[{"year":"2013","license":"https://creativecommons.org/licenses/by/3.0/","abstract":[{"lang":"eng","text":"Cas9 is an RNA-guided double-stranded DNA nuclease that participates in clustered regularly interspaced short palindromic repeats (CRISPR)-mediated adaptive immunity in prokaryotes. CRISPR–Cas9 has recently been used to generate insertion and deletion mutations in Caenorhabditis elegans, but not to create tailored changes (knock-ins). We show that the CRISPR–CRISPR-associated (Cas) system can be adapted for efficient and precise editing of the C. elegans genome. The targeted double-strand breaks generated by CRISPR are substrates for transgene-instructed gene conversion. This allows customized changes in the C. elegans genome by homologous recombination: sequences contained in the repair template (the transgene) are copied by gene conversion into the genome. The possibility to edit the C. elegans genome at selected locations will facilitate the systematic study of gene function in this widely used model organism."}],"intvolume":"        41","title":"Efficient genome editing in Caenorhabditis elegans by CRISPR-targeted homologous recombination","has_accepted_license":"1","date_updated":"2026-07-28T10:14:14Z","month":"11","file":[{"date_updated":"2020-07-14T12:47:20Z","file_name":"2013_OUP_Chen.pdf","file_id":"6131","access_level":"open_access","content_type":"application/pdf","checksum":"0f1f127cefd043cb922b292e1cd16f02","file_size":340225,"date_created":"2019-03-19T15:25:42Z","relation":"main_file","creator":"kschuh"}],"publication":"Nucleic Acids Research","issue":"20","acknowledgement":"The authors thank the Caenorhabditis Genetics Center for strains, Erik Jorgensen and Jason Chin for plasmids, Sebastian Greiss and Inja Radman for valuable suggestions and Shigekazu Oda for comments on the article. The Ce Cas9 expression plasmid and ‘empty’ versions of the two sgRNA expression plasmids described in the article are available at Addgene.org.","das_tickbox":"1","article_number":"e193","pmid":1,"extern":"1","type":"journal_article","OA_type":"gold","article_processing_charge":"No","publication_identifier":{"issn":["0305-1048"],"eissn":["1362-4962"]},"external_id":{"pmid":["24013562"]},"date_published":"2013-11-01T00:00:00Z","article_type":"original","DOAJ_listed":"1","file_date_updated":"2020-07-14T12:47:20Z","doi":"10.1093/nar/gkt805","OA_place":"publisher","author":[{"last_name":"Chen","first_name":"Changchun","full_name":"Chen, Changchun"},{"last_name":"Fenk","first_name":"Lorenz A.","full_name":"Fenk, Lorenz A."},{"first_name":"Mario","full_name":"de Bono, Mario","orcid":"0000-0001-8347-0443","id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","last_name":"de Bono"}],"citation":{"ama":"Chen C, Fenk LA, de Bono M. Efficient genome editing in Caenorhabditis elegans by CRISPR-targeted homologous recombination. <i>Nucleic Acids Research</i>. 2013;41(20). doi:<a href=\"https://doi.org/10.1093/nar/gkt805\">10.1093/nar/gkt805</a>","ista":"Chen C, Fenk LA, de Bono M. 2013. Efficient genome editing in Caenorhabditis elegans by CRISPR-targeted homologous recombination. Nucleic Acids Research. 41(20), e193.","mla":"Chen, Changchun, et al. “Efficient Genome Editing in Caenorhabditis Elegans by CRISPR-Targeted Homologous Recombination.” <i>Nucleic Acids Research</i>, vol. 41, no. 20, e193, Oxford University Press, 2013, doi:<a href=\"https://doi.org/10.1093/nar/gkt805\">10.1093/nar/gkt805</a>.","short":"C. Chen, L.A. Fenk, M. de Bono, Nucleic Acids Research 41 (2013).","ieee":"C. Chen, L. A. Fenk, and M. de Bono, “Efficient genome editing in Caenorhabditis elegans by CRISPR-targeted homologous recombination,” <i>Nucleic Acids Research</i>, vol. 41, no. 20. Oxford University Press, 2013.","apa":"Chen, C., Fenk, L. A., &#38; de Bono, M. (2013). Efficient genome editing in Caenorhabditis elegans by CRISPR-targeted homologous recombination. <i>Nucleic Acids Research</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/nar/gkt805\">https://doi.org/10.1093/nar/gkt805</a>","chicago":"Chen, Changchun, Lorenz A. Fenk, and Mario de Bono. “Efficient Genome Editing in Caenorhabditis Elegans by CRISPR-Targeted Homologous Recombination.” <i>Nucleic Acids Research</i>. Oxford University Press, 2013. <a href=\"https://doi.org/10.1093/nar/gkt805\">https://doi.org/10.1093/nar/gkt805</a>."},"quality_controlled":"1","publisher":"Oxford University Press","status":"public","ddc":["570"],"day":"01","date_created":"2019-03-19T15:17:40Z","language":[{"iso":"eng"}],"oa_version":"Published Version","_id":"6130","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1093/nar/gkt805","volume":41,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","short":"CC BY (3.0)","name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","image":"/images/cc_by.png"},"publication_status":"published","oa":1},{"title":"Mechanics of zebrafish epiboly: Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading","department":[{"_id":"CaHe"},{"_id":"GradSch"}],"abstract":[{"lang":"eng","text":"Epithelial spreading is a critical part of various developmental and wound repair processes. Here we use zebrafish epiboly as a model system to study the cellular and molecular mechanisms underlying the spreading of epithelial sheets. During zebrafish epiboly the enveloping cell layer (EVL), a simple squamous epithelium, spreads over the embryo to eventually cover the entire yolk cell by the end of gastrulation. The EVL leading edge is anchored through tight junctions to the yolk syncytial layer (YSL), where directly adjacent to the EVL margin a contractile actomyosin ring is formed that is thought to drive EVL epiboly. The prevalent view in the field was that the contractile ring exerts a pulling force on the EVL margin, which pulls the EVL towards the vegetal pole. However, how this force is generated and how it affects EVL morphology still remains elusive. Moreover, the cellular mechanisms mediating the increase in EVL surface area, while maintaining tissue integrity and function are still unclear. Here we show that the YSL actomyosin ring pulls on the EVL margin by two distinct force-generating mechanisms. One mechanism is based on contraction of the ring around its circumference, as previously proposed. The second mechanism is based on actomyosin retrogade flows, generating force through resistance against the substrate. The latter can function at any epiboly stage even in situations where the contraction-based mechanism is unproductive. Additionally, we demonstrate that during epiboly the EVL is subjected to anisotropic tension, which guides the orientation of EVL cell division along the main axis (animal-vegetal) of tension. The influence of tension in cell division orientation involves cell elongation and requires myosin-2 activity for proper spindle alignment. Strikingly, we reveal that tension-oriented cell divisions release anisotropic tension within the EVL and that in the absence of such divisions, EVL cells undergo ectopic fusions. We conclude that forces applied to the EVL by the action of the YSL actomyosin ring generate a tension anisotropy in the EVL that orients cell divisions, which in turn limit tissue tension increase thereby facilitating tissue spreading."}],"year":"2013","date_published":"2013-10-01T00:00:00Z","publist_id":"5801","publication_identifier":{"issn":["2663-337X"]},"status":"public","publisher":"Institute of Science and Technology Austria","degree_awarded":"PhD","citation":{"ama":"Campinho P. Mechanics of zebrafish epiboly: Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading. 2013.","mla":"Campinho, Pedro. <i>Mechanics of Zebrafish Epiboly: Tension-Oriented Cell Divisions Limit Anisotropic Tissue Tension in Epithelial Spreading</i>. Institute of Science and Technology Austria, 2013.","ista":"Campinho P. 2013. Mechanics of zebrafish epiboly: Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading. Institute of Science and Technology Austria.","ieee":"P. Campinho, “Mechanics of zebrafish epiboly: Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading,” Institute of Science and Technology Austria, 2013.","short":"P. Campinho, Mechanics of Zebrafish Epiboly: Tension-Oriented Cell Divisions Limit Anisotropic Tissue Tension in Epithelial Spreading, Institute of Science and Technology Austria, 2013.","chicago":"Campinho, Pedro. “Mechanics of Zebrafish Epiboly: Tension-Oriented Cell Divisions Limit Anisotropic Tissue Tension in Epithelial Spreading.” Institute of Science and Technology Austria, 2013.","apa":"Campinho, P. (2013). <i>Mechanics of zebrafish epiboly: Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading</i>. Institute of Science and Technology Austria."},"month":"10","page":"123","author":[{"first_name":"Pedro","full_name":"Campinho, Pedro","id":"3AFBBC42-F248-11E8-B48F-1D18A9856A87","last_name":"Campinho","orcid":"0000-0002-8526-5416"}],"alternative_title":["ISTA Thesis"],"OA_place":"publisher","date_updated":"2026-07-29T10:00:09Z","supervisor":[{"full_name":"Heisenberg, Carl-Philipp J","first_name":"Carl-Philipp J","orcid":"0000-0002-0912-4566","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"_id":"1406","oa_version":"None","language":[{"iso":"eng"}],"corr_author":"1","day":"01","date_created":"2018-12-11T11:51:50Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"doi_confirm":"1","publication_status":"published","article_processing_charge":"No","type":"dissertation","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9"},{"publist_id":"4652","year":"2013","main_file_link":[{"open_access":"1","url":"http://hal.upmc.fr/hal-00983313/"}],"abstract":[{"lang":"eng","text":"Epithelial spreading is a common and fundamental aspect of various developmental and disease-related processes such as epithelial closure and wound healing. A key challenge for epithelial tissues undergoing spreading is to increase their surface area without disrupting epithelial integrity. Here we show that orienting cell divisions by tension constitutes an efficient mechanism by which the enveloping cell layer (EVL) releases anisotropic tension while undergoing spreading during zebrafish epiboly. The control of EVL cell-division orientation by tension involves cell elongation and requires myosin II activity to align the mitotic spindle with the main tension axis. We also found that in the absence of tension-oriented cell divisions and in the presence of increased tissue tension, EVL cells undergo ectopic fusions, suggesting that the reduction of tension anisotropy by oriented cell divisions is required to prevent EVL cells from fusing. We conclude that cell-division orientation by tension constitutes a key mechanism for limiting tension anisotropy and thus promoting tissue spreading during EVL epiboly."}],"related_material":{"record":[{"id":"1403","status":"public","relation":"dissertation_contains"}]},"title":"Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading during zebrafish epiboly","intvolume":"        15","date_updated":"2026-07-29T10:07:18Z","month":"11","publication":"Nature Cell Biology","acknowledgement":"This work was supported by the IST Austria and MPI-CBG ","type":"journal_article","article_processing_charge":"No","external_id":{"isi":["000327944200005"]},"date_published":"2013-11-10T00:00:00Z","department":[{"_id":"CaHe"}],"doi":"10.1038/ncb2869","page":"1405 - 1414","author":[{"orcid":"0000-0002-8526-5416","last_name":"Campinho","id":"3AFBBC42-F248-11E8-B48F-1D18A9856A87","full_name":"Campinho, Pedro","first_name":"Pedro"},{"first_name":"Martin","full_name":"Behrndt, Martin","id":"3ECECA3A-F248-11E8-B48F-1D18A9856A87","last_name":"Behrndt"},{"last_name":"Ranft","full_name":"Ranft, Jonas","first_name":"Jonas"},{"full_name":"Risler, Thomas","first_name":"Thomas","last_name":"Risler"},{"last_name":"Minc","full_name":"Minc, Nicolas","first_name":"Nicolas"},{"orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J"}],"isi":1,"citation":{"apa":"Campinho, P., Behrndt, M., Ranft, J., Risler, T., Minc, N., &#38; Heisenberg, C.-P. J. (2013). Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading during zebrafish epiboly. <i>Nature Cell Biology</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/ncb2869\">https://doi.org/10.1038/ncb2869</a>","chicago":"Campinho, Pedro, Martin Behrndt, Jonas Ranft, Thomas Risler, Nicolas Minc, and Carl-Philipp J Heisenberg. “Tension-Oriented Cell Divisions Limit Anisotropic Tissue Tension in Epithelial Spreading during Zebrafish Epiboly.” <i>Nature Cell Biology</i>. Nature Publishing Group, 2013. <a href=\"https://doi.org/10.1038/ncb2869\">https://doi.org/10.1038/ncb2869</a>.","short":"P. Campinho, M. Behrndt, J. Ranft, T. Risler, N. Minc, C.-P.J. Heisenberg, Nature Cell Biology 15 (2013) 1405–1414.","ieee":"P. Campinho, M. Behrndt, J. Ranft, T. Risler, N. Minc, and C.-P. J. Heisenberg, “Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading during zebrafish epiboly,” <i>Nature Cell Biology</i>, vol. 15. Nature Publishing Group, pp. 1405–1414, 2013.","ista":"Campinho P, Behrndt M, Ranft J, Risler T, Minc N, Heisenberg C-PJ. 2013. Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading during zebrafish epiboly. Nature Cell Biology. 15, 1405–1414.","mla":"Campinho, Pedro, et al. “Tension-Oriented Cell Divisions Limit Anisotropic Tissue Tension in Epithelial Spreading during Zebrafish Epiboly.” <i>Nature Cell Biology</i>, vol. 15, Nature Publishing Group, 2013, pp. 1405–14, doi:<a href=\"https://doi.org/10.1038/ncb2869\">10.1038/ncb2869</a>.","ama":"Campinho P, Behrndt M, Ranft J, Risler T, Minc N, Heisenberg C-PJ. Tension-oriented cell divisions limit anisotropic tissue tension in epithelial spreading during zebrafish epiboly. <i>Nature Cell Biology</i>. 2013;15:1405-1414. doi:<a href=\"https://doi.org/10.1038/ncb2869\">10.1038/ncb2869</a>"},"quality_controlled":"1","publisher":"Nature Publishing Group","status":"public","acknowledged_ssus":[{"_id":"PreCl"},{"_id":"Bio"}],"date_created":"2018-12-11T11:56:45Z","day":"10","corr_author":"1","language":[{"iso":"eng"}],"oa_version":"Submitted Version","scopus_import":"1","_id":"2282","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","fulldoi":"https://doi.org/10.1038/ncb2869","project":[{"grant_number":"I930-B20","call_identifier":"FWF","_id":"252ABD0A-B435-11E9-9278-68D0E5697425","name":"Control of Epithelial Cell Layer Spreading in Zebrafish"}],"volume":15,"publication_status":"published","oa":1},{"quality_controlled":"1","isi":1,"citation":{"ieee":"B. Zagorsky, J. Reiter, K. Chatterjee, and M. Nowak, “Forgiver triumphs in alternating prisoner’s dilemma ,” <i>PLoS One</i>, vol. 8, no. 12. Public Library of Science, 2013.","short":"B. Zagorsky, J. Reiter, K. Chatterjee, M. Nowak, PLoS One 8 (2013).","chicago":"Zagorsky, Benjamin, Johannes Reiter, Krishnendu Chatterjee, and Martin Nowak. “Forgiver Triumphs in Alternating Prisoner’s Dilemma .” <i>PLoS One</i>. Public Library of Science, 2013. <a href=\"https://doi.org/10.1371/journal.pone.0080814\">https://doi.org/10.1371/journal.pone.0080814</a>.","apa":"Zagorsky, B., Reiter, J., Chatterjee, K., &#38; Nowak, M. (2013). Forgiver triumphs in alternating prisoner’s dilemma . <i>PLoS One</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0080814\">https://doi.org/10.1371/journal.pone.0080814</a>","ama":"Zagorsky B, Reiter J, Chatterjee K, Nowak M. Forgiver triumphs in alternating prisoner’s dilemma . <i>PLoS One</i>. 2013;8(12). doi:<a href=\"https://doi.org/10.1371/journal.pone.0080814\">10.1371/journal.pone.0080814</a>","mla":"Zagorsky, Benjamin, et al. “Forgiver Triumphs in Alternating Prisoner’s Dilemma .” <i>PLoS One</i>, vol. 8, no. 12, e80814, Public Library of Science, 2013, doi:<a href=\"https://doi.org/10.1371/journal.pone.0080814\">10.1371/journal.pone.0080814</a>.","ista":"Zagorsky B, Reiter J, Chatterjee K, Nowak M. 2013. Forgiver triumphs in alternating prisoner’s dilemma . PLoS One. 8(12), e80814."},"author":[{"last_name":"Zagorsky","full_name":"Zagorsky, Benjamin","first_name":"Benjamin"},{"full_name":"Reiter, Johannes","first_name":"Johannes","orcid":"0000-0002-0170-7353","last_name":"Reiter","id":"4A918E98-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-4561-241X","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"last_name":"Nowak","first_name":"Martin","full_name":"Nowak, Martin"}],"status":"public","publisher":"Public Library of Science","date_published":"2013-12-12T00:00:00Z","external_id":{"isi":["000328731800009"]},"doi":"10.1371/journal.pone.0080814","file_date_updated":"2020-07-14T12:45:34Z","department":[{"_id":"KrCh"}],"fulldoi":"https://doi.org/10.1371/journal.pone.0080814","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa":1,"publication_status":"published","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":8,"project":[{"call_identifier":"FP7","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","grant_number":"279307"},{"_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering","call_identifier":"FWF","grant_number":"S 11407_N23"},{"grant_number":"P 23499-N23","_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF"},{"_id":"2587B514-B435-11E9-9278-68D0E5697425","name":"Microsoft Research Faculty Fellowship"}],"date_created":"2018-12-11T11:56:33Z","day":"12","ec_funded":1,"ddc":["000"],"_id":"2247","pubrep_id":"409","scopus_import":"1","language":[{"iso":"eng"}],"oa_version":"Published Version","publication":"PLoS One","month":"12","file":[{"access_level":"open_access","file_id":"4868","file_name":"IST-2016-409-v1+1_journal.pone.0080814.pdf","date_updated":"2020-07-14T12:45:34Z","creator":"system","relation":"main_file","date_created":"2018-12-12T10:11:15Z","file_size":1050042,"checksum":"808e8b9e6e89658bee4ffbbfac1bd19d","content_type":"application/pdf"}],"date_updated":"2026-07-29T10:15:25Z","license":"https://creativecommons.org/licenses/by/4.0/","abstract":[{"text":"Cooperative behavior, where one individual incurs a cost to help another, is a wide spread phenomenon. Here we study direct reciprocity in the context of the alternating Prisoner's Dilemma. We consider all strategies that can be implemented by one and two-state automata. We calculate the payoff matrix of all pairwise encounters in the presence of noise. We explore deterministic selection dynamics with and without mutation. Using different error rates and payoff values, we observe convergence to a small number of distinct equilibria. Two of them are uncooperative strict Nash equilibria representing always-defect (ALLD) and Grim. The third equilibrium is mixed and represents a cooperative alliance of several strategies, dominated by a strategy which we call Forgiver. Forgiver cooperates whenever the opponent has cooperated; it defects once when the opponent has defected, but subsequently Forgiver attempts to re-establish cooperation even if the opponent has defected again. Forgiver is not an evolutionarily stable strategy, but the alliance, which it rules, is asymptotically stable. For a wide range of parameter values the most commonly observed outcome is convergence to the mixed equilibrium, dominated by Forgiver. Our results show that although forgiving might incur a short-term loss it can lead to a long-term gain. Forgiveness facilitates stable cooperation in the presence of exploitation and noise.","lang":"eng"}],"year":"2013","publist_id":"4702","has_accepted_license":"1","intvolume":"         8","title":"Forgiver triumphs in alternating prisoner's dilemma ","related_material":{"record":[{"id":"9749","status":"public","relation":"research_data"},{"id":"1400","status":"public","relation":"dissertation_contains"}]},"type":"journal_article","article_processing_charge":"No","issue":"12","article_number":"e80814"},{"issue":"1","article_processing_charge":"No","type":"journal_article","related_material":{"record":[{"id":"1400","relation":"dissertation_contains","status":"public"}]},"has_accepted_license":"1","title":"The effect of one additional driver mutation on tumor progression","intvolume":"         6","year":"2013","publist_id":"3931","abstract":[{"text":"Tumor growth is caused by the acquisition of driver mutations, which enhance the net reproductive rate of cells. Driver mutations may increase cell division, reduce cell death, or allow cells to overcome density-limiting effects. We study the dynamics of tumor growth as one additional driver mutation is acquired. Our models are based on two-type branching processes that terminate in either tumor disappearance or tumor detection. In our first model, both cell types grow exponentially, with a faster rate for cells carrying the additional driver. We find that the additional driver mutation does not affect the survival probability of the lesion, but can substantially reduce the time to reach the detectable size if the lesion is slow growing. In our second model, cells lacking the additional driver cannot exceed a fixed carrying capacity, due to density limitations. In this case, the time to detection depends strongly on this carrying capacity. Our model provides a quantitative framework for studying tumor dynamics during different stages of progression. We observe that early, small lesions need additional drivers, while late stage metastases are only marginally affected by them. These results help to explain why additional driver mutations are typically not detected in fast-growing metastases.","lang":"eng"}],"month":"01","file":[{"access_level":"open_access","file_id":"5173","file_name":"IST-2016-415-v1+1_Reiter_et_al-2013-Evolutionary_Applications.pdf","date_updated":"2020-07-14T12:45:51Z","creator":"system","relation":"main_file","date_created":"2018-12-12T10:15:50Z","file_size":1172037,"checksum":"e2955b3889f8a823c3d5a72cb16f8957","content_type":"application/pdf"}],"date_updated":"2026-07-29T10:15:25Z","publication":"Evolutionary Applications","pubrep_id":"415","scopus_import":"1","oa_version":"Published Version","corr_author":"1","language":[{"iso":"eng"}],"_id":"2858","ddc":["570"],"ec_funded":1,"date_created":"2018-12-11T11:59:58Z","day":"01","project":[{"grant_number":"279307","call_identifier":"FP7","name":"Quantitative Graph Games: Theory and Applications","_id":"2581B60A-B435-11E9-9278-68D0E5697425"},{"grant_number":"S11407","_id":"25863FF4-B435-11E9-9278-68D0E5697425","name":"Game Theory","call_identifier":"FWF"}],"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":6,"oa":1,"publication_status":"published","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","fulldoi":"https://doi.org/10.1111/eva.12020","file_date_updated":"2020-07-14T12:45:51Z","doi":"10.1111/eva.12020","department":[{"_id":"KrCh"}],"date_published":"2013-01-01T00:00:00Z","external_id":{"isi":["000313878800004"]},"publisher":"Wiley-Blackwell","status":"public","author":[{"full_name":"Reiter, Johannes","first_name":"Johannes","orcid":"0000-0002-0170-7353","last_name":"Reiter","id":"4A918E98-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ivana","full_name":"Božić, Ivana","last_name":"Božić"},{"first_name":"Benjamin","full_name":"Allen, Benjamin","id":"135B5B70-E9D2-11E9-BD74-BB415DA2B523","last_name":"Allen"},{"first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","orcid":"0000-0002-4561-241X"},{"last_name":"Nowak","first_name":"Martin","full_name":"Nowak, Martin"}],"page":"34 - 45","quality_controlled":"1","citation":{"chicago":"Reiter, Johannes, Ivana Božić, Benjamin Allen, Krishnendu Chatterjee, and Martin Nowak. “The Effect of One Additional Driver Mutation on Tumor Progression.” <i>Evolutionary Applications</i>. Wiley-Blackwell, 2013. <a href=\"https://doi.org/10.1111/eva.12020\">https://doi.org/10.1111/eva.12020</a>.","apa":"Reiter, J., Božić, I., Allen, B., Chatterjee, K., &#38; Nowak, M. (2013). The effect of one additional driver mutation on tumor progression. <i>Evolutionary Applications</i>. Wiley-Blackwell. <a href=\"https://doi.org/10.1111/eva.12020\">https://doi.org/10.1111/eva.12020</a>","ieee":"J. Reiter, I. Božić, B. Allen, K. Chatterjee, and M. Nowak, “The effect of one additional driver mutation on tumor progression,” <i>Evolutionary Applications</i>, vol. 6, no. 1. Wiley-Blackwell, pp. 34–45, 2013.","short":"J. Reiter, I. Božić, B. Allen, K. Chatterjee, M. Nowak, Evolutionary Applications 6 (2013) 34–45.","mla":"Reiter, Johannes, et al. “The Effect of One Additional Driver Mutation on Tumor Progression.” <i>Evolutionary Applications</i>, vol. 6, no. 1, Wiley-Blackwell, 2013, pp. 34–45, doi:<a href=\"https://doi.org/10.1111/eva.12020\">10.1111/eva.12020</a>.","ista":"Reiter J, Božić I, Allen B, Chatterjee K, Nowak M. 2013. The effect of one additional driver mutation on tumor progression. Evolutionary Applications. 6(1), 34–45.","ama":"Reiter J, Božić I, Allen B, Chatterjee K, Nowak M. The effect of one additional driver mutation on tumor progression. <i>Evolutionary Applications</i>. 2013;6(1):34-45. doi:<a href=\"https://doi.org/10.1111/eva.12020\">10.1111/eva.12020</a>"},"isi":1},{"date_created":"2018-12-11T11:59:45Z","day":"25","ddc":["570","610"],"_id":"2816","pubrep_id":"134","scopus_import":"1","oa_version":"Published Version","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.7554/eLife.00747","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_status":"published","oa":1,"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"volume":2,"date_published":"2013-06-25T00:00:00Z","external_id":{"isi":["000328619300005"]},"doi":"10.7554/eLife.00747","file_date_updated":"2020-07-14T12:45:49Z","department":[{"_id":"KrCh"}],"quality_controlled":"1","citation":{"ama":"Božić I, Reiter J, Allen B, et al. Evolutionary dynamics of cancer in response to targeted combination therapy. <i>eLife</i>. 2013;2. doi:<a href=\"https://doi.org/10.7554/eLife.00747\">10.7554/eLife.00747</a>","mla":"Božić, Ivana, et al. “Evolutionary Dynamics of Cancer in Response to Targeted Combination Therapy.” <i>ELife</i>, vol. 2, e00747, eLife Sciences Publications, 2013, doi:<a href=\"https://doi.org/10.7554/eLife.00747\">10.7554/eLife.00747</a>.","ista":"Božić I, Reiter J, Allen B, Antal T, Chatterjee K, Shah P, Moon Y, Yaqubie A, Kelly N, Le D, Lipson E, Chapman P, Diaz L, Vogelstein B, Nowak M. 2013. Evolutionary dynamics of cancer in response to targeted combination therapy. eLife. 2, e00747.","ieee":"I. Božić <i>et al.</i>, “Evolutionary dynamics of cancer in response to targeted combination therapy,” <i>eLife</i>, vol. 2. eLife Sciences Publications, 2013.","short":"I. Božić, J. Reiter, B. Allen, T. Antal, K. Chatterjee, P. Shah, Y. Moon, A. Yaqubie, N. Kelly, D. Le, E. Lipson, P. Chapman, L. Diaz, B. Vogelstein, M. Nowak, ELife 2 (2013).","chicago":"Božić, Ivana, Johannes Reiter, Benjamin Allen, Tibor Antal, Krishnendu Chatterjee, Preya Shah, Yo Moon, et al. “Evolutionary Dynamics of Cancer in Response to Targeted Combination Therapy.” <i>ELife</i>. eLife Sciences Publications, 2013. <a href=\"https://doi.org/10.7554/eLife.00747\">https://doi.org/10.7554/eLife.00747</a>.","apa":"Božić, I., Reiter, J., Allen, B., Antal, T., Chatterjee, K., Shah, P., … Nowak, M. (2013). Evolutionary dynamics of cancer in response to targeted combination therapy. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.00747\">https://doi.org/10.7554/eLife.00747</a>"},"isi":1,"author":[{"last_name":"Božić","first_name":"Ivana","full_name":"Božić, Ivana"},{"first_name":"Johannes","full_name":"Reiter, Johannes","id":"4A918E98-F248-11E8-B48F-1D18A9856A87","last_name":"Reiter","orcid":"0000-0002-0170-7353"},{"full_name":"Allen, Benjamin","first_name":"Benjamin","last_name":"Allen"},{"last_name":"Antal","full_name":"Antal, Tibor","first_name":"Tibor"},{"id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","last_name":"Chatterjee","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","full_name":"Chatterjee, Krishnendu"},{"full_name":"Shah, Preya","first_name":"Preya","last_name":"Shah"},{"first_name":"Yo","full_name":"Moon, Yo","last_name":"Moon"},{"full_name":"Yaqubie, Amin","first_name":"Amin","last_name":"Yaqubie"},{"last_name":"Kelly","first_name":"Nicole","full_name":"Kelly, Nicole"},{"full_name":"Le, Dung","first_name":"Dung","last_name":"Le"},{"full_name":"Lipson, Evan","first_name":"Evan","last_name":"Lipson"},{"first_name":"Paul","full_name":"Chapman, Paul","last_name":"Chapman"},{"first_name":"Luis","full_name":"Diaz, Luis","last_name":"Diaz"},{"last_name":"Vogelstein","first_name":"Bert","full_name":"Vogelstein, Bert"},{"last_name":"Nowak","first_name":"Martin","full_name":"Nowak, Martin"}],"status":"public","publisher":"eLife Sciences Publications","article_number":"e00747","type":"journal_article","article_processing_charge":"No","abstract":[{"text":"In solid tumors, targeted treatments can lead to dramatic regressions, but responses are often short-lived because resistant cancer cells arise. The major strategy proposed for overcoming resistance is combination therapy. We present a mathematical model describing the evolutionary dynamics of lesions in response to treatment. We first studied 20 melanoma patients receiving vemurafenib. We then applied our model to an independent set of pancreatic, colorectal, and melanoma cancer patients with metastatic disease. We find that dual therapy results in long-term disease control for most patients, if there are no single mutations that cause cross-resistance to both drugs; in patients with large disease burden, triple therapy is needed. We also find that simultaneous therapy with two drugs is much more effective than sequential therapy. Our results provide realistic expectations for the efficacy of new drug combinations and inform the design of trials for new cancer therapeutics.","lang":"eng"}],"publist_id":"3985","year":"2013","has_accepted_license":"1","intvolume":"         2","title":"Evolutionary dynamics of cancer in response to targeted combination therapy","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"1400"}]},"publication":"eLife","file":[{"date_updated":"2020-07-14T12:45:49Z","file_name":"IST-2013-134-v1+1_e00747.full.pdf","file_id":"4967","access_level":"open_access","file_size":3358321,"date_created":"2018-12-12T10:12:48Z","content_type":"application/pdf","checksum":"2c38c47815eacd8fa66cb8b404cf7c61","creator":"system","relation":"main_file"}],"month":"06","date_updated":"2026-07-29T10:15:25Z"},{"type":"conference","main_file_link":[{"url":"https://arxiv.org/abs/1303.5251","open_access":"1"}],"abstract":[{"text":"In this work we present a flexible tool for tumor progression, which simulates the evolutionary dynamics of cancer. Tumor progression implements a multi-type branching process where the key parameters are the fitness landscape, the mutation rate, and the average time of cell division. The fitness of a cancer cell depends on the mutations it has accumulated. The input to our tool could be any fitness landscape, mutation rate, and cell division time, and the tool produces the growth dynamics and all relevant statistics.","lang":"eng"}],"publist_id":"5077","year":"2013","series_title":"Lecture Notes in Computer Science","title":"TTP: Tool for tumor progression","intvolume":"      8044","related_material":{"record":[{"status":"public","relation":"earlier_version","id":"5399"},{"id":"1400","status":"public","relation":"dissertation_contains"}]},"publication":"Proceedings of 25th Int. Conf. on Computer Aided Verification","month":"01","date_updated":"2026-07-29T10:15:25Z","arxiv":1,"alternative_title":["LNCS"],"day":"01","date_created":"2018-12-11T11:55:08Z","ec_funded":1,"_id":"2000","scopus_import":1,"oa_version":"Preprint","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1007/978-3-642-39799-8_6","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","oa":1,"volume":8044,"conference":{"name":"CAV: Computer Aided Verification","start_date":"2013-07-13","location":"St. Petersburg, Russia","end_date":"2013-07-19"},"project":[{"grant_number":"279307","_id":"2581B60A-B435-11E9-9278-68D0E5697425","name":"Quantitative Graph Games: Theory and Applications","call_identifier":"FP7"},{"grant_number":"S 11407_N23","call_identifier":"FWF","_id":"25832EC2-B435-11E9-9278-68D0E5697425","name":"Rigorous Systems Engineering"},{"_id":"2584A770-B435-11E9-9278-68D0E5697425","name":"Modern Graph Algorithmic Techniques in Formal Verification","call_identifier":"FWF","grant_number":"P 23499-N23"},{"name":"Microsoft Research Faculty Fellowship","_id":"2587B514-B435-11E9-9278-68D0E5697425"}],"date_published":"2013-01-01T00:00:00Z","external_id":{"arxiv":["1303.5251"]},"doi":"10.1007/978-3-642-39799-8_6","department":[{"_id":"KrCh"}],"quality_controlled":"1","citation":{"short":"J. Reiter, I. Božić, K. Chatterjee, M. Nowak, in:, Proceedings of 25th Int. Conf. on Computer Aided Verification, Springer, 2013, pp. 101–106.","ieee":"J. Reiter, I. Božić, K. Chatterjee, and M. Nowak, “TTP: Tool for tumor progression,” in <i>Proceedings of 25th Int. Conf. on Computer Aided Verification</i>, St. Petersburg, Russia, 2013, vol. 8044, pp. 101–106.","apa":"Reiter, J., Božić, I., Chatterjee, K., &#38; Nowak, M. (2013). TTP: Tool for tumor progression. In <i>Proceedings of 25th Int. Conf. on Computer Aided Verification</i> (Vol. 8044, pp. 101–106). St. Petersburg, Russia: Springer. <a href=\"https://doi.org/10.1007/978-3-642-39799-8_6\">https://doi.org/10.1007/978-3-642-39799-8_6</a>","chicago":"Reiter, Johannes, Ivana Božić, Krishnendu Chatterjee, and Martin Nowak. “TTP: Tool for Tumor Progression.” In <i>Proceedings of 25th Int. Conf. on Computer Aided Verification</i>, 8044:101–6. Lecture Notes in Computer Science. Springer, 2013. <a href=\"https://doi.org/10.1007/978-3-642-39799-8_6\">https://doi.org/10.1007/978-3-642-39799-8_6</a>.","ama":"Reiter J, Božić I, Chatterjee K, Nowak M. TTP: Tool for tumor progression. In: <i>Proceedings of 25th Int. Conf. on Computer Aided Verification</i>. Vol 8044. Lecture Notes in Computer Science. Springer; 2013:101-106. doi:<a href=\"https://doi.org/10.1007/978-3-642-39799-8_6\">10.1007/978-3-642-39799-8_6</a>","ista":"Reiter J, Božić I, Chatterjee K, Nowak M. 2013. TTP: Tool for tumor progression. Proceedings of 25th Int. Conf. on Computer Aided Verification. CAV: Computer Aided VerificationLecture Notes in Computer Science, LNCS, vol. 8044, 101–106.","mla":"Reiter, Johannes, et al. “TTP: Tool for Tumor Progression.” <i>Proceedings of 25th Int. Conf. on Computer Aided Verification</i>, vol. 8044, Springer, 2013, pp. 101–06, doi:<a href=\"https://doi.org/10.1007/978-3-642-39799-8_6\">10.1007/978-3-642-39799-8_6</a>."},"author":[{"last_name":"Reiter","id":"4A918E98-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0170-7353","full_name":"Reiter, Johannes","first_name":"Johannes"},{"full_name":"Božić, Ivana","first_name":"Ivana","last_name":"Božić"},{"full_name":"Chatterjee, Krishnendu","first_name":"Krishnendu","orcid":"0000-0002-4561-241X","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Nowak, Martin","first_name":"Martin","last_name":"Nowak"}],"page":"101 - 106","status":"public","publisher":"Springer"},{"extern":"1","type":"journal_article","OA_type":"free access","article_processing_charge":"No","issue":"12","das_tickbox":"1","month":"12","date_updated":"2026-08-06T08:09:42Z","alternative_title":["A Stochastic Model for Space-Time Precipitation"],"publication":"Water Resources Research","year":"2013","abstract":[{"text":"High-resolution space-time stochastic models for precipitation are crucial for hydrological applications related to flood risk and water resources management. In this study, we present a new stochastic space-time model, STREAP, which is capable of reproducing essential features of the statistical structure of precipitation in space and time for a wide range of scales, and at the same time can be used for continuous simulation. The model is based on a three-stage hierarchical structure that mimics the precipitation formation process. The stages describe the storm arrival process, the temporal evolution of areal mean precipitation intensity and wet area, and the evolution in time of the two-dimensional storm structure. Each stage of the model is based on appropriate stochastic modeling techniques spanning from point processes, multivariate stochastic simulation and random fields. Details of the calibration and simulation procedures in each stage are provided so that they can be easily reproduced. STREAP is applied to a case study in Switzerland using 7 years of high-resolution (2 × 2 km2; 5 min) data from weather radars. The model is also compared with a popular parsimonious space-time stochastic model based on point processes (space-time Neyman-Scott) which it outperforms mainly because of a better description of spatial precipitation. The model validation and comparison is based on an extensive evaluation of both areal and point scale statistics at hydrologically relevant temporal scales, focusing mainly on the reproduction of the probability distributions of rainfall intensities, correlation structure, and the reproduction of intermittency and wet spell duration statistics. The results shows that a more accurate description of the space-time structure of precipitation fields in stochastic models such as STREAP does indeed lead to a better performance for properties and at scales which are not used in model calibration.","lang":"eng"}],"main_file_link":[{"url":" https://doi.org/10.1002/2013WR014437","open_access":"1"}],"intvolume":"        49","title":"A stochastic model for high-resolution space-time precipitation simulation","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1002/2013wr014437","volume":49,"oa":1,"publication_status":"published","date_created":"2026-07-27T12:30:24Z","day":"01","scopus_import":"1","language":[{"iso":"eng"}],"oa_version":"Published Version","_id":"22508","author":[{"last_name":"Paschalis","full_name":"Paschalis, Athanasios","first_name":"Athanasios"},{"last_name":"Molnar","first_name":"Peter","full_name":"Molnar, Peter"},{"id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","last_name":"Fatichi","first_name":"Simone","full_name":"Fatichi, Simone"},{"full_name":"Burlando, Paolo","first_name":"Paolo","last_name":"Burlando"}],"OA_place":"publisher","page":"8400-8417","quality_controlled":"1","citation":{"ama":"Paschalis A, Molnar P, Fatichi S, Burlando P. A stochastic model for high-resolution space-time precipitation simulation. <i>Water Resources Research</i>. 2013;49(12):8400-8417. doi:<a href=\"https://doi.org/10.1002/2013wr014437\">10.1002/2013wr014437</a>","ista":"Paschalis A, Molnar P, Fatichi S, Burlando P. 2013. A stochastic model for high-resolution space-time precipitation simulation. Water Resources Research. 49(12), 8400–8417.","mla":"Paschalis, Athanasios, et al. “A Stochastic Model for High-Resolution Space-Time Precipitation Simulation.” <i>Water Resources Research</i>, vol. 49, no. 12, American Geophysical Union, 2013, pp. 8400–17, doi:<a href=\"https://doi.org/10.1002/2013wr014437\">10.1002/2013wr014437</a>.","short":"A. Paschalis, P. Molnar, S. Fatichi, P. Burlando, Water Resources Research 49 (2013) 8400–8417.","ieee":"A. Paschalis, P. Molnar, S. Fatichi, and P. Burlando, “A stochastic model for high-resolution space-time precipitation simulation,” <i>Water Resources Research</i>, vol. 49, no. 12. American Geophysical Union, pp. 8400–8417, 2013.","apa":"Paschalis, A., Molnar, P., Fatichi, S., &#38; Burlando, P. (2013). A stochastic model for high-resolution space-time precipitation simulation. <i>Water Resources Research</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/2013wr014437\">https://doi.org/10.1002/2013wr014437</a>","chicago":"Paschalis, Athanasios, Peter Molnar, Simone Fatichi, and Paolo Burlando. “A Stochastic Model for High-Resolution Space-Time Precipitation Simulation.” <i>Water Resources Research</i>. American Geophysical Union, 2013. <a href=\"https://doi.org/10.1002/2013wr014437\">https://doi.org/10.1002/2013wr014437</a>."},"publisher":"American Geophysical Union","status":"public","date_published":"2013-12-01T00:00:00Z","publication_identifier":{"eissn":["1944-7973"],"issn":["0043-1397"]},"article_type":"original","doi":"10.1002/2013wr014437"},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1002/jgrg.20035","volume":118,"publication_status":"published","oa":1,"day":"01","date_created":"2026-07-27T12:30:24Z","scopus_import":"1","oa_version":"Published Version","language":[{"iso":"eng"}],"_id":"22552","author":[{"full_name":"Pappas, Christoforos","first_name":"Christoforos","last_name":"Pappas"},{"full_name":"Fatichi, Simone","first_name":"Simone","last_name":"Fatichi","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6"},{"last_name":"Leuzinger","first_name":"Sebastian","full_name":"Leuzinger, Sebastian"},{"last_name":"Wolf","first_name":"Annett","full_name":"Wolf, Annett"},{"last_name":"Burlando","first_name":"Paolo","full_name":"Burlando, Paolo"}],"page":"505-528","OA_place":"publisher","quality_controlled":"1","citation":{"chicago":"Pappas, Christoforos, Simone Fatichi, Sebastian Leuzinger, Annett Wolf, and Paolo Burlando. “Sensitivity Analysis of a Process‐based Ecosystem Model: Pinpointing Parameterization and Structural Issues.” <i>Journal of Geophysical Research: Biogeosciences</i>. American Geophysical Union, 2013. <a href=\"https://doi.org/10.1002/jgrg.20035\">https://doi.org/10.1002/jgrg.20035</a>.","apa":"Pappas, C., Fatichi, S., Leuzinger, S., Wolf, A., &#38; Burlando, P. (2013). Sensitivity analysis of a process‐based ecosystem model: Pinpointing parameterization and structural issues. <i>Journal of Geophysical Research: Biogeosciences</i>. American Geophysical Union. <a href=\"https://doi.org/10.1002/jgrg.20035\">https://doi.org/10.1002/jgrg.20035</a>","ieee":"C. Pappas, S. Fatichi, S. Leuzinger, A. Wolf, and P. Burlando, “Sensitivity analysis of a process‐based ecosystem model: Pinpointing parameterization and structural issues,” <i>Journal of Geophysical Research: Biogeosciences</i>, vol. 118, no. 2. American Geophysical Union, pp. 505–528, 2013.","short":"C. Pappas, S. Fatichi, S. Leuzinger, A. Wolf, P. Burlando, Journal of Geophysical Research: Biogeosciences 118 (2013) 505–528.","mla":"Pappas, Christoforos, et al. “Sensitivity Analysis of a Process‐based Ecosystem Model: Pinpointing Parameterization and Structural Issues.” <i>Journal of Geophysical Research: Biogeosciences</i>, vol. 118, no. 2, American Geophysical Union, 2013, pp. 505–28, doi:<a href=\"https://doi.org/10.1002/jgrg.20035\">10.1002/jgrg.20035</a>.","ista":"Pappas C, Fatichi S, Leuzinger S, Wolf A, Burlando P. 2013. Sensitivity analysis of a process‐based ecosystem model: Pinpointing parameterization and structural issues. Journal of Geophysical Research: Biogeosciences. 118(2), 505–528.","ama":"Pappas C, Fatichi S, Leuzinger S, Wolf A, Burlando P. Sensitivity analysis of a process‐based ecosystem model: Pinpointing parameterization and structural issues. <i>Journal of Geophysical Research: Biogeosciences</i>. 2013;118(2):505-528. doi:<a href=\"https://doi.org/10.1002/jgrg.20035\">10.1002/jgrg.20035</a>"},"publisher":"American Geophysical Union","status":"public","date_published":"2013-06-01T00:00:00Z","publication_identifier":{"eissn":["2169-8961"],"issn":["2169-8953"]},"article_type":"original","doi":"10.1002/jgrg.20035","extern":"1","type":"journal_article","OA_type":"free access","article_processing_charge":"No","issue":"2","das_tickbox":"1","month":"06","date_updated":"2026-08-06T08:17:13Z","publication":"Journal of Geophysical Research: Biogeosciences","year":"2013","abstract":[{"text":"Dynamic vegetation models have been widely used for analyzing ecosystem dynamics and their interactions with climate. Their performance has been tested extensively against observations and by model intercomparison studies. In the present analysis, Lund-Potsdam-Jena General Ecosystem Simulator (LPJ-GUESS), a state-of-the-art ecosystem model, was evaluated by performing a global sensitivity analysis. The study aims at examining potential model limitations, particularly with regard to long-term applications. A detailed sensitivity analysis based on variance decomposition is presented to investigate structural model assumptions and to highlight processes and parameters that cause the highest variability in the output. First- and total-order sensitivity indices were calculated for selected parameters using Sobol's methodology. In order to elucidate the role of climate on model sensitivity, different climate forcings were used based on observations from Switzerland. The results clearly indicate a very high sensitivity of LPJ-GUESS to photosynthetic parameters. Intrinsic quantum efficiency alone is able to explain about 60% of the variability in vegetation carbon fluxes and pools for a wide range of climate forcings. Processes related to light harvesting were also found to be important together with parameters affecting forest structure (growth, establishment, and mortality). The model shows minor sensitivity to hydrological and soil texture parameters, questioning its skills in representing spatial vegetation heterogeneity at regional or watershed scales. In the light of these results, we discuss the deficiencies of LPJ-GUESS and possibly that of other, structurally similar, dynamic vegetation models and we highlight potential directions for further model improvements.","lang":"eng"}],"main_file_link":[{"url":" https://doi.org/10.1002/jgrg.20035","open_access":"1"}],"intvolume":"       118","title":"Sensitivity analysis of a process‐based ecosystem model: Pinpointing parameterization and structural issues"},{"isi":1,"citation":{"apa":"Pickup, M., Field, D., Rowell, D., &#38; Young, A. (2013). Source population characteristics affect heterosis following genetic rescue of fragmented plant populations. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. Royal Society. <a href=\"https://doi.org/10.1098/rspb.2012.2058\">https://doi.org/10.1098/rspb.2012.2058</a>","chicago":"Pickup, Melinda, David Field, David Rowell, and Andrew Young. “Source Population Characteristics Affect Heterosis Following Genetic Rescue of Fragmented Plant Populations.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. Royal Society, 2013. <a href=\"https://doi.org/10.1098/rspb.2012.2058\">https://doi.org/10.1098/rspb.2012.2058</a>.","short":"M. Pickup, D. Field, D. Rowell, A. Young, Proceedings of the Royal Society of London Series B Biological Sciences 280 (2013).","ieee":"M. Pickup, D. Field, D. Rowell, and A. Young, “Source population characteristics affect heterosis following genetic rescue of fragmented plant populations,” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 280, no. 1750. Royal Society, 2013.","ista":"Pickup M, Field D, Rowell D, Young A. 2013. Source population characteristics affect heterosis following genetic rescue of fragmented plant populations. Proceedings of the Royal Society of London Series B Biological Sciences. 280(1750), 2058.","mla":"Pickup, Melinda, et al. “Source Population Characteristics Affect Heterosis Following Genetic Rescue of Fragmented Plant Populations.” <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>, vol. 280, no. 1750, 2058, Royal Society, 2013, doi:<a href=\"https://doi.org/10.1098/rspb.2012.2058\">10.1098/rspb.2012.2058</a>.","ama":"Pickup M, Field D, Rowell D, Young A. Source population characteristics affect heterosis following genetic rescue of fragmented plant populations. <i>Proceedings of the Royal Society of London Series B Biological Sciences</i>. 2013;280(1750). doi:<a href=\"https://doi.org/10.1098/rspb.2012.2058\">10.1098/rspb.2012.2058</a>"},"quality_controlled":"1","author":[{"full_name":"Pickup, Melinda","first_name":"Melinda","last_name":"Pickup","id":"2C78037E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6118-0541"},{"full_name":"Field, David","first_name":"David","orcid":"0000-0002-4014-8478","last_name":"Field","id":"419049E2-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Rowell","first_name":"David","full_name":"Rowell, David"},{"first_name":"Andrew","full_name":"Young, Andrew","last_name":"Young"}],"status":"public","publisher":"Royal Society","external_id":{"isi":["000311943100012"],"pmid":["23173202"]},"date_published":"2013-01-07T00:00:00Z","department":[{"_id":"NiBa"}],"doi":"10.1098/rspb.2012.2058","fulldoi":"https://doi.org/10.1098/rspb.2012.2058","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","oa":1,"volume":280,"date_created":"2018-12-11T11:46:32Z","day":"07","_id":"450","language":[{"iso":"eng"}],"oa_version":"Submitted Version","corr_author":"1","publication":"Proceedings of the Royal Society of London Series B Biological Sciences","date_updated":"2026-08-12T06:25:53Z","month":"01","abstract":[{"lang":"eng","text":"Understanding the relative importance of heterosis and outbreeding depression over multiple generations is a key question in evolutionary biology and is essential for identifying appropriate genetic sources for population and ecosystem restoration. Here we use 2455 experimental crosses between 12 population pairs of the rare perennial plant Rutidosis leptorrhynchoides (Asteraceae) to investigate the multi-generational (F1, F2, F3) fitness outcomes of inter-population hybridization. We detected no evidence of outbreeding depression, with inter-population hybrids and backcrosses showing either similar fitness or significant heterosis for fitness components across the three generations. Variation in heterosis among population pairs was best explained by characteristics of the foreign source or home population, and was greatest when the source population was large, with high genetic diversity and low inbreeding, and the home population was small and inbred. Our results indicate that the primary consideration for maximizing progeny fitness following population augmentation or restoration is the use of seed from large, genetically diverse populations."}],"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3574427/"}],"year":"2013","publist_id":"7372","title":"Source population characteristics affect heterosis following genetic rescue of fragmented plant populations","intvolume":"       280","type":"journal_article","pmid":1,"article_processing_charge":"No","issue":"1750","article_number":"2058"},{"date_published":"2013-06-15T00:00:00Z","publication_identifier":{"issn":["0168-1923"],"eissn":["1873-2240"]},"article_type":"original","doi":"10.1016/j.agrformet.2013.02.005","keyword":["Ecohydrological modeling","Plant water relations","FACE experiments","Forest productivity","CO2 enrichment","Swiss Canopy Crane"],"author":[{"full_name":"Fatichi, Simone","first_name":"Simone","last_name":"Fatichi","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6"},{"last_name":"Leuzinger","first_name":"Sebastian","full_name":"Leuzinger, Sebastian"}],"page":"144-157","quality_controlled":"1","citation":{"ama":"Fatichi S, Leuzinger S. Reconciling observations with modeling: The fate of water and carbon allocation in a mature deciduous forest exposed to elevated CO2. <i>Agricultural and Forest Meteorology</i>. 2013;174-175:144-157. doi:<a href=\"https://doi.org/10.1016/j.agrformet.2013.02.005\">10.1016/j.agrformet.2013.02.005</a>","ista":"Fatichi S, Leuzinger S. 2013. Reconciling observations with modeling: The fate of water and carbon allocation in a mature deciduous forest exposed to elevated CO2. Agricultural and Forest Meteorology. 174–175, 144–157.","mla":"Fatichi, Simone, and Sebastian Leuzinger. “Reconciling Observations with Modeling: The Fate of Water and Carbon Allocation in a Mature Deciduous Forest Exposed to Elevated CO2.” <i>Agricultural and Forest Meteorology</i>, vol. 174–175, Elsevier, 2013, pp. 144–57, doi:<a href=\"https://doi.org/10.1016/j.agrformet.2013.02.005\">10.1016/j.agrformet.2013.02.005</a>.","short":"S. Fatichi, S. Leuzinger, Agricultural and Forest Meteorology 174–175 (2013) 144–157.","ieee":"S. Fatichi and S. Leuzinger, “Reconciling observations with modeling: The fate of water and carbon allocation in a mature deciduous forest exposed to elevated CO2,” <i>Agricultural and Forest Meteorology</i>, vol. 174–175. Elsevier, pp. 144–157, 2013.","apa":"Fatichi, S., &#38; Leuzinger, S. (2013). Reconciling observations with modeling: The fate of water and carbon allocation in a mature deciduous forest exposed to elevated CO2. <i>Agricultural and Forest Meteorology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.agrformet.2013.02.005\">https://doi.org/10.1016/j.agrformet.2013.02.005</a>","chicago":"Fatichi, Simone, and Sebastian Leuzinger. “Reconciling Observations with Modeling: The Fate of Water and Carbon Allocation in a Mature Deciduous Forest Exposed to Elevated CO2.” <i>Agricultural and Forest Meteorology</i>. Elsevier, 2013. <a href=\"https://doi.org/10.1016/j.agrformet.2013.02.005\">https://doi.org/10.1016/j.agrformet.2013.02.005</a>."},"publisher":"Elsevier","status":"public","day":"15","date_created":"2026-07-27T12:30:23Z","scopus_import":"1","oa_version":"None","language":[{"iso":"eng"}],"_id":"22476","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","fulldoi":"https://doi.org/10.1016/j.agrformet.2013.02.005","volume":"174-175","publication_status":"published","year":"2013","abstract":[{"lang":"eng","text":"Projections of the future carbon and water cycles rely on knowledge on how forests will respond to rising atmospheric CO2. Experiments with elevated CO2 are logistically challenging and carbon pools and fluxes are difficult to measure and upscale due to their spatiotemporal heterogeneity. Therefore, it is important to combine the knowledge derived from experimental results with modeling. Here, we systematically compare data from a free air CO2 enrichment (FACE) experiment in a mature deciduous forest in Switzerland with realizations from an ecohydrological model (Tethys–Chloris). We test whether a mechanistic ecohydrological model is able to simulate physiological plant responses under ambient and elevated CO2 concentration. We overcome measurement limitations by quantifying differences in response to ambient and elevated CO2 over ten years. The reliability of model realizations is demonstrated by comparing simulations with field observations of stomatal conductance, sap flow, leaf and fruit litter, and stem growth. The model successfully captures the observed CO2-induced difference in stomatal conductance and transpiration and its sensitivity to atmospheric demand, as well as qualitative changes in soil moisture. The simulated differences between CO2 scenarios generally fall within the uncertainty of experimental observations, both for the carbon and water balance. Simulated total evapotranspiration is 2.8% (18 mm yr−1) lower and soil moisture 1.2% higher in the CO2-enriched scenario. Latent and sensible heat are modified by ca. 1 W m−2. Net primary production is simulated to increase by 19.8% and allocation to stem growth is 53 gC yr−1 m−2 higher in the elevated CO2 scenario, which represents the limit of the detection threshold of the experiment. Results show that while ecohydrological models can be used to reliably simulate multi-year energy, water, and carbon fluxes at the stand level, testing carbon allocation remains critical with current accuracy of field measurements. Uncertainties due to the simplified carbon allocation scheme are shown to be more significant for carbon than for energy and water fluxes. Generally, we conclude that for this type of forest, differences in annual energy and water fluxes induced by elevated CO2 are likely to be less than 10%."}],"title":"Reconciling observations with modeling: The fate of water and carbon allocation in a mature deciduous forest exposed to elevated CO2","month":"06","date_updated":"2026-08-12T13:59:36Z","publication":"Agricultural and Forest Meteorology","das_tickbox":"1","extern":"1","type":"journal_article","OA_type":"closed access","article_processing_charge":"No"},{"status":"public","publisher":"Springer Nature","quality_controlled":"1","citation":{"ista":"Fatichi S, Ivanov VY, Caporali E. 2013. Assessment of a stochastic downscaling methodology in generating an ensemble of hourly future climate time series. Climate Dynamics. 40, 1841–1861.","mla":"Fatichi, Simone, et al. “Assessment of a Stochastic Downscaling Methodology in Generating an Ensemble of Hourly Future Climate Time Series.” <i>Climate Dynamics</i>, vol. 40, Springer Nature, 2013, pp. 1841–61, doi:<a href=\"https://doi.org/10.1007/s00382-012-1627-2\">10.1007/s00382-012-1627-2</a>.","ama":"Fatichi S, Ivanov VY, Caporali E. Assessment of a stochastic downscaling methodology in generating an ensemble of hourly future climate time series. <i>Climate Dynamics</i>. 2013;40:1841-1861. doi:<a href=\"https://doi.org/10.1007/s00382-012-1627-2\">10.1007/s00382-012-1627-2</a>","apa":"Fatichi, S., Ivanov, V. Y., &#38; Caporali, E. (2013). Assessment of a stochastic downscaling methodology in generating an ensemble of hourly future climate time series. <i>Climate Dynamics</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00382-012-1627-2\">https://doi.org/10.1007/s00382-012-1627-2</a>","chicago":"Fatichi, Simone, V. Y. Ivanov, and E. Caporali. “Assessment of a Stochastic Downscaling Methodology in Generating an Ensemble of Hourly Future Climate Time Series.” <i>Climate Dynamics</i>. Springer Nature, 2013. <a href=\"https://doi.org/10.1007/s00382-012-1627-2\">https://doi.org/10.1007/s00382-012-1627-2</a>.","short":"S. Fatichi, V.Y. Ivanov, E. Caporali, Climate Dynamics 40 (2013) 1841–1861.","ieee":"S. Fatichi, V. Y. Ivanov, and E. Caporali, “Assessment of a stochastic downscaling methodology in generating an ensemble of hourly future climate time series,” <i>Climate Dynamics</i>, vol. 40. Springer Nature, pp. 1841–1861, 2013."},"author":[{"full_name":"Fatichi, Simone","first_name":"Simone","last_name":"Fatichi","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6"},{"first_name":"V. Y.","full_name":"Ivanov, V. Y.","last_name":"Ivanov"},{"full_name":"Caporali, E.","first_name":"E.","last_name":"Caporali"}],"page":"1841-1861","keyword":["Stochastic downscaling","Weather generator","Uncertainty assessment","Firenze","Italy"],"doi":"10.1007/s00382-012-1627-2","article_type":"original","date_published":"2013-04-01T00:00:00Z","publication_identifier":{"eissn":["1432-0894"],"issn":["0930-7575"]},"publication_status":"published","volume":40,"fulldoi":"https://doi.org/10.1007/s00382-012-1627-2","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","_id":"22475","scopus_import":"1","language":[{"iso":"eng"}],"oa_version":"None","date_created":"2026-07-27T12:30:23Z","day":"01","publication":"Climate Dynamics","month":"04","date_updated":"2026-08-12T14:05:37Z","intvolume":"        40","title":"Assessment of a stochastic downscaling methodology in generating an ensemble of hourly future climate time series","abstract":[{"lang":"eng","text":"This study extends a stochastic downscaling methodology to generation of an ensemble of hourly time series of meteorological variables that express possible future climate conditions at a point-scale. The stochastic downscaling uses general circulation model (GCM) realizations and an hourly weather generator, the Advanced WEather GENerator (AWE-GEN). Marginal distributions of factors of change are computed for several climate statistics using a Bayesian methodology that can weight GCM realizations based on the model relative performance with respect to a historical climate and a degree of disagreement in projecting future conditions. A Monte Carlo technique is used to sample the factors of change from their respective marginal distributions. As a comparison with traditional approaches, factors of change are also estimated by averaging GCM realizations. With either approach, the derived factors of change are applied to the climate statistics inferred from historical observations to re-evaluate parameters of the weather generator. The re-parameterized generator yields hourly time series of meteorological variables that can be considered to be representative of future climate conditions. In this study, the time series are generated in an ensemble mode to fully reflect the uncertainty of GCM projections, climate stochasticity, as well as uncertainties of the downscaling procedure. Applications of the methodology in reproducing future climate conditions for the periods of 2000–2009, 2046–2065 and 2081–2100, using the period of 1962–1992 as the historical baseline are discussed for the location of Firenze (Italy). The inferences of the methodology for the period of 2000–2009 are tested against observations to assess reliability of the stochastic downscaling procedure in reproducing statistics of meteorological variables at different time scales."}],"year":"2013","article_processing_charge":"No","OA_type":"closed access","type":"journal_article","extern":"1","das_tickbox":"1"},{"month":"06","arxiv":1,"date_updated":"2026-08-12T14:29:19Z","publication":"Physical Review E","year":"2013","publist_id":"4074","abstract":[{"lang":"eng","text":"In pipe, channel, and boundary layer flows turbulence first occurs intermittently in space and time: at moderate Reynolds numbers domains of disordered turbulent motion are separated by quiescent laminar regions. Based on direct numerical simulations of pipe flow we argue here that the spatial intermittency has its origin in a nearest neighbor interaction between turbulent regions. We further show that in this regime turbulent flows are intrinsically intermittent with a well-defined equilibrium turbulent fraction but without ever assuming a steady pattern. This transition scenario is analogous to that found in simple models such as coupled map lattices. The scaling observed implies that laminar intermissions of the turbulent flow will persist to arbitrarily large Reynolds numbers."}],"main_file_link":[{"url":"http://arxiv.org/abs/1306.5890","open_access":"1"}],"title":"Nature of laminar-turbulence intermittency in shear flows","intvolume":"        87","type":"journal_article","article_processing_charge":"No","issue":"6","article_number":"063012","author":[{"first_name":"Marc","full_name":"Avila, Marc","last_name":"Avila"},{"orcid":"0000-0003-2057-2754","last_name":"Hof","id":"3A374330-F248-11E8-B48F-1D18A9856A87","full_name":"Hof, Björn","first_name":"Björn"}],"quality_controlled":"1","citation":{"ama":"Avila M, Hof B. Nature of laminar-turbulence intermittency in shear flows. <i>Physical Review E</i>. 2013;87(6). doi:<a href=\"https://doi.org/10.1103/PhysRevE.87.063012\">10.1103/PhysRevE.87.063012</a>","ista":"Avila M, Hof B. 2013. Nature of laminar-turbulence intermittency in shear flows. Physical Review E. 87(6), 063012.","mla":"Avila, Marc, and Björn Hof. “Nature of Laminar-Turbulence Intermittency in Shear Flows.” <i>Physical Review E</i>, vol. 87, no. 6, 063012, American Physical Society, 2013, doi:<a href=\"https://doi.org/10.1103/PhysRevE.87.063012\">10.1103/PhysRevE.87.063012</a>.","short":"M. Avila, B. Hof, Physical Review E 87 (2013).","ieee":"M. Avila and B. Hof, “Nature of laminar-turbulence intermittency in shear flows,” <i>Physical Review E</i>, vol. 87, no. 6. American Physical Society, 2013.","apa":"Avila, M., &#38; Hof, B. (2013). Nature of laminar-turbulence intermittency in shear flows. <i>Physical Review E</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevE.87.063012\">https://doi.org/10.1103/PhysRevE.87.063012</a>","chicago":"Avila, Marc, and Björn Hof. “Nature of Laminar-Turbulence Intermittency in Shear Flows.” <i>Physical Review E</i>. American Physical Society, 2013. <a href=\"https://doi.org/10.1103/PhysRevE.87.063012\">https://doi.org/10.1103/PhysRevE.87.063012</a>."},"isi":1,"publisher":"American Physical Society","status":"public","date_published":"2013-06-18T00:00:00Z","external_id":{"arxiv":["1306.5890"],"isi":["000320645700009"]},"doi":"10.1103/PhysRevE.87.063012","department":[{"_id":"BjHo"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1103/PhysRevE.87.063012","volume":87,"project":[{"grant_number":"306589","name":"Decoding the complexity of turbulence at its origin","_id":"25152F3A-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"publication_status":"published","oa":1,"ec_funded":1,"date_created":"2018-12-11T11:59:43Z","day":"18","scopus_import":"1","language":[{"iso":"eng"}],"oa_version":"Preprint","_id":"2811"},{"editor":[{"last_name":"Masino","full_name":"Masino, Susan","first_name":"Susan"},{"last_name":"Boison","full_name":"Boison, Detlev","first_name":"Detlev"}],"title":"The double-edged sword: Gaining Adenosine at the expense of ATP. How to balance the books","year":"2012","abstract":[{"lang":"eng","text":"Under physiological conditions the brain, via the purine salvage pathway, reuses the preformed purine bases hypoxanthine, derived from ATP degradation, and adenine (Ade), derived from polyamine synthesis, to restore its ATP pool. However, the massive degradation of ATP during ischemia, although providing valuable neuroprotective adenosine, results in the accumulation and loss of diffusible purine metabolites and thereby leads to a protracted reduction in the post-ischemic ATP pool size. In vivo, this may both limit the ability to deploy ATP-dependent reparative mechanisms and reduce the subsequent availability of adenosine, whilst in brain slices results in tissue with substantially lower levels of ATP than in vivo. In the present review, we describe the mechanisms by which brain tissue replenishes its ATP, how this can be improved with the clinically tolerated chemicals D-ribose and adenine, and the functional, and potential therapeutic, implications of doing so."}],"place":"New York","date_updated":"2022-06-21T11:51:58Z","month":"07","publication":"Adenosine","acknowledgement":"We are grateful to Research into Ageing/Ageing UK and The Dunhill Trust for funding SzN’s graduate studies, and to Prof Nicholas Dale for his valuable input.","article_processing_charge":"No","type":"book_chapter","department":[{"_id":"HaJa"}],"doi":"10.1007/978-1-4614-3903-5_6","publication_identifier":{"isbn":["9781461439028"],"eisbn":["9781461439035"]},"date_published":"2012-07-23T00:00:00Z","publisher":"Springer","status":"public","author":[{"last_name":"zur Nedden","id":"3C77F464-F248-11E8-B48F-1D18A9856A87","full_name":"zur Nedden, Stephanie","first_name":"Stephanie"},{"full_name":"Doney, Alexander S.","first_name":"Alexander S.","last_name":"Doney"},{"last_name":"Frenguelli","full_name":"Frenguelli, Bruno G.","first_name":"Bruno G."}],"page":"109-129","citation":{"ista":"zur Nedden S, Doney AS, Frenguelli BG. 2012.The double-edged sword: Gaining Adenosine at the expense of ATP. How to balance the books. In: Adenosine. , 109–129.","mla":"zur Nedden, Stephanie, et al. “The Double-Edged Sword: Gaining Adenosine at the Expense of ATP. How to Balance the Books.” <i>Adenosine</i>, edited by Susan Masino and Detlev Boison, 1st ed., Springer, 2012, pp. 109–29, doi:<a href=\"https://doi.org/10.1007/978-1-4614-3903-5_6\">10.1007/978-1-4614-3903-5_6</a>.","ama":"zur Nedden S, Doney AS, Frenguelli BG. The double-edged sword: Gaining Adenosine at the expense of ATP. How to balance the books. In: Masino S, Boison D, eds. <i>Adenosine</i>. 1st ed. New York: Springer; 2012:109-129. doi:<a href=\"https://doi.org/10.1007/978-1-4614-3903-5_6\">10.1007/978-1-4614-3903-5_6</a>","apa":"zur Nedden, S., Doney, A. S., &#38; Frenguelli, B. G. (2012). The double-edged sword: Gaining Adenosine at the expense of ATP. How to balance the books. In S. Masino &#38; D. Boison (Eds.), <i>Adenosine</i> (1st ed., pp. 109–129). New York: Springer. <a href=\"https://doi.org/10.1007/978-1-4614-3903-5_6\">https://doi.org/10.1007/978-1-4614-3903-5_6</a>","chicago":"Nedden, Stephanie zur, Alexander S. Doney, and Bruno G. Frenguelli. “The Double-Edged Sword: Gaining Adenosine at the Expense of ATP. How to Balance the Books.” In <i>Adenosine</i>, edited by Susan Masino and Detlev Boison, 1st ed., 109–29. New York: Springer, 2012. <a href=\"https://doi.org/10.1007/978-1-4614-3903-5_6\">https://doi.org/10.1007/978-1-4614-3903-5_6</a>.","short":"S. zur Nedden, A.S. Doney, B.G. Frenguelli, in:, S. Masino, D. Boison (Eds.), Adenosine, 1st ed., Springer, New York, 2012, pp. 109–129.","ieee":"S. zur Nedden, A. S. Doney, and B. G. Frenguelli, “The double-edged sword: Gaining Adenosine at the expense of ATP. How to balance the books,” in <i>Adenosine</i>, 1st ed., S. Masino and D. Boison, Eds. New York: Springer, 2012, pp. 109–129."},"quality_controlled":"1","language":[{"iso":"eng"}],"oa_version":"None","scopus_import":"1","_id":"10896","date_created":"2022-03-21T07:16:12Z","day":"23","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","edition":"1","fulldoi":"https://doi.org/10.1007/978-1-4614-3903-5_6"},{"type":"conference","article_processing_charge":"No","acknowledgement":"This work has been partially supported by the French ANR project Veridyc","month":"10","date_updated":"2024-10-09T21:02:34Z","alternative_title":["LNCS"],"publication":"Automated Technology for Verification and Analysis","place":"Berlin, Heidelberg","year":"2012","series_title":"LNCS","abstract":[{"text":"We propose a logic-based framework for automated reasoning about sequential programs manipulating singly-linked lists and arrays with unbounded data. We introduce the logic SLAD, which allows combining shape constraints, written in a fragment of Separation Logic, with data and size constraints. We address the problem of checking the entailment between SLAD formulas, which is crucial in performing pre-post condition reasoning. Although this problem is undecidable in general for SLAD, we propose a sound and powerful procedure that is able to solve this problem for a large class of formulas, beyond the capabilities of existing techniques and tools. We prove that this procedure is complete, i.e., it is actually a decision procedure for this problem, for an important fragment of SLAD including known decidable logics. We implemented this procedure and shown its preciseness and its efficiency on a significant benchmark of formulas.","lang":"eng"}],"title":"Accurate invariant checking for programs manipulating lists and arrays with infinite data","intvolume":"      7561","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","fulldoi":"https://doi.org/10.1007/978-3-642-33386-6_14","volume":7561,"conference":{"end_date":"2012-10-06","location":"Thiruvananthapuram, India","start_date":"2012-10-03","name":"ATVA: Automated Technology for Verification and Analysis"},"publication_status":"published","date_created":"2022-03-21T07:58:39Z","day":"15","scopus_import":"1","oa_version":"None","language":[{"iso":"eng"}],"corr_author":"1","_id":"10903","author":[{"last_name":"Bouajjani","full_name":"Bouajjani, Ahmed","first_name":"Ahmed"},{"full_name":"Dragoi, Cezara","first_name":"Cezara","last_name":"Dragoi","id":"2B2B5ED0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Enea, Constantin","first_name":"Constantin","last_name":"Enea"},{"last_name":"Sighireanu","full_name":"Sighireanu, Mihaela","first_name":"Mihaela"}],"page":"167-182","quality_controlled":"1","citation":{"ama":"Bouajjani A, Dragoi C, Enea C, Sighireanu M. Accurate invariant checking for programs manipulating lists and arrays with infinite data. In: <i>Automated Technology for Verification and Analysis</i>. Vol 7561. LNCS. Berlin, Heidelberg: Springer; 2012:167-182. doi:<a href=\"https://doi.org/10.1007/978-3-642-33386-6_14\">10.1007/978-3-642-33386-6_14</a>","ista":"Bouajjani A, Dragoi C, Enea C, Sighireanu M. 2012. Accurate invariant checking for programs manipulating lists and arrays with infinite data. Automated Technology for Verification and Analysis. ATVA: Automated Technology for Verification and AnalysisLNCS, LNCS, vol. 7561, 167–182.","mla":"Bouajjani, Ahmed, et al. “Accurate Invariant Checking for Programs Manipulating Lists and Arrays with Infinite Data.” <i>Automated Technology for Verification and Analysis</i>, vol. 7561, Springer, 2012, pp. 167–82, doi:<a href=\"https://doi.org/10.1007/978-3-642-33386-6_14\">10.1007/978-3-642-33386-6_14</a>.","short":"A. Bouajjani, C. Dragoi, C. Enea, M. Sighireanu, in:, Automated Technology for Verification and Analysis, Springer, Berlin, Heidelberg, 2012, pp. 167–182.","ieee":"A. Bouajjani, C. Dragoi, C. Enea, and M. Sighireanu, “Accurate invariant checking for programs manipulating lists and arrays with infinite data,” in <i>Automated Technology for Verification and Analysis</i>, Thiruvananthapuram, India, 2012, vol. 7561, pp. 167–182.","apa":"Bouajjani, A., Dragoi, C., Enea, C., &#38; Sighireanu, M. (2012). Accurate invariant checking for programs manipulating lists and arrays with infinite data. In <i>Automated Technology for Verification and Analysis</i> (Vol. 7561, pp. 167–182). Berlin, Heidelberg: Springer. <a href=\"https://doi.org/10.1007/978-3-642-33386-6_14\">https://doi.org/10.1007/978-3-642-33386-6_14</a>","chicago":"Bouajjani, Ahmed, Cezara Dragoi, Constantin Enea, and Mihaela Sighireanu. “Accurate Invariant Checking for Programs Manipulating Lists and Arrays with Infinite Data.” In <i>Automated Technology for Verification and Analysis</i>, 7561:167–82. LNCS. Berlin, Heidelberg: Springer, 2012. <a href=\"https://doi.org/10.1007/978-3-642-33386-6_14\">https://doi.org/10.1007/978-3-642-33386-6_14</a>."},"publisher":"Springer","status":"public","date_published":"2012-10-15T00:00:00Z","publication_identifier":{"eisbn":["9783642333866"],"isbn":["9783642333859"],"eissn":["1611-3349"],"issn":["0302-9743"]},"doi":"10.1007/978-3-642-33386-6_14","department":[{"_id":"ToHe"}]},{"abstract":[{"lang":"eng","text":"The Nuclear Envelope (NE) contains over 100 different proteins that associate with nuclear components such as chromatin, the lamina and the transcription machinery. Mutations in genes encoding NE proteins have been shown to result in tissue-specific defects and disease, suggesting cell-type specific differences in NE composition and function. Consistent with these observations, recent studies have revealed unexpected functions for numerous NE associated proteins during cell differentiation and development. Here we review the latest insights into the roles played by the NE in cell differentiation, development, disease and aging, focusing primarily on inner nuclear membrane (INM) proteins and nuclear pore components."}],"year":"2012","intvolume":"        24","title":"Outfits for different occasions: tissue-specific roles of Nuclear Envelope proteins","publication":"Current Opinion in Cell Biology","month":"12","date_updated":"2024-10-14T11:25:04Z","issue":"6","type":"journal_article","extern":"1","pmid":1,"article_processing_charge":"No","article_type":"original","date_published":"2012-12-01T00:00:00Z","external_id":{"pmid":["22995343"]},"publication_identifier":{"issn":["0955-0674"]},"keyword":["Cell Biology"],"doi":"10.1016/j.ceb.2012.08.008","quality_controlled":"1","citation":{"ama":"Gomez-Cavazos JS, Hetzer M. Outfits for different occasions: tissue-specific roles of Nuclear Envelope proteins. <i>Current Opinion in Cell Biology</i>. 2012;24(6):775-783. doi:<a href=\"https://doi.org/10.1016/j.ceb.2012.08.008\">10.1016/j.ceb.2012.08.008</a>","mla":"Gomez-Cavazos, J. Sebastian, and Martin Hetzer. “Outfits for Different Occasions: Tissue-Specific Roles of Nuclear Envelope Proteins.” <i>Current Opinion in Cell Biology</i>, vol. 24, no. 6, Elsevier, 2012, pp. 775–83, doi:<a href=\"https://doi.org/10.1016/j.ceb.2012.08.008\">10.1016/j.ceb.2012.08.008</a>.","ista":"Gomez-Cavazos JS, Hetzer M. 2012. Outfits for different occasions: tissue-specific roles of Nuclear Envelope proteins. Current Opinion in Cell Biology. 24(6), 775–783.","ieee":"J. S. Gomez-Cavazos and M. Hetzer, “Outfits for different occasions: tissue-specific roles of Nuclear Envelope proteins,” <i>Current Opinion in Cell Biology</i>, vol. 24, no. 6. Elsevier, pp. 775–783, 2012.","short":"J.S. Gomez-Cavazos, M. Hetzer, Current Opinion in Cell Biology 24 (2012) 775–783.","chicago":"Gomez-Cavazos, J Sebastian, and Martin Hetzer. “Outfits for Different Occasions: Tissue-Specific Roles of Nuclear Envelope Proteins.” <i>Current Opinion in Cell Biology</i>. Elsevier, 2012. <a href=\"https://doi.org/10.1016/j.ceb.2012.08.008\">https://doi.org/10.1016/j.ceb.2012.08.008</a>.","apa":"Gomez-Cavazos, J. S., &#38; Hetzer, M. (2012). Outfits for different occasions: tissue-specific roles of Nuclear Envelope proteins. <i>Current Opinion in Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ceb.2012.08.008\">https://doi.org/10.1016/j.ceb.2012.08.008</a>"},"page":"775-783","author":[{"last_name":"Gomez-Cavazos","first_name":"J Sebastian","full_name":"Gomez-Cavazos, J Sebastian"},{"orcid":"0000-0002-2111-992X","last_name":"HETZER","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","full_name":"HETZER, Martin W","first_name":"Martin W"}],"status":"public","publisher":"Elsevier","date_created":"2022-04-07T07:51:37Z","day":"01","_id":"11089","scopus_import":"1","oa_version":"None","language":[{"iso":"eng"}],"fulldoi":"https://doi.org/10.1016/j.ceb.2012.08.008","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","volume":24},{"publication":"Cell","date_updated":"2024-10-14T11:25:24Z","month":"05","abstract":[{"text":"Nuclear export of mRNAs is thought to occur exclusively through nuclear pore complexes. In this issue of Cell, Speese et al. identify an alternate pathway for mRNA export in muscle cells where ribonucleoprotein complexes involved in forming neuromuscular junctions transit the nuclear envelope by fusing with and budding through the nuclear membrane.","lang":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cell.2012.04.018"}],"year":"2012","intvolume":"       149","title":"RNP export by nuclear envelope budding","type":"journal_article","extern":"1","pmid":1,"article_processing_charge":"No","issue":"4","citation":{"apa":"Hatch, E. M., &#38; Hetzer, M. (2012). RNP export by nuclear envelope budding. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2012.04.018\">https://doi.org/10.1016/j.cell.2012.04.018</a>","chicago":"Hatch, Emily M., and Martin Hetzer. “RNP Export by Nuclear Envelope Budding.” <i>Cell</i>. Elsevier, 2012. <a href=\"https://doi.org/10.1016/j.cell.2012.04.018\">https://doi.org/10.1016/j.cell.2012.04.018</a>.","short":"E.M. Hatch, M. Hetzer, Cell 149 (2012) 733–735.","ieee":"E. M. Hatch and M. Hetzer, “RNP export by nuclear envelope budding,” <i>Cell</i>, vol. 149, no. 4. Elsevier, pp. 733–735, 2012.","ista":"Hatch EM, Hetzer M. 2012. RNP export by nuclear envelope budding. Cell. 149(4), 733–735.","mla":"Hatch, Emily M., and Martin Hetzer. “RNP Export by Nuclear Envelope Budding.” <i>Cell</i>, vol. 149, no. 4, Elsevier, 2012, pp. 733–35, doi:<a href=\"https://doi.org/10.1016/j.cell.2012.04.018\">10.1016/j.cell.2012.04.018</a>.","ama":"Hatch EM, Hetzer M. RNP export by nuclear envelope budding. <i>Cell</i>. 2012;149(4):733-735. doi:<a href=\"https://doi.org/10.1016/j.cell.2012.04.018\">10.1016/j.cell.2012.04.018</a>"},"quality_controlled":"1","page":"733-735","author":[{"first_name":"Emily M.","full_name":"Hatch, Emily M.","last_name":"Hatch"},{"full_name":"HETZER, Martin W","first_name":"Martin W","last_name":"HETZER","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","orcid":"0000-0002-2111-992X"}],"status":"public","publisher":"Elsevier","article_type":"letter_note","publication_identifier":{"issn":["0092-8674"]},"external_id":{"pmid":["22579277"]},"date_published":"2012-05-11T00:00:00Z","keyword":["General Biochemistry","Genetics and Molecular Biology"],"doi":"10.1016/j.cell.2012.04.018","fulldoi":"https://doi.org/10.1016/j.cell.2012.04.018","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"publication_status":"published","volume":149,"day":"11","date_created":"2022-04-07T07:51:45Z","_id":"11090","language":[{"iso":"eng"}],"oa_version":"Published Version","scopus_import":"1"},{"publication_identifier":{"issn":["1949-1034"],"eissn":["1949-1042"]},"external_id":{"pmid":["22567193"]},"date_published":"2012-01-01T00:00:00Z","article_type":"original","doi":"10.4161/nucl.18954","keyword":["Cell Biology"],"page":"88-100","author":[{"first_name":"Jesse D.","full_name":"Vargas, Jesse D.","last_name":"Vargas"},{"last_name":"Hatch","first_name":"Emily M.","full_name":"Hatch, Emily M."},{"last_name":"Anderson","first_name":"Daniel J.","full_name":"Anderson, Daniel J."},{"orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","first_name":"Martin W","full_name":"HETZER, Martin W"}],"citation":{"short":"J.D. Vargas, E.M. Hatch, D.J. Anderson, M. Hetzer, Nucleus 3 (2012) 88–100.","ieee":"J. D. Vargas, E. M. Hatch, D. J. Anderson, and M. Hetzer, “Transient nuclear envelope rupturing during interphase in human cancer cells,” <i>Nucleus</i>, vol. 3, no. 1. Taylor &#38; Francis, pp. 88–100, 2012.","apa":"Vargas, J. D., Hatch, E. M., Anderson, D. J., &#38; Hetzer, M. (2012). Transient nuclear envelope rupturing during interphase in human cancer cells. <i>Nucleus</i>. Taylor &#38; Francis. <a href=\"https://doi.org/10.4161/nucl.18954\">https://doi.org/10.4161/nucl.18954</a>","chicago":"Vargas, Jesse D., Emily M. Hatch, Daniel J. Anderson, and Martin Hetzer. “Transient Nuclear Envelope Rupturing during Interphase in Human Cancer Cells.” <i>Nucleus</i>. Taylor &#38; Francis, 2012. <a href=\"https://doi.org/10.4161/nucl.18954\">https://doi.org/10.4161/nucl.18954</a>.","ama":"Vargas JD, Hatch EM, Anderson DJ, Hetzer M. Transient nuclear envelope rupturing during interphase in human cancer cells. <i>Nucleus</i>. 2012;3(1):88-100. doi:<a href=\"https://doi.org/10.4161/nucl.18954\">10.4161/nucl.18954</a>","ista":"Vargas JD, Hatch EM, Anderson DJ, Hetzer M. 2012. Transient nuclear envelope rupturing during interphase in human cancer cells. Nucleus. 3(1), 88–100.","mla":"Vargas, Jesse D., et al. “Transient Nuclear Envelope Rupturing during Interphase in Human Cancer Cells.” <i>Nucleus</i>, vol. 3, no. 1, Taylor &#38; Francis, 2012, pp. 88–100, doi:<a href=\"https://doi.org/10.4161/nucl.18954\">10.4161/nucl.18954</a>."},"quality_controlled":"1","publisher":"Taylor & Francis","status":"public","day":"01","date_created":"2022-04-07T07:51:53Z","oa_version":"None","language":[{"iso":"eng"}],"scopus_import":"1","_id":"11091","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.4161/nucl.18954","volume":3,"publication_status":"published","year":"2012","abstract":[{"lang":"eng","text":"Neoplastic cells are often characterized by specific morphological abnormalities of the nuclear envelope (NE), which have been used for cancer diagnosis for more than a century. The NE is a double phospholipid bilayer that encapsulates the nuclear genome, regulates all nuclear trafficking of RNAs and proteins and prevents the passive diffusion of macromolecules between the nucleoplasm and the cytoplasm. Whether there is a consequence to the proper functioning of the cell and loss of structural integrity of the nucleus remains unclear. Using live cell imaging, we characterize a phenomenon wherein nuclei of several proliferating human cancer cell lines become temporarily ruptured during interphase. Strikingly, NE rupturing was associated with the mislocalization of nucleoplasmic and cytoplasmic proteins and, in the most extreme cases, the entrapment of cytoplasmic organelles in the nuclear interior. In addition, we observed the formation of micronuclei-like structures during interphase and the movement of chromatin out of the nuclear space. The frequency of these NE rupturing events was higher in cells in which the nuclear lamina, a network of intermediate filaments providing mechanical support to the NE, was not properly formed. Our data uncover the existence of a NE instability that has the potential to change the genomic landscape of cancer cells."}],"title":"Transient nuclear envelope rupturing during interphase in human cancer cells","intvolume":"         3","date_updated":"2024-10-14T11:25:37Z","month":"01","publication":"Nucleus","issue":"1","pmid":1,"extern":"1","type":"journal_article","article_processing_charge":"No"},{"article_processing_charge":"No","pmid":1,"extern":"1","type":"journal_article","issue":"6071","date_updated":"2025-12-15T10:03:06Z","month":"02","publication":"Science","intvolume":"       335","title":"Extremely long-lived nuclear pore proteins in the rat brain","year":"2012","abstract":[{"lang":"eng","text":"To combat the functional decline of the proteome, cells use the process of protein turnover to replace potentially impaired polypeptides with new functional copies. We found that extremely long-lived proteins (ELLPs) did not turn over in postmitotic cells of the rat central nervous system. These ELLPs were associated with chromatin and the nuclear pore complex, the central transport channels that mediate all molecular trafficking in and out of the nucleus. The longevity of these proteins would be expected to expose them to potentially harmful metabolites, putting them at risk of accumulating damage over extended periods of time. Thus, it is possible that failure to maintain proper levels and functional integrity of ELLPs in nonproliferative cells might contribute to age-related deterioration in cell and tissue function."}],"volume":335,"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1126/science.1217421","language":[{"iso":"eng"}],"oa_version":"None","scopus_import":"1","_id":"11092","date_created":"2022-04-07T07:52:01Z","day":"02","publisher":"American Association for the Advancement of Science","status":"public","author":[{"last_name":"Savas","first_name":"Jeffrey N.","full_name":"Savas, Jeffrey N."},{"last_name":"Toyama","first_name":"Brandon H.","full_name":"Toyama, Brandon H."},{"last_name":"Xu","first_name":"Tao","full_name":"Xu, Tao"},{"first_name":"John R.","full_name":"Yates, John R.","last_name":"Yates"},{"first_name":"Martin W","full_name":"HETZER, Martin W","orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER"}],"page":"942-942","citation":{"ista":"Savas JN, Toyama BH, Xu T, Yates JR, Hetzer M. 2012. Extremely long-lived nuclear pore proteins in the rat brain. Science. 335(6071), 942–942.","mla":"Savas, Jeffrey N., et al. “Extremely Long-Lived Nuclear Pore Proteins in the Rat Brain.” <i>Science</i>, vol. 335, no. 6071, American Association for the Advancement of Science, 2012, pp. 942–942, doi:<a href=\"https://doi.org/10.1126/science.1217421\">10.1126/science.1217421</a>.","ama":"Savas JN, Toyama BH, Xu T, Yates JR, Hetzer M. Extremely long-lived nuclear pore proteins in the rat brain. <i>Science</i>. 2012;335(6071):942-942. doi:<a href=\"https://doi.org/10.1126/science.1217421\">10.1126/science.1217421</a>","apa":"Savas, J. N., Toyama, B. H., Xu, T., Yates, J. R., &#38; Hetzer, M. (2012). Extremely long-lived nuclear pore proteins in the rat brain. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.1217421\">https://doi.org/10.1126/science.1217421</a>","chicago":"Savas, Jeffrey N., Brandon H. Toyama, Tao Xu, John R. Yates, and Martin Hetzer. “Extremely Long-Lived Nuclear Pore Proteins in the Rat Brain.” <i>Science</i>. American Association for the Advancement of Science, 2012. <a href=\"https://doi.org/10.1126/science.1217421\">https://doi.org/10.1126/science.1217421</a>.","short":"J.N. Savas, B.H. Toyama, T. Xu, J.R. Yates, M. Hetzer, Science 335 (2012) 942–942.","ieee":"J. N. Savas, B. H. Toyama, T. Xu, J. R. Yates, and M. Hetzer, “Extremely long-lived nuclear pore proteins in the rat brain,” <i>Science</i>, vol. 335, no. 6071. American Association for the Advancement of Science, pp. 942–942, 2012."},"quality_controlled":"1","department":[{"_id":"MaHe"}],"doi":"10.1126/science.1217421","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"external_id":{"pmid":["22300851"]},"date_published":"2012-02-02T00:00:00Z","article_type":"letter_note"},{"publisher":"Elsevier","status":"public","author":[{"first_name":"Maximiliano A.","full_name":"D'Angelo, Maximiliano A.","last_name":"D'Angelo"},{"last_name":"Gomez-Cavazos","full_name":"Gomez-Cavazos, J. Sebastian","first_name":"J. Sebastian"},{"last_name":"Mei","first_name":"Arianna","full_name":"Mei, Arianna"},{"full_name":"Lackner, Daniel H.","first_name":"Daniel H.","last_name":"Lackner"},{"orcid":"0000-0002-2111-992X","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","last_name":"HETZER","first_name":"Martin W","full_name":"HETZER, Martin W"}],"page":"446-458","citation":{"mla":"D’Angelo, Maximiliano A., et al. “A Change in Nuclear Pore Complex Composition Regulates Cell Differentiation.” <i>Developmental Cell</i>, vol. 22, no. 2, Elsevier, 2012, pp. 446–58, doi:<a href=\"https://doi.org/10.1016/j.devcel.2011.11.021\">10.1016/j.devcel.2011.11.021</a>.","ista":"D’Angelo MA, Gomez-Cavazos JS, Mei A, Lackner DH, Hetzer M. 2012. A change in nuclear pore complex composition regulates cell differentiation. Developmental Cell. 22(2), 446–458.","ama":"D’Angelo MA, Gomez-Cavazos JS, Mei A, Lackner DH, Hetzer M. A change in nuclear pore complex composition regulates cell differentiation. <i>Developmental Cell</i>. 2012;22(2):446-458. doi:<a href=\"https://doi.org/10.1016/j.devcel.2011.11.021\">10.1016/j.devcel.2011.11.021</a>","chicago":"D’Angelo, Maximiliano A., J. Sebastian Gomez-Cavazos, Arianna Mei, Daniel H. Lackner, and Martin Hetzer. “A Change in Nuclear Pore Complex Composition Regulates Cell Differentiation.” <i>Developmental Cell</i>. Elsevier, 2012. <a href=\"https://doi.org/10.1016/j.devcel.2011.11.021\">https://doi.org/10.1016/j.devcel.2011.11.021</a>.","apa":"D’Angelo, M. A., Gomez-Cavazos, J. S., Mei, A., Lackner, D. H., &#38; Hetzer, M. (2012). A change in nuclear pore complex composition regulates cell differentiation. <i>Developmental Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.devcel.2011.11.021\">https://doi.org/10.1016/j.devcel.2011.11.021</a>","ieee":"M. A. D’Angelo, J. S. Gomez-Cavazos, A. Mei, D. H. Lackner, and M. Hetzer, “A change in nuclear pore complex composition regulates cell differentiation,” <i>Developmental Cell</i>, vol. 22, no. 2. Elsevier, pp. 446–458, 2012.","short":"M.A. D’Angelo, J.S. Gomez-Cavazos, A. Mei, D.H. Lackner, M. Hetzer, Developmental Cell 22 (2012) 446–458."},"quality_controlled":"1","doi":"10.1016/j.devcel.2011.11.021","keyword":["Developmental Biology","Cell Biology","General Biochemistry","Genetics and Molecular Biology","Molecular Biology"],"external_id":{"pmid":["22264802"]},"publication_identifier":{"issn":["1534-5807"]},"date_published":"2012-01-19T00:00:00Z","article_type":"original","volume":22,"oa":1,"publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1016/j.devcel.2011.11.021","oa_version":"Published Version","language":[{"iso":"eng"}],"scopus_import":"1","_id":"11093","day":"19","date_created":"2022-04-07T07:52:10Z","date_updated":"2024-10-14T11:26:00Z","month":"01","publication":"Developmental Cell","title":"A change in nuclear pore complex composition regulates cell differentiation","intvolume":"        22","year":"2012","main_file_link":[{"url":"https://doi.org/10.1016/j.devcel.2011.11.021","open_access":"1"}],"abstract":[{"lang":"eng","text":"Nuclear pore complexes (NPCs) are built from ∼30 different proteins called nucleoporins or Nups. Previous studies have shown that several Nups exhibit cell-type-specific expression and that mutations in NPC components result in tissue-specific diseases. Here we show that a specific change in NPC composition is required for both myogenic and neuronal differentiation. The transmembrane nucleoporin Nup210 is absent in proliferating myoblasts and embryonic stem cells (ESCs) but becomes expressed and incorporated into NPCs during cell differentiation. Preventing Nup210 production by RNAi blocks myogenesis and the differentiation of ESCs into neuroprogenitors. We found that the addition of Nup210 to NPCs does not affect nuclear transport but is required for the induction of genes that are essential for cell differentiation. Our results identify a single change in NPC composition as an essential step in cell differentiation and establish a role for Nup210 in gene expression regulation and cell fate determination."}],"article_processing_charge":"No","pmid":1,"extern":"1","type":"journal_article","issue":"2"}]