TY - JOUR A1 - Gorski, Mathias A1 - Jung, Bettina A1 - Li, Yong A1 - Matias-Garcia, Pamela R. A1 - Wuttke, Matthias A1 - Coassin, Stefan A1 - Thio, Chris H. L. A1 - Kleber, Marcus E. A1 - Winkler, Thomas W. A1 - Wanner, Veronika A1 - Chai, Jin-Fang A1 - Chu, Audrey Y. A1 - Cocca, Massimiliano A1 - Feitosa, Mary F. A1 - Ghasemi, Sahar A1 - Hoppmann, Anselm A1 - Horn, Katrin A1 - Li, Man A1 - Nutile, Teresa A1 - Scholz, Markus A1 - Sieber, Karsten B. A1 - Teumer, Alexander A1 - Tin, Adrienne A1 - Wang, Judy A1 - Tayo, Bamidele O. A1 - Ahluwalia, Tarunveer S. A1 - Almgren, Peter A1 - Bakker, Stephan J. L. A1 - Banas, Bernhard A1 - Bansal, Nisha A1 - Biggs, Mary L. A1 - Boerwinkle, Eric A1 - Böttinger, Erwin A1 - Brenner, Hermann A1 - Carroll, Robert J. A1 - Chalmers, John A1 - Chee, Miao-Li A1 - Chee, Miao-Ling A1 - Cheng, Ching-Yu A1 - Coresh, Josef A1 - de Borst, Martin H. A1 - Degenhardt, Frauke A1 - Eckardt, Kai-Uwe A1 - Endlich, Karlhans A1 - Franke, Andre A1 - Freitag-Wolf, Sandra A1 - Gampawar, Piyush A1 - Gansevoort, Ron T. A1 - Ghanbari, Mohsen A1 - Gieger, Christian A1 - Hamet, Pavel A1 - Ho, Kevin A1 - Hofer, Edith A1 - Holleczek, Bernd A1 - Foo, Valencia Hui Xian A1 - Hutri-Kahonen, Nina A1 - Hwang, Shih-Jen A1 - Ikram, M. Arfan A1 - Josyula, Navya Shilpa A1 - Kahonen, Mika A1 - Khor, Chiea-Chuen A1 - Koenig, Wolfgang A1 - Kramer, Holly A1 - Kraemer, Bernhard K. A1 - Kuehnel, Brigitte A1 - Lange, Leslie A. A1 - Lehtimaki, Terho A1 - Lieb, Wolfgang A1 - Loos, Ruth J. F. A1 - Lukas, Mary Ann A1 - Lyytikainen, Leo-Pekka A1 - Meisinger, Christa A1 - Meitinger, Thomas A1 - Melander, Olle A1 - Milaneschi, Yuri A1 - Mishra, Pashupati P. A1 - Mononen, Nina A1 - Mychaleckyj, Josyf C. A1 - Nadkarni, Girish N. A1 - Nauck, Matthias A1 - Nikus, Kjell A1 - Ning, Boting A1 - Nolte, Ilja M. A1 - O'Donoghue, Michelle L. A1 - Orho-Melander, Marju A1 - Pendergrass, Sarah A. A1 - Penninx, Brenda W. J. H. A1 - Preuss, Michael H. A1 - Psaty, Bruce M. A1 - Raffield, Laura M. A1 - Raitakari, Olli T. A1 - Rettig, Rainer A1 - Rheinberger, Myriam A1 - Rice, Kenneth M. A1 - Rosenkranz, Alexander R. A1 - Rossing, Peter A1 - Rotter, Jerome A1 - Sabanayagam, Charumathi A1 - Schmidt, Helena A1 - Schmidt, Reinhold A1 - Schoettker, Ben A1 - Schulz, Christina-Alexandra A1 - Sedaghat, Sanaz A1 - Shaffer, Christian M. A1 - Strauch, Konstantin A1 - Szymczak, Silke A1 - Taylor, Kent D. A1 - Tremblay, Johanne A1 - Chaker, Layal A1 - van der Harst, Pim A1 - van der Most, Peter J. A1 - Verweij, Niek A1 - Voelker, Uwe A1 - Waldenberger, Melanie A1 - Wallentin, Lars A1 - Waterworth, Dawn M. A1 - White, Harvey D. A1 - Wilson, James G. A1 - Wong, Tien-Yin A1 - Woodward, Mark A1 - Yang, Qiong A1 - Yasuda, Masayuki A1 - Yerges-Armstrong, Laura M. A1 - Zhang, Yan A1 - Snieder, Harold A1 - Wanner, Christoph A1 - Boger, Carsten A. A1 - Kottgen, Anna A1 - Kronenberg, Florian A1 - Pattaro, Cristian A1 - Heid, Iris M. T1 - Meta-analysis uncovers genome-wide significant variants for rapid kidney function decline JF - Kidney international : official journal of the International Society of Nephrology N2 - Rapid decline of glomerular filtration rate estimated from creatinine (eGFRcrea) is associated with severe clinical endpoints. In contrast to cross-sectionally assessed eGFRcrea, the genetic basis for rapid eGFRcrea decline is largely unknown. To help define this, we meta-analyzed 42 genome-wide association studies from the Chronic Kidney Diseases Genetics Consortium and United Kingdom Biobank to identify genetic loci for rapid eGFRcrea decline. Two definitions of eGFRcrea decline were used: 3 mL/min/1.73m(2)/year or more ("Rapid3"; encompassing 34,874 cases, 107,090 controls) and eGFRcrea decline 25% or more and eGFRcrea under 60 mL/min/1.73m(2) at follow-up among those with eGFRcrea 60 mL/min/1.73m(2) or more at baseline ("CKDi25"; encompassing 19,901 cases, 175,244 controls). Seven independent variants were identified across six loci for Rapid3 and/or CKDi25: consisting of five variants at four loci with genome-wide significance (near UMOD-PDILT (2), PRKAG2, WDR72, OR2S2) and two variants among 265 known eGFRcrea variants (near GATM, LARP4B). All these loci were novel for Rapid3 and/or CKDi25 and our bioinformatic follow-up prioritized variants and genes underneath these loci. The OR2S2 locus is novel for any eGFRcrea trait including interesting candidates. For the five genome-wide significant lead variants, we found supporting effects for annual change in blood urea nitrogen or cystatin-based eGFR, but not for GATM or (LARP4B). Individuals at high compared to those at low genetic risk (8-14 vs. 0-5 adverse alleles) had a 1.20-fold increased risk of acute kidney injury (95% confidence interval 1.08-1.33). Thus, our identified loci for rapid kidney function decline may help prioritize therapeutic targets and identify mechanisms and individuals at risk for sustained deterioration of kidney function. KW - acute kidney injury KW - end-stage kidney disease KW - genome-wide association KW - study KW - rapid eGFRcrea decline Y1 - 2020 U6 - https://doi.org/10.1016/j.kint.2020.09.030 SN - 0085-2538 SN - 1523-1755 VL - 99 IS - 4 SP - 926 EP - 939 PB - Elsevier CY - New York ER - TY - JOUR A1 - Read, Betsy A. A1 - Kegel, Jessica A1 - Klute, Mary J. A1 - Kuo, Alan A1 - Lefebvre, Stephane C. A1 - Maumus, Florian A1 - Mayer, Christoph A1 - Miller, John A1 - Monier, Adam A1 - Salamov, Asaf A1 - Young, Jeremy A1 - Aguilar, Maria A1 - Claverie, Jean-Michel A1 - Frickenhaus, Stephan A1 - Gonzalez, Karina A1 - Herman, Emily K. A1 - Lin, Yao-Cheng A1 - Napier, Johnathan A1 - Ogata, Hiroyuki A1 - Sarno, Analissa F. A1 - Shmutz, Jeremy A1 - Schroeder, Declan A1 - de Vargas, Colomban A1 - Verret, Frederic A1 - von Dassow, Peter A1 - Valentin, Klaus A1 - Van de Peer, Yves A1 - Wheeler, Glen A1 - Dacks, Joel B. A1 - Delwiche, Charles F. A1 - Dyhrman, Sonya T. A1 - Glöckner, Gernot A1 - John, Uwe A1 - Richards, Thomas A1 - Worden, Alexandra Z. A1 - Zhang, Xiaoyu A1 - Grigoriev, Igor V. A1 - Allen, Andrew E. A1 - Bidle, Kay A1 - Borodovsky, M. A1 - Bowler, C. A1 - Brownlee, Colin A1 - Cock, J. Mark A1 - Elias, Marek A1 - Gladyshev, Vadim N. A1 - Groth, Marco A1 - Guda, Chittibabu A1 - Hadaegh, Ahmad A1 - Iglesias-Rodriguez, Maria Debora A1 - Jenkins, J. A1 - Jones, Bethan M. A1 - Lawson, Tracy A1 - Leese, Florian A1 - Lindquist, Erika A1 - Lobanov, Alexei A1 - Lomsadze, Alexandre A1 - Malik, Shehre-Banoo A1 - Marsh, Mary E. A1 - Mackinder, Luke A1 - Mock, Thomas A1 - Müller-Röber, Bernd A1 - Pagarete, Antonio A1 - Parker, Micaela A1 - Probert, Ian A1 - Quesneville, Hadi A1 - Raines, Christine A1 - Rensing, Stefan A. A1 - Riano-Pachon, Diego Mauricio A1 - Richier, Sophie A1 - Rokitta, Sebastian A1 - Shiraiwa, Yoshihiro A1 - Soanes, Darren M. A1 - van der Giezen, Mark A1 - Wahlund, Thomas M. A1 - Williams, Bryony A1 - Wilson, Willie A1 - Wolfe, Gordon A1 - Wurch, Louie L. T1 - Pan genome of the phytoplankton Emiliania underpins its global distribution JF - Nature : the international weekly journal of science N2 - Coccolithophores have influenced the global climate for over 200 million years(1). These marine phytoplankton can account for 20 per cent of total carbon fixation in some systems(2). They form blooms that can occupy hundreds of thousands of square kilometres and are distinguished by their elegantly sculpted calcium carbonate exoskeletons (coccoliths), rendering them visible from space(3). Although coccolithophores export carbon in the form of organic matter and calcite to the sea floor, they also release CO2 in the calcification process. Hence, they have a complex influence on the carbon cycle, driving either CO2 production or uptake, sequestration and export to the deep ocean(4). Here we report the first haptophyte reference genome, from the coccolithophore Emiliania huxleyi strain CCMP1516, and sequences from 13 additional isolates. Our analyses reveal a pan genome (core genes plus genes distributed variably between strains) probably supported by an atypical complement of repetitive sequence in the genome. Comparisons across strains demonstrate that E. huxleyi, which has long been considered a single species, harbours extensive genome variability reflected in different metabolic repertoires. Genome variability within this species complex seems to underpin its capacity both to thrive in habitats ranging from the equator to the subarctic and to form large-scale episodic blooms under a wide variety of environmental conditions. Y1 - 2013 U6 - https://doi.org/10.1038/nature12221 SN - 0028-0836 SN - 1476-4687 VL - 499 IS - 7457 SP - 209 EP - 213 PB - Nature Publ. Group CY - London ER - TY - JOUR A1 - Pfäffle, Frank A1 - Stephan, Christoph A. T1 - Chiral asymmetry and the spectral action JF - Communications in mathematical physics N2 - We consider orthogonal connections with arbitrary torsion on compact Riemannian manifolds. For the induced Dirac operators, twisted Dirac operators and Dirac operators of Chamseddine-Connes type we compute the spectral action. In addition to the Einstein-Hilbert action and the bosonic part of the Standard Model Lagrangian we find the Holst term from Loop Quantum Gravity, a coupling of the Holst term to the scalar curvature and a prediction for the value of the Barbero-Immirzi parameter. Y1 - 2013 U6 - https://doi.org/10.1007/s00220-012-1641-6 SN - 0010-3616 SN - 1432-0916 VL - 321 IS - 2 SP - 283 EP - 310 PB - Springer CY - New York ER - TY - JOUR A1 - Stephan, Christoph A. T1 - Inverse seesaw mechanism in noncommutative geometry N2 - In this paper we will implement the inverse seesaw mechanism into the noncommutative framework on the basis of the AC extension of the standard model. The main difference from the classical AC model is the chiral nature of the AC fermions with respect to a U(1)(X) extension of the standard model gauge group. It is this extension which allows us to couple the right-handed neutrinos via a gauge invariant mass term to left-handed A particles. The natural scale of these gauge invariant masses is of the order of 10(17) GeV while the Dirac masses of the neutrino and the AC particles are generated dynamically and are therefore much smaller (similar to 1 to similar to 10(6) GeV). From this configuration, a working inverse seesaw mechanism for the neutrinos is obtained. Y1 - 2009 UR - http://prd.aps.org/ U6 - https://doi.org/10.1103/Physrevd.80.065007 SN - 1550-7998 ER - TY - JOUR A1 - Stephan, Christoph A. T1 - Krajewski diagrams and the standard model N2 - This paper provides a complete list of Krajewski diagrams representing the standard model of particle physics. We will give the possible representations of the algebra and the anomaly free lifts which provide the representation of the standard model gauge group on the fermionic Hilbert space. The algebra representations following from the Krajewski diagrams are not complete in the sense that the corresponding spectral triples do not necessarily obey to the axiom of Poincare duality. This defect may be repaired by adding new particles to the model, i.e., by building models beyond the standard model. The aim of this list of finite spectral triples (up to Poincare duality) is therefore to provide a basis for model building beyond the standard model. Y1 - 2009 UR - http://jmp.aip.org/ U6 - https://doi.org/10.1063/1.3112622 SN - 0022-2488 ER - TY - JOUR A1 - Stephan, Christoph A. T1 - New scalar fields in noncommutative geometry N2 - In this publication we present an extension of the standard model within the framework of Connes' noncommutative geometry. The model presented here is based on a minimal spectral triple which contains the standard model particles, new vectorlike fermions, and a new U(1) gauge subgroup. Additionally a new complex scalar field appears that couples to the right-handed neutrino, the new fermions, and the standard Higgs particle. The bosonic part of the action is given by the spectral action which also determines relations among the gauge couplings, the quartic scalar couplings, and the Yukawa couplings at a cutoff energy of similar to 10(17) GeV. We investigate the renormalization group flow of these relations. The low energy behavior allows to constrain the Higgs mass, the mass of the new scalar, and the mixing between these two scalar fields. Y1 - 2009 UR - http://prd.aps.org/ U6 - https://doi.org/10.1103/Physrevd.79.065013 SN - 1550-7998 ER - TY - JOUR A1 - Jureit, Jan-Hendrik A1 - Stephan, Christoph A. T1 - On a classification of irreducible almost-commutative geometries V N2 - We extend a classification of irreducible almost-commutative geometries, whose spectral action is dynamically nondegenerate, to internal algebras that have six simple summands. We find essentially four particle models: an extension of the standard model by a new species of fermions with vectorlike coupling to the gauge group and gauge invariant masses, two versions of the electrostrong model, and a variety of the electrostrong model with Higgs mechanism. Y1 - 2009 UR - http://jmp.aip.org/ U6 - https://doi.org/10.1063/1.3167287 SN - 0022-2488 ER - TY - JOUR A1 - Pfäffle, Frank A1 - Stephan, Christoph A. T1 - On gravity, torsion and the spectral action principle JF - Journal of functional analysis N2 - We consider compact Riemannian spin manifolds without boundary equipped with orthogonal connections. We investigate the induced Dirac operators and the associated commutative spectral triples. In case of dimension four and totally anti-symmetric torsion we compute the Chamseddine-Connes spectral action, deduce the equations of motions and discuss critical points. KW - Orthogonal connections with torsion KW - Spectral triples KW - Commutative geometries KW - Chamseddine-Connes spectral action Y1 - 2012 U6 - https://doi.org/10.1016/j.jfa.2011.11.013 SN - 0022-1236 VL - 262 IS - 4 SP - 1529 EP - 1565 PB - Elsevier CY - San Diego ER - TY - JOUR A1 - Stephan, Christoph A. T1 - A dark sector extension of the almost-commutative standard model JF - International journal of modern physics : A, Particles and fields, gravitation, cosmology, nuclear physics N2 - We consider an extension of the Standard Model within the framework of Noncommutative Geometry. The model is based on an older model [C. A. Stephan, Phys. Rev. D 79, 065013 (2009)] which extends the Standard Model by new fermions, a new U(1)-gauge group and, crucially, a new scalar field which couples to the Higgs field. This new scalar field allows to lower the mass of the Higgs mass from similar to 170 GeV, as predicted by the Spectral Action for the Standard Model, to a value of 120-130 GeV. The shortcoming of the previous model lay in its inability to meet all the constraints on the gauge couplings implied by the Spectral Action. These shortcomings are cured in the present model which also features a "dark sector" containing fermions and scalar particles. KW - Noncommutative geometry KW - spectral triple KW - beyond Standard Model KW - Higgs boson KW - scalar fields Y1 - 2014 U6 - https://doi.org/10.1142/S0217751X14500055 SN - 0217-751X SN - 1793-656X VL - 29 IS - 1 PB - World Scientific CY - Singapore ER - TY - JOUR A1 - Pfäffle, Frank A1 - Stephan, Christoph A. T1 - The holst action by the spectral action principle JF - Communications in mathematical physics N2 - We investigate the Holst action for closed Riemannian 4-manifolds with orthogonal connections. For connections whose torsion has zero Cartan type component we show that the Holst action can be recovered from the heat asymptotics for the natural Dirac operator acting on left-handed spinor fields. Y1 - 2011 U6 - https://doi.org/10.1007/s00220-011-1303-0 SN - 0010-3616 VL - 307 IS - 1 SP - 261 EP - 273 PB - Springer CY - New York ER -