite-containing element in the 5′ flanking region of the primate AVPR1A gene. <i>BMC Evolutionary Biology</i>. BioMed Central. <a href=\"https://doi.org/10.1186/1471-2148-8-180\">https://doi.org/10.1186/1471-2148-8-180</a>","ieee":"Z. Donaldson <i>et al.</i>, “Evolution of a behavior-linked microsatellite-containing element in the 5′ flanking region of the primate AVPR1A gene,” <i>BMC Evolutionary Biology</i>, vol. 8, no. 1. BioMed Central, 2008.","chicago":"Donaldson, Zoe, Fyodor Kondrashov, Andrea Putnam, Yaohui Bai, Tara Stoinski, Elizabeth Hammock, and Larry Young. “Evolution of a Behavior-Linked Microsatellite-Containing Element in the 5′ Flanking Region of the Primate AVPR1A Gene.” <i>BMC Evolutionary Biology</i>. BioMed Central, 2008. <a href=\"https://doi.org/10.1186/1471-2148-8-180\">https://doi.org/10.1186/1471-2148-8-180</a>."},"day":"01","acknowledgement":"We thank the caretakers at Zoo Atlanta and Yerkes National Primate Center for help with procuring specimens. Additional DNA samples were supplied by Bill Hopkins, Emory University (chimpanzee), Allyson Bennet, Wake Forest University (chimpanzee, rhesus macaque, bonnet macaque), Mar Sanchez, Emory University (rhesus macaque), and Anne Yoder, Duke University (galago). Susan Lambeth, M.D. Anderson Cancer Center, and Katie Chace, Yerkes National Primate Center, helped provide records regarding the origins of wild born chimps at these centers. We would like to thank Dr Lisa McGraw and two anonymous reviewers for their com- ments on this manuscript. This work was supported by NSF IBN-9876754, NIH RR00165, NIMH56897 (LJY), MH64692 (LJY) and a Howard Hughes Predoctoral Fellowship (ZRD).\n","quality_controlled":0,"_id":"895","extern":1,"volume":8,"date_updated":"2021-01-12T08:21:29Z","publist_id":"6753","issue":"1","publication":"BMC Evolutionary Biology"},{"status":"public","author":[{"first_name":"Anna","full_name":"Anna Kicheva","last_name":"Kicheva","orcid":"0000-0003-4509-4998","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Marcos","full_name":"González-Gaitán, Marcos A","last_name":"González Gaitán"}],"intvolume":"        20","abstract":[{"text":"Two key processes are in the basis of morphogenesis: the spatial allocation of cell types in fields of naïve cells and the regulation of growth. Both are controlled by morphogens, which activate target genes in the growing tissue in a concentration-dependent manner. Thus the morphogen model is an intrinsically quantitative concept. However, quantitative studies were performed only in recent years on two morphogens: Bicoid and Decapentaplegic. This review covers quantitative aspects of the formation and precision of the Decapentaplegic morphogen gradient. The morphogen gradient concept is transitioning from a soft definition to a precise idea of what the gradient could really do.","lang":"eng"}],"type":"journal_article","publication_status":"published","citation":{"chicago":"Kicheva, Anna, and Marcos González Gaitán. “The Decapentaplegic Morphogen Gradient a Precise Definition.” <i>Current Opinion in Cell Biology</i>. Elsevier, 2008. <a href=\"https://doi.org/10.1016/j.ceb.2008.01.008\">https://doi.org/10.1016/j.ceb.2008.01.008</a>.","apa":"Kicheva, A., &#38; González Gaitán, M. (2008). The Decapentaplegic morphogen gradient a precise definition. <i>Current Opinion in Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ceb.2008.01.008\">https://doi.org/10.1016/j.ceb.2008.01.008</a>","ieee":"A. Kicheva and M. González Gaitán, “The Decapentaplegic morphogen gradient a precise definition,” <i>Current Opinion in Cell Biology</i>, vol. 20, no. 2. Elsevier, pp. 137–143, 2008.","short":"A. Kicheva, M. González Gaitán, Current Opinion in Cell Biology 20 (2008) 137–143.","ista":"Kicheva A, González Gaitán M. 2008. The Decapentaplegic morphogen gradient a precise definition. Current Opinion in Cell Biology. 20(2), 137–143.","ama":"Kicheva A, González Gaitán M. The Decapentaplegic morphogen gradient a precise definition. <i>Current Opinion in Cell Biology</i>. 2008;20(2):137-143. doi:<a href=\"https://doi.org/10.1016/j.ceb.2008.01.008\">10.1016/j.ceb.2008.01.008</a>","mla":"Kicheva, Anna, and Marcos González Gaitán. “The Decapentaplegic Morphogen Gradient a Precise Definition.” <i>Current Opinion in Cell Biology</i>, vol. 20, no. 2, Elsevier, 2008, pp. 137–43, doi:<a href=\"https://doi.org/10.1016/j.ceb.2008.01.008\">10.1016/j.ceb.2008.01.008</a>."},"day":"01","acknowledgement":"This work was supported by the University of Geneva, Max Planck Society, VW, EU, SNF, and HFSP","quality_controlled":0,"_id":"1717","extern":1,"date_updated":"2021-01-12T06:52:44Z","volume":20,"publist_id":"5412","page":"137 - 143","issue":"2","publication":"Current Opinion in Cell Biology","publisher":"Elsevier","title":"The Decapentaplegic morphogen gradient a precise definition","date_published":"2008-04-01T00:00:00Z","doi":"10.1016/j.ceb.2008.01.008","month":"04","year":"2008","date_created":"2018-12-11T11:53:38Z"},{"date_created":"2018-12-11T11:53:39Z","year":"2008","doi":"10.1088/1367-2630/10/6/063001","month":"06","date_published":"2008-06-03T00:00:00Z","publisher":"IOP Publishing Ltd.","title":"Dynamics of anisotropic tissue growth","publication":"New Journal of Physics","publist_id":"5411","date_updated":"2021-01-12T06:52:44Z","volume":10,"_id":"1719","extern":1,"quality_controlled":0,"publication_status":"published","citation":{"ama":"Bittig T, Wartlick O, Kicheva A, González Gaitárr M, Julicher F. Dynamics of anisotropic tissue growth. <i>New Journal of Physics</i>. 2008;10. doi:<a href=\"https://doi.org/10.1088/1367-2630/10/6/063001\">10.1088/1367-2630/10/6/063001</a>","mla":"Bittig, Thomas, et al. “Dynamics of Anisotropic Tissue Growth.” <i>New Journal of Physics</i>, vol. 10, IOP Publishing Ltd., 2008, doi:<a href=\"https://doi.org/10.1088/1367-2630/10/6/063001\">10.1088/1367-2630/10/6/063001</a>.","ista":"Bittig T, Wartlick O, Kicheva A, González Gaitárr M, Julicher F. 2008. Dynamics of anisotropic tissue growth. New Journal of Physics. 10.","short":"T. Bittig, O. Wartlick, A. Kicheva, M. González Gaitárr, F. Julicher, New Journal of Physics 10 (2008).","ieee":"T. Bittig, O. Wartlick, A. Kicheva, M. González Gaitárr, and F. Julicher, “Dynamics of anisotropic tissue growth,” <i>New Journal of Physics</i>, vol. 10. IOP Publishing Ltd., 2008.","apa":"Bittig, T., Wartlick, O., Kicheva, A., González Gaitárr, M., &#38; Julicher, F. (2008). Dynamics of anisotropic tissue growth. <i>New Journal of Physics</i>. IOP Publishing Ltd. <a href=\"https://doi.org/10.1088/1367-2630/10/6/063001\">https://doi.org/10.1088/1367-2630/10/6/063001</a>","chicago":"Bittig, Thomas, Ortrud Wartlick, Anna Kicheva, Marcos González Gaitárr, and Frank Julicher. “Dynamics of Anisotropic Tissue Growth.” <i>New Journal of Physics</i>. IOP Publishing Ltd., 2008. <a href=\"https://doi.org/10.1088/1367-2630/10/6/063001\">https://doi.org/10.1088/1367-2630/10/6/063001</a>."},"day":"03","type":"journal_article","abstract":[{"lang":"eng","text":"We study the mechanics of tissue growth via cell division and cell death (apoptosis). The rearrangements of cells can on large scales and times be captured by a continuum theory which describes the tissue as an effective viscous material with active stresses generated by cell division. We study the effects of anisotropies of cell division on cell rearrangements and show that average cellular trajectories exhibit anisotropic scaling behaviors. If cell division and apoptosis balance, there is no net growth, but for anisotropic cell division the tissue undergoes spontaneous shear deformations. Our description is relevant for the study of developing tissues such as the imaginal disks of the fruit fly Drosophila melanogaster, which grow anisotropically."}],"intvolume":"        10","status":"public","author":[{"last_name":"Bittig","full_name":"Bittig, Thomas","first_name":"Thomas"},{"first_name":"Ortrud","full_name":"Wartlick, Ortrud","last_name":"Wartlick"},{"first_name":"Anna","last_name":"Kicheva","full_name":"Anna Kicheva","orcid":"0000-0003-4509-4998","id":"3959A2A0-F248-11E8-B48F-1D18A9856A87"},{"last_name":"González Gaitárr","full_name":"González-Gaitárr, Marcos","first_name":"Marcos"},{"last_name":"Julicher","full_name":"Julicher, Frank","first_name":"Frank"}]},{"publisher":"American Chemical Society","title":"Three-dimensional composition profiles of single quantum dots determined by scanning-probe-microscopy-based nanotomography","year":"2008","doi":"10.1021/nl080290y","month":"05","date_published":"2008-05-01T00:00:00Z","date_created":"2018-12-11T11:53:48Z","abstract":[{"text":"Scanning probe microscopy; Semiconductor quantum dots; Composition gradients; Composition profiles; Nanotomography; Single quantum dots; Strained sige/si; Three-dimensional (3D); Wet-chemical etchings; X-ray scattering measurements; quantum dot; methodology; nanotechnology; optical tomography; scanning probe microscopy; three dimensional imaging; Imaging, Three-Dimensional; Materials Testing; Microscopy, Scanning Probe; Nanotechnology; Quantum Dots; Tomography,","lang":"eng"}],"intvolume":"         8","author":[{"first_name":"Armando","full_name":"Rastelli, Armando","last_name":"Rastelli"},{"first_name":"Mathieu","last_name":"Stoffel","full_name":"Stoffel, Mathieu"},{"last_name":"Malachias","full_name":"Malachias, Ângelo S","first_name":"Ângelo"},{"first_name":"Tsvetelina","full_name":"Merdzhanova, Tsvetelina","last_name":"Merdzhanova"},{"full_name":"Georgios Katsaros","last_name":"Katsaros","first_name":"Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Klaus","last_name":"Kern","full_name":"Kern, Klaus"},{"last_name":"Metzger","full_name":"Metzger, Till H","first_name":"Till"},{"first_name":"Oliver","last_name":"Schmidt","full_name":"Schmidt, Oliver G"}],"status":"public","publication_status":"published","day":"01","citation":{"ista":"Rastelli A, Stoffel M, Malachias Â, Merdzhanova T, Katsaros G, Kern K, Metzger T, Schmidt O. 2008. Three-dimensional composition profiles of single quantum dots determined by scanning-probe-microscopy-based nanotomography. Nano Letters. 8(5), 1404–1409.","short":"A. Rastelli, M. Stoffel, Â. Malachias, T. Merdzhanova, G. Katsaros, K. Kern, T. Metzger, O. Schmidt, Nano Letters 8 (2008) 1404–1409.","ama":"Rastelli A, Stoffel M, Malachias Â, et al. Three-dimensional composition profiles of single quantum dots determined by scanning-probe-microscopy-based nanotomography. <i>Nano Letters</i>. 2008;8(5):1404-1409. doi:<a href=\"https://doi.org/10.1021/nl080290y\">10.1021/nl080290y</a>","mla":"Rastelli, Armando, et al. “Three-Dimensional Composition Profiles of Single Quantum Dots Determined by Scanning-Probe-Microscopy-Based Nanotomography.” <i>Nano Letters</i>, vol. 8, no. 5, American Chemical Society, 2008, pp. 1404–09, doi:<a href=\"https://doi.org/10.1021/nl080290y\">10.1021/nl080290y</a>.","chicago":"Rastelli, Armando, Mathieu Stoffel, Ângelo Malachias, Tsvetelina Merdzhanova, Georgios Katsaros, Klaus Kern, Till Metzger, and Oliver Schmidt. “Three-Dimensional Composition Profiles of Single Quantum Dots Determined by Scanning-Probe-Microscopy-Based Nanotomography.” <i>Nano Letters</i>. American Chemical Society, 2008. <a href=\"https://doi.org/10.1021/nl080290y\">https://doi.org/10.1021/nl080290y</a>.","apa":"Rastelli, A., Stoffel, M., Malachias, Â., Merdzhanova, T., Katsaros, G., Kern, K., … Schmidt, O. (2008). Three-dimensional composition profiles of single quantum dots determined by scanning-probe-microscopy-based nanotomography. <i>Nano Letters</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/nl080290y\">https://doi.org/10.1021/nl080290y</a>","ieee":"A. Rastelli <i>et al.</i>, “Three-dimensional composition profiles of single quantum dots determined by scanning-probe-microscopy-based nanotomography,” <i>Nano Letters</i>, vol. 8, no. 5. American Chemical Society, pp. 1404–1409, 2008."},"type":"journal_article","_id":"1749","extern":1,"acknowledgement":"This work was supported by the BMBF (No. 03N8711) and the EU project D-DotFET (No. 012150)","quality_controlled":0,"issue":"5","publication":"Nano Letters","date_updated":"2021-01-12T06:52:57Z","publist_id":"5374","volume":8,"page":"1404 - 1409"},{"publisher":"American Physical Society","title":"Positioning of strained islands by interaction with surface nanogrooves","year":"2008","month":"08","doi":"10.1103/PhysRevLett.101.096103","date_published":"2008-08-29T00:00:00Z","date_created":"2018-12-11T11:53:49Z","intvolume":"       101","abstract":[{"text":"When strained Stranski-Krastanow islands are used as &quot;self-assembled quantum dots,&quot; a key goal is to control the island position. Here we show that nanoscale grooves can control the nucleation of epitaxial Ge islands on Si(001), and can drive lateral motion of existing islands onto the grooves, even when the grooves are very narrow and shallow compared to the islands. A position centered on the groove minimizes energy. We use as prototype grooves the trenches which form naturally around islands. During coarsening, the shrinking islands move laterally to sit directly astride that trench. In subsequent growth, we demonstrate that islands nucleate on the &quot;empty trenches&quot; which remain on the surface after complete dissolution of the original islands.","lang":"eng"}],"author":[{"first_name":"Georgios","full_name":"Georgios Katsaros","last_name":"Katsaros","id":"38DB5788-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jerry","last_name":"Tersoff","full_name":"Tersoff, Jerry"},{"last_name":"Stoffel","full_name":"Stoffel, Mathieu","first_name":"Mathieu"},{"first_name":"Armando","last_name":"Rastelli","full_name":"Rastelli, Armando"},{"last_name":"Acosta Diaz","full_name":"Acosta-Diaz, P","first_name":"P"},{"first_name":"Gouranga","full_name":"Kar, Gouranga S","last_name":"Kar"},{"full_name":"Costantini, Giovanni","last_name":"Costantini","first_name":"Giovanni"},{"first_name":"Oliver","last_name":"Schmidt","full_name":"Schmidt, Oliver G"},{"last_name":"Kern","full_name":"Kern, Klaus","first_name":"Klaus"}],"status":"public","publication_status":"published","citation":{"apa":"Katsaros, G., Tersoff, J., Stoffel, M., Rastelli, A., Acosta Diaz, P., Kar, G., … Kern, K. (2008). Positioning of strained islands by interaction with surface nanogrooves. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.101.096103\">https://doi.org/10.1103/PhysRevLett.101.096103</a>","ieee":"G. Katsaros <i>et al.</i>, “Positioning of strained islands by interaction with surface nanogrooves,” <i>Physical Review Letters</i>, vol. 101, no. 9. American Physical Society, 2008.","chicago":"Katsaros, Georgios, Jerry Tersoff, Mathieu Stoffel, Armando Rastelli, P Acosta Diaz, Gouranga Kar, Giovanni Costantini, Oliver Schmidt, and Klaus Kern. “Positioning of Strained Islands by Interaction with Surface Nanogrooves.” <i>Physical Review Letters</i>. American Physical Society, 2008. <a href=\"https://doi.org/10.1103/PhysRevLett.101.096103\">https://doi.org/10.1103/PhysRevLett.101.096103</a>.","mla":"Katsaros, Georgios, et al. “Positioning of Strained Islands by Interaction with Surface Nanogrooves.” <i>Physical Review Letters</i>, vol. 101, no. 9, American Physical Society, 2008, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.101.096103\">10.1103/PhysRevLett.101.096103</a>.","ama":"Katsaros G, Tersoff J, Stoffel M, et al. Positioning of strained islands by interaction with surface nanogrooves. <i>Physical Review Letters</i>. 2008;101(9). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.101.096103\">10.1103/PhysRevLett.101.096103</a>","ista":"Katsaros G, Tersoff J, Stoffel M, Rastelli A, Acosta Diaz P, Kar G, Costantini G, Schmidt O, Kern K. 2008. Positioning of strained islands by interaction with surface nanogrooves. Physical Review Letters. 101(9).","short":"G. Katsaros, J. Tersoff, M. Stoffel, A. Rastelli, P. Acosta Diaz, G. Kar, G. Costantini, O. Schmidt, K. Kern, Physical Review Letters 101 (2008)."},"day":"29","type":"journal_article","_id":"1751","extern":1,"quality_controlled":0,"issue":"9","publication":"Physical Review Letters","volume":101,"publist_id":"5373","date_updated":"2021-01-12T06:52:58Z"},{"main_file_link":[{"open_access":"1","url":"http://arxiv.org/abs/0902.1827"}],"date_created":"2018-12-11T11:53:53Z","year":"2008","month":"07","doi":"10.1038/nature07112","date_published":"2008-07-17T00:00:00Z","publisher":"Nature Publishing Group","title":"Climbing the Jaynes-Cummings ladder and observing its √n nonlinearity in a cavity QED system","issue":"7202","publication":"Nature","volume":454,"oa":1,"publist_id":"5358","date_updated":"2021-01-12T06:53:03Z","page":"315 - 318","_id":"1763","extern":1,"acknowledgement":"This work was supported by SNF and ETHZ. P.J.L. was supported by the EU with an MC-EIF. A.B. was supported by NSERC, CIFAR and FQRNT","quality_controlled":0,"publication_status":"published","citation":{"apa":"Fink, J. M., Göppl, M., Baur, M., Bianchetti, R., Leek, P., Blais, A., &#38; Wallraff, A. (2008). Climbing the Jaynes-Cummings ladder and observing its √n nonlinearity in a cavity QED system. <i>Nature</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/nature07112\">https://doi.org/10.1038/nature07112</a>","ieee":"J. M. Fink <i>et al.</i>, “Climbing the Jaynes-Cummings ladder and observing its √n nonlinearity in a cavity QED system,” <i>Nature</i>, vol. 454, no. 7202. Nature Publishing Group, pp. 315–318, 2008.","chicago":"Fink, Johannes M, M Göppl, Matthias Baur, R Bianchetti, Peter Leek, Alexandre Blais, and Andreas Wallraff. “Climbing the Jaynes-Cummings Ladder and Observing Its √n Nonlinearity in a Cavity QED System.” <i>Nature</i>. Nature Publishing Group, 2008. <a href=\"https://doi.org/10.1038/nature07112\">https://doi.org/10.1038/nature07112</a>.","mla":"Fink, Johannes M., et al. “Climbing the Jaynes-Cummings Ladder and Observing Its √n Nonlinearity in a Cavity QED System.” <i>Nature</i>, vol. 454, no. 7202, Nature Publishing Group, 2008, pp. 315–18, doi:<a href=\"https://doi.org/10.1038/nature07112\">10.1038/nature07112</a>.","ama":"Fink JM, Göppl M, Baur M, et al. Climbing the Jaynes-Cummings ladder and observing its √n nonlinearity in a cavity QED system. <i>Nature</i>. 2008;454(7202):315-318. doi:<a href=\"https://doi.org/10.1038/nature07112\">10.1038/nature07112</a>","short":"J.M. Fink, M. Göppl, M. Baur, R. Bianchetti, P. Leek, A. Blais, A. Wallraff, Nature 454 (2008) 315–318.","ista":"Fink JM, Göppl M, Baur M, Bianchetti R, Leek P, Blais A, Wallraff A. 2008. Climbing the Jaynes-Cummings ladder and observing its √n nonlinearity in a cavity QED system. Nature. 454(7202), 315–318."},"day":"17","type":"journal_article","abstract":[{"lang":"eng","text":"The field of cavity quantum electrodynamics (QED), traditionally studied in atomic systems, has gained new momentum by recent reports of quantum optical experiments with solid-state semiconducting and superconducting systems. In cavity QED, the observation of the vacuum Rabi mode splitting is used to investigate the nature of matter-light interaction at a quantum-mechanical level. However, this effect can, at least in principle, be explained classically as the normal mode splitting of two coupled linear oscillators. It has been suggested that an observation of the scaling of the resonant atom-photon coupling strength in the Jaynes-Cummings energy ladder with the square root of photon number n is sufficient to prove that the system is quantum mechanical in nature. Here we report a direct spectroscopic observation of this characteristic quantum nonlinearity. Measuring the photonic degree of freedom of the coupled system, our measurements provide unambiguous spectroscopic evidence for the quantum nature of the resonant atom-field interaction in cavity QED. We explore atom-photon superposition states involving up to two photons, using a spectroscopic pump and probe technique. The experiments have been performed in a circuit QED set-up, in which very strong coupling is realized by the large dipole coupling strength and the long coherence time of a superconducting qubit embedded in a high-quality on-chip microwave cavity. Circuit QED systems also provide a natural quantum interface between flying qubits (photons) and stationary qubits for applications in quantum information processing and communication."}],"intvolume":"       454","status":"public","author":[{"orcid":"0000-0001-8112-028X","full_name":"Johannes Fink","last_name":"Fink","first_name":"Johannes M","id":"4B591CBA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"M","last_name":"Göppl","full_name":"Göppl, M"},{"first_name":"Matthias","full_name":"Baur, Matthias P","last_name":"Baur"},{"last_name":"Bianchetti","full_name":"Bianchetti, R","first_name":"R"},{"full_name":"Leek, Peter J","last_name":"Leek","first_name":"Peter"},{"first_name":"Alexandre","full_name":"Blais, Alexandre","last_name":"Blais"},{"last_name":"Wallraff","full_name":"Wallraff, Andreas","first_name":"Andreas"}]}]