This is the final version. Available on open access from Rockefeller University Press via the DOI in this record ; Data availability All raw data and original Mascot result files have been deposited to the ProteomeXchange Consortium (http://proteomecentral. proteomexchange.org) via the PRIDE partner repository (http:// www.ebi.ac.uk/pride/archive/login; Perez-Riverol et al., 2019) with the dataset identifier PXD018005. The research data supporting this publication are provided within this paper, as supplementary information, or are deposited on PRIDE. ; Peroxisomes and the endoplasmic reticulum (ER) cooperate in cellular lipid metabolism. They form membrane contacts through interaction of the peroxisomal membrane protein ACBD5 (acyl-coenzyme A–binding domain protein 5) and the ER-resident protein VAPB (vesicle-associated membrane protein–associated protein B). ACBD5 binds to the major sperm protein domain of VAPB via its FFAT-like (two phenylalanines [FF] in an acidic tract) motif. However, molecular mechanisms, which regulate formation of these membrane contact sites, are unknown. Here, we reveal that peroxisome–ER associations via the ACBD5-VAPB tether are regulated by phosphorylation. We show that ACBD5-VAPB binding is phosphatase-sensitive and identify phosphorylation sites in the flanking regions and core of the FFAT-like motif, which alter interaction with VAPB—and thus peroxisome–ER contact sites—differently. Moreover, we demonstrate that GSK3β (glycogen synthase kinase-3 β) regulates this interaction. Our findings reveal for the first time a molecular mechanism for the regulation of peroxisome–ER contacts in mammalian cells and expand the current model of FFAT motifs and VAP interaction. ; Biotechnology and Biological Sciences Research Council (BBSRC) ; Medical Research Council (MRC) ; UKRI ; Royal Society ; University of Exeter ; European Union Horizon 2020 ; Deutsche Forschungsgemeinschaft
Embargoed until publication ; Background: Spontaneous closure of patent ductus arteriosus (PDA) occurs frequently in very preterm infants and despite the lack of evidence for treatment benefits, treatment for PDA is common in neonatal medicine. Objectives: To study regional variation in PDA treatment in very preterm infants (≤31 weeks gestational weeks), its relation to differences in perinatal characteristics and associations with bronchopulmonary dysplasia (BPD) and survival without major neonatal morbidity. Methods: Population-based cohort study in 19 regions in 11 European countries 2011-2012. 6,896 infants with data on PDA treatment were included. Differences in infant characteristics were studied across regions using a propensity score derived from perinatal risk factors for PDA treatment. Primary outcomes were a composite of BPD or death before 36 weeks postmenstrual age, or survival without major neonatal morbidity. Results: The proportion of PDA treatment varied from 10 to 39% between regions (p25%, n=4) proportion of PDA treatment. Infants treated for PDA, compared to not treated, were at higher risk of BPD or death in all regions, with an overall propensity score adjusted risk ratio of 1.33 (95% confidence interval 1.18-1.51). Survival without major neonatal morbidity was not related to PDA treatment. Conclusions: PDA treatment varies largely across Europe without associated variations in perinatal characteristics or neonatal outcomes. This finding calls for more uniform guidance for PDA diagnosis and treatment in very preterm infants. ; This study was financially supported through the European Union's Seventh Framework Programme ([FP7/2007-2013]) under grant agreement n°259882; the Swedish Heart and Lung Foundation; Stockholm county council (ALF project to MN; and AKEB by a clinical research appointment), and by the Department of Neonatal Medicine, Karolinska University Hospital. ; Peer-reviewed ; Post-print
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Sloan Foundation ; Alexander von Humboldt Foundation ; Belgian Federal Science Policy Office ; Fonds pour la Formation a la Recherche dans l'Industrie et dans l'Agriculture (FRIA-Belgium) ; Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium) ; Ministry of Education, Youth and Sports (MEYS) of the Czech Republic ; Council of Science and Industrial Research, India ; HOMING PLUS programme of the Foundation for Polish Science ; European Union ; Regional Development Fund ; Mobility Plus programme of the Ministry of Science and Higher Education ; National Science Center (Poland) ; Thalis and Aristeia programmes - EU-ESF ; Greek NSRF ; National Priorities Research Program by Qatar National Research Fund ; Programa Clarin-COFUND del Principado de Asturias ; Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University ; Chulalongkorn Academic into Its 2nd Century Project Advancement Project (Thailand) ; Welch Foundation ; Ministry of Education and Research, Estonian Research Council: IUT23-4 ; Ministry of Education and Research, Estonian Research Council: IUT23-6 ; National Science Center (Poland): Harmonia 2014/14/M/ST2/00428 ; National Science Center (Poland): Opus 2014/13/B/ST2/02543 ; National Science Center (Poland): 2014/15/B/ST2/03998 ; National Science Center (Poland): 2015/19/B/ST2/02861 ; National Science Center (Poland): Sonata-bis 2012/07/E/ST2/01406 ; Welch Foundation: C-1845 ; The CMS tracker consists of 206m(2) of silicon strip sensors assembled on carbon fibre composite structures and is designed for operation in the temperature range from -25 to + 25 degrees C. The mechanical stability of tracker components during physics operation was monitored with a few mu m resolution using a dedicated laser alignment system as well as particle tracks from cosmic rays and hadron-hadron collisions. During the LHC operational period of 2011-2013 at stable temperatures, the components of the tracker were observed to experience relative movements of less than 30 mu m. In addition, temperature variations were found to cause displacements of tracker structures of about 2 mu m/degrees C, which largely revert to their initial positions when the temperature is restored to its original value.
Austrian Federal Ministry of Science and Research ; Austrian Science Fund ; Belgian Fonds de la Recherche Scientifique ; Fonds voor Wetenschappelijk Onderzoek ; Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) ; Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) ; Fundação de Amparo à Pesquisa do Estado do Rio de Janeiro (FAPERJ) ; Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) ; Bulgarian Ministry of Education and Science ; CERN ; Chinese Academy of Sciences ; Ministry of Science and Technology ; National Natural Science Foundation of China ; Colombian Funding Agency (COLCIENCIAS) ; Croatian Ministry of Science, Education and Sport ; Croatian Science Foundation ; Research Promotion Foundation ; Cyprus ; Ministry of Education and Research ; Recurrent financing contract ; European Regional Development Fund ; Estonia ; Academy of Finland ; Finnish Ministry of Education and Culture ; Helsinki Institute of Physics ; Institut National de Physique Nucleaire et de Physique des Particules / CNRS ; Commissariat a l'Energie Atomique et aux Energies Alternatives / CEA, France ; Bundesministerium fur Bildung und Forschung ; Deutsche Forschungsgemeinschaft ; Helmholtz-Gemeinschaft Deutscher Forschungszentren, Germany ; General Secretariat for Research and Technology, Greece ; National Scientific Research Foundation ; National Innovation Office, Hungary ; Department of Atomic Energy ; Department of Science and Technology, India ; Institute for Studies in Theoretical Physics and Mathematics, Iran ; Science Foundation, Ireland ; Istituto Nazionale di Fisica Nucleare, Italy ; Korean Ministry of Education, Science and Technology ; World Class University program of NRF, Republic of Korea ; Lithuanian Academy of Sciences ; Ministry of Education, and University of Malaya (Malaysia) ; CINVESTAV ; CONACYT ; SEP ; UASLP-FAI ; Ministry of Business, Innovation and Employment, New Zealand ; Pakistan Atomic Energy Commission ; Ministry of Science and Higher Education ; National Science Centre, Poland ; Fundacao para a Ciencia e a Tecnologia, Portugal ; JINR, Dubna ; Ministry of Education and Science of the Russian Federation ; Federal Agency of Atomic Energy of the Russian Federation, Russian Academy of Sciences ; Russian Foundation for Basic Research ; Ministry of Education, Science and Technological Development of Serbia ; Secretaria de Estado de Investigacion, Desarrollo e Innovacion and Programa Consolider-Ingenio, Spain ; ETH Board ; ETH Zurich ; PSI ; SNF ; UniZH ; Canton Zurich ; SER ; National Science Council, Taipei ; Thailand Center of Excellence in Physics ; Institute for the Promotion of Teaching Science and Technology of Thailand ; Special Task Force for Activating Research ; National Science and Technology Development Agency of Thailand ; Scientific and Technical Research Council of Turkey ; Turkish Atomic Energy Authority ; National Academy of Sciences of Ukraine ; State Fund for Fundamental Researches, Ukraine ; Science and Technology Facilities Council, U.K. ; US Department of Energy ; US National Science Foundation ; Marie-Curie programme ; European Research Council ; EPLANET (European Union) ; Leventis Foundation ; A. P. Sloan Foundation ; Alexander von Humboldt Foundation ; Belgian Federal Science Policy Office ; Fonds pour la Formation a la Recherche dans l'Industrie et dans l'Agriculture (FRIA-Belgium) ; Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium) ; Ministry of Education, Youth and Sports (MEYS) of Czech Republic ; Council of Science and Industrial Research, India ; Compagnia di San Paolo (Torino) ; HOMING PLUS programme of Foundation for Polish Science ; EU ; Regional Development Fund ; Thalis and Aristeia programmes ; EU-ESF ; Greek NSRF ; Recurrent financing contractSF0690030s09 ; The central component of the CMS detector is the largest silicon tracker ever built. The precise alignment of this complex device is a formidable challenge, and only achievable with a significant extension of the technologies routinely used for tracking detectors in the past. This article describes the full-scale alignment procedure as it is used during LHC operations. Among the specific features of the method are the simultaneous determination of up to 200 000 alignment parameters with tracks, the measurement of individual sensor curvature parameters, the control of systematic misalignment effects, and the implementation of the whole procedure in a multiprocessor environment for high execution speed. Overall, the achieved statistical accuracy on the module alignment is found to be significantly better than 10 mu m.
BMWFW (Austria) ; FWF (Austria) ; FNRS (Belgium) ; FWO (Belgium) ; Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq) ; Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES) ; Fundação de Amparo à Pesquisa do Estado do Rio de Janeiro (FAPERJ) ; FAPERGS (Brazil) ; Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP) ; MES (Bulgaria) ; MoST (China) ; NSFC (China) ; COLCIENCIAS (Colombia) ; CSF (Croatia) ; SENESCYT (Ecuador) ; MoER (Estonia) ; ERDF (Estonia) ; Academy of Finland (Finland) ; MEC (Finland) ; CEA (France) ; CNRS/IN2P3 (France) ; BMBF (Germany) ; DFG (Germany) ; HGF (Germany) ; GSRT (Greece) ; NKFIA (Hungary) ; DAE (India) ; DST (India) ; IPM (Iran) ; SFI (Ireland) ; INFN (Italy) ; NRF (Republic of Korea) ; MOE (Malaysia) ; UM (Malaysia) ; BUAP (Mexico) ; CONACYT (Mexico) ; UASLP-FAI (Mexico) ; FCT (Portugal) ; JINR (Dubna) ; RosAtom (Russia) ; RFBR (Russia) ; MESTD (Serbia) ; SEIDI (Spain) ; FEDER (Spain) ; MOSTR (Sri Lanka) ; Swiss Funding Agencies (Switzerland) ; NSTDA (Thailand) ; TUBITAK (Turkey) ; TAEK (Turkey) ; NASU (Ukraine) ; DOE (U.S.A.) ; NSF (U.S.A.) ; Marie-Curie program (European Union) ; European Research Council (European Union) ; Horizon 2020 Grant (European Union) ; Leventis Foundation ; A. P. Sloan Foundation ; Alexander von Humboldt Foundation ; Belgian Federal Science Policy Office ; Fonds pour la Formation a la Recherche dans l'Industrie et dans l'Agriculture (FRIA-Belgium) ; Agentschap voor Innovatie door Wetenschap en Technologie (IWT-Belgium) ; FWO (Belgium) under the Excellence of Science - EOS ; Ministry of Education, Youth and Sports (MEYS) of the Czech Republic ; Janos Bolyai Research Scholarship of the Hungarian Academy of Sciences (Hungary) ; Council of Science and Industrial Research, India ; HOMING PLUS program of the Foundation for Polish Science ; European Union, Regional Development Fund ; Sonata-bis ; National Priorities Research Program by Qatar National Research Fund ; Programa Severo Ochoa del Principado de Asturias ; Aristeia program - EU-ESF ; Greek NSRF ; Rachadapisek Sompot Fund for Postdoctoral Fellowship, Chulalongkorn University (Thailand) ; Welch Foundation ; Weston Havens Foundation (U.S.A.) ; Hellenic Foundation for Research and Innovation, HFRI ; Fondazione Ing. Aldo Gini ; CERN ; CAS (China) ; MSES (Croatia) ; RPF (Cyprus) ; ERC IUT (Estonia) ; HIP (Finland) ; MSIP (Republic of Korea) ; LAS (Lithuania) ; CINVESTAV (Mexico) ; LNS (Mexico) ; SEP (Mexico) ; MOS (Montenegro) ; MBIE (New Zealand) ; PAEC (Pakistan) ; MSHE (Poland) ; NSC (Poland) ; MON (Russia) ; RAS (Russia) ; NRC KI (Russia) ; CPAN (Spain) ; PCTI (Spain) ; MST (Taipei) ; ThEPCenter (Thailand) ; IPST (Thailand) ; STAR (Thailand) ; STFC (United Kingdom) ; SFFR (Ukraine) ; F.R.S.-FNRS (Belgium) ; Lendulet (Momentum) Programme (Hungary) ; New National Excellence Program UNKP (Hungary) ; National Science Center (Poland) ; Mobility Plus program of the Ministry of Science and Higher Education ; Programa Estatal de Fomento de la Investigacion Cientifica y Tecnica de Excelencia Maria de Maeztu ; Thalis program - EU-ESF ; Chulalongkorn Academic into Its 2nd Century Project Advancement Project (Thailand) ; NKFIA (Hungary): 123842 ; NKFIA (Hungary): 123959 ; NKFIA (Hungary): 124845 ; NKFIA (Hungary): 124850 ; NKFIA (Hungary): 125105 ; Horizon 2020 Grant (European Union): 675440 ; FWO (Belgium) under the Excellence of Science - EOS: 30820817 ; Sonata-bis: 2012/07/E/ST2/01406 ; National Priorities Research Program by Qatar National Research Fund: MDM-2015-0509 ; Welch Foundation: C-1845 ; National Science Center (Poland): Harmonia 2014/14/M/ST2/00428 ; National Science Center (Poland): Opus 2014/13/B/ST2/02543 ; National Science Center (Poland): 2014/15/B/ST2/03998 ; National Science Center (Poland): 2015/19/B/ST2/02861 ; Programa Estatal de Fomento de la Investigacion Cientifica y Tecnica de Excelencia Maria de Maeztu: MDM-2015-0509 ; The structure of the CMS inner tracking system has been studied using nuclear interactions of hadrons striking its material. Data from proton-proton collisions at a center-of-mass energy of 13 TeV recorded in 2015 at the LHC are used to reconstruct millions of secondary vertices from these nuclear interactions. Precise positions of the beam pipe and the inner tracking system elements, such as the pixel detector support tube, and barrel pixel detector inner shield and support rails, are determined using these vertices. These measurements are important for detector simulations, detector upgrades, and to identify any changes in the positions of inactive elements.