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4. SciPy 1.0: fundamental algorithms for scientific computing in Python: 24 February 2020 : An amendment to this paper has been published and can be accessed via a link at the top of the paper

Author

Virtanen, P., Gommers, R., Oliphant, T.E., Haberland, M., Reddy, T., Cournapeau, D., Burovski, E., Peterson, P., Weckesser, W., Bright, J., Walt, S.J., Brett, M., Wilson, J., Millman, K.J., Mayorov, N., Nelson, A.R.J., Jones, E., Kern, R., Larson, E., Carey, C.J., Polat, I., Feng, Y., Moore, E.W., VanderPlas, J., Laxalde, D., Perktold, J., Cimrman, R., Henriksen, I., Quintero, E.A., Harris, C.R., Archibald, A.M., Ribeiro, A.H., Pedregosa, F., Mulbregt, P., Vijaykumar, A., Bardelli, A.P., Rothberg, A., Hilboll, A., Kloeckner, A., Scopatz, A., Lee, A., Rokem, A., Woods, C.N., Fulton, C., Masson, C., Häggström, C., Fitzgerald, C., Nicholson, D.A., Hagen, D.R., Pasechnik, D.V., Olivetti, E., Martin, E., Wieser, E., Lenders, F., Silva, Fabrice, Wilhelm, F., Young, G., Price, G.A., Ingold, G.-L., Allen, G.E., Lee, G.R., Audren, H., Probst, Irvin, Dietrich, J.P., Silterra, J., Webber, J.T., Slavič, J., Nothman, J., Buchner, J., Kulick, J., Schönberger, J.L., Miranda Cardoso, J.V., Reimer, J., Harrington, J., Rodríguez, J.L.C., Nunez-Iglesias, J., Kuczynski, J., Tritz, K., Thoma, M., Newville, M., Kümmerer, M., Bolingbroke, M., Tartre, M., Pak, M., Smith, N.J., Nowaczyk, N., Shebanov, N., Pavlyk, O., Brodtkorb, P.A., Lee, P., McGibbon, R.T., Feldbauer, R., Lewis, S., Tygier, S., Sievert, S., Vigna, S., Peterson, S., More, S., Pudlik, T., Oshima, T., Pingel, T.J., Robitaille, T.P., Spura, T., Jones, T.R., Cera, T., Leslie, T., Zito, T., Krauss, T., Upadhyay, U., Halchenko, Y.O., Vázquez-Baeza, Y., SciPy 1.0, Contributors, Low Temperature Laboratory, TKK Helsinki University of Technology (TKK), Centre Interdisciplinaire de Nanoscience de Marseille (CINaM), Aix Marseille Université (AMU)-Centre National de la Recherche Scientifique (CNRS), Laboratoire de Tribologie et Dynamique des Systèmes (LTDS), École Centrale de Lyon (ECL), Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Ecole Nationale d'Ingénieurs de Saint Etienne-Centre National de la Recherche Scientifique (CNRS), SNECMA Villaroche [Moissy-Cramayel], Safran Group, New Technologies Research Centre [Plzeň] (NTC), University of West Bohemia [Plzeň ], Institute of Environmental Physics [Bremen] (IUP), University of Bremen, Istituto Nazionale di Ricerca Metrologica (INRiM), Laboratoire Chrono-environnement - CNRS - UBFC (UMR 6249) (LCE), Centre National de la Recherche Scientifique (CNRS)-Université de Franche-Comté (UFC), Université Bourgogne Franche-Comté [COMUE] (UBFC)-Université Bourgogne Franche-Comté [COMUE] (UBFC), Laboratoire de Mécanique et d'Acoustique [Marseille] (LMA ), Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS), Sons, Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS)-Aix Marseille Université (AMU)-École Centrale de Marseille (ECM)-Centre National de la Recherche Scientifique (CNRS), European Synchrotron Radiation Facility (ESRF), Lab-STICC_ENSTAB_CID_PRASYS, Laboratoire des sciences et techniques de l'information, de la communication et de la connaissance (Lab-STICC), École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique Bretagne-Pays de la Loire (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT), Max Planck Institute for Solar System Research (MPS), Max-Planck-Gesellschaft, University of Chicago, Consortium of Advanced Radiation Sciences, Advanced Photon Source, GSECARS, University of Chicago, Laboratoire de physique des gaz et des plasmas (LPGP), Université Paris-Sud - Paris 11 (UP11)-Centre National de la Recherche Scientifique (CNRS), The Open University [Milton Keynes] (OU), Nobeyama Radio Observatory, Gommers, Ralf [0000-0002-0300-3333], Haberland, Matt [0000-0003-4806-3601], Reddy, Tyler [0000-0003-2364-6157], van der Walt, Stéfan J. [0000-0001-9276-1891], Millman, K. Jarrod [0000-0002-5263-5070], Nelson, Andrew R. J. [0000-0002-4548-3558], Laxalde, Denis [0000-0002-5540-4825], Ribeiro, Antônio H. [0000-0003-3632-8529], van Mulbregt, Paul [0000-0002-2382-8308], Apollo - University of Cambridge Repository, van der Walt, Stéfan J [0000-0001-9276-1891], Millman, K Jarrod [0000-0002-5263-5070], Nelson, Andrew RJ [0000-0002-4548-3558], Ribeiro, Antônio H [0000-0003-3632-8529], Quansight LLC, California Polytechnic State University [San Luis Obispo] (CAL POLY), Los Alamos National Laboratory (LANL), AUTRES, National Research University Higher School of Economics [St. Petersburg], Tallinn Technical University, University of California [Berkeley] (UC Berkeley), University of California (UC), University of Birmingham [Birmingham], Skolkovo Innovation Center, Australian Nuclear Science and Technology Organisation [Australie] (ANSTO), Enthought Inc, University of Washington [Seattle], University of Massachusetts [Amherst] (UMass Amherst), University of Massachusetts System (UMASS), Bruker BioSpin Corporation, Université de Lyon-Université de Lyon-École Nationale des Travaux Publics de l'État (ENTPE)-Ecole Nationale d'Ingénieurs de Saint Etienne (ENISE)-Centre National de la Recherche Scientifique (CNRS), University of Texas at Austin [Austin], Astronomical Institute Anton Pannekoek (AI PANNEKOEK), University of Amsterdam [Amsterdam] (UvA), Universidade Federal de Minas Gerais [Belo Horizonte] (UFMG), Google LLC, Laboratoire Chrono-environnement (UMR 6249) (LCE), École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique (IMT Atlantique), Institut Mines-Télécom [Paris] (IMT)-École Nationale d'Ingénieurs de Brest (ENIB)-Université de Bretagne Sud (UBS)-Université de Brest (UBO)-École Nationale Supérieure de Techniques Avancées Bretagne (ENSTA Bretagne)-Institut Mines-Télécom [Paris] (IMT)-Centre National de la Recherche Scientifique (CNRS)-Université Bretagne Loire (UBL)-IMT Atlantique (IMT Atlantique), and Max-Planck-Institut für Sonnensystemforschung = Max Planck Institute for Solar System Research (MPS)

Subjects
FOS: Computer and information sciences, Computer science, 01 natural sciences, Biochemistry, Computer Science - Software Engineering, 631/45/56, Data Structures and Algorithms (cs.DS), 010303 astronomy & astrophysics, computer.programming_language, 0303 health sciences, Signal processing, Signal Processing, Computer-Assisted, Computational Physics (physics.comp-ph), ddc, Linear algebra, Perspective, Minification, Physics - Computational Physics, Algorithm, Algorithms, Biotechnology, De facto standard, FOS: Physical sciences, Image processing, History, 21st Century, Models, Biological, 706/703/559, Python (Computer program language), Computational science, 03 medical and health sciences, Computer Science - Data Structures and Algorithms, 0103 physical sciences, Computer Simulation, [INFO]Computer Science [cs], ddc:530, Cluster analysis, Molecular Biology, Scientific computing, 030304 developmental biology, Sparse matrix, software, Computational Biology, Cell Biology, Python (programming language), History, 20th Century, [INFO.INFO-NA]Computer Science [cs]/Numerical Analysis [cs.NA], Software Engineering (cs.SE), Nonlinear Dynamics, Linear Models, Computer Science - Mathematical Software, Programming Languages, 631/114, computer, Mathematical Software (cs.MS), Python
Abstract

SciPy is an open source scientific computing library for the Python programming language. SciPy 1.0 was released in late 2017, about 16 years after the original version 0.1 release. SciPy has become a de facto standard for leveraging scientific algorithms in the Python programming language, with more than 600 unique code contributors, thousands of dependent packages, over 100,000 dependent repositories, and millions of downloads per year. This includes usage of SciPy in almost half of all machine learning projects on GitHub, and usage by high profile projects including LIGO gravitational wave analysis and creation of the first-ever image of a black hole (M87). The library includes functionality spanning clustering, Fourier transforms, integration, interpolation, file I/O, linear algebra, image processing, orthogonal distance regression, minimization algorithms, signal processing, sparse matrix handling, computational geometry, and statistics. In this work, we provide an overview of the capabilities and development practices of the SciPy library and highlight some recent technical developments., Comment: Article source data is available here: https://github.com/scipy/scipy-articles

Published
2020

5. Clouds and convective self‐aggregation in a multimodel ensemble of radiative‐convective equilibrium simulations

Author

Wing, A. (Allison), Stauffer, L. (Catherine), Becker, T. (Tobias), Reed, K.A. (Kevin), Ahn, M.-S. (Min-Seop), Arnold, N.P. (Nathan), Bony, S. (Sandrine), Branson, M. (Mark), Bryan, G.H. (George), Chaboureau, J.-P. (Jean-Pierre), Roode, S.R. (Stephan) de, Gayatri, K. (Kulkarni), Hohenegger, C. (Cathy), Hu, I-K. (I-Kuan), Jansson, F.R. (Fredrik), Jones, T.R. (Todd), Khairoutdinov, M. (Marat), Kim, D. (Daehyun), Martin, Z.K. (Zane), Matsugishi, S. (Shuhei), Medeiros, B. (Brian), Miura, H. (Hiroaki), Moon, Y. (Yumin), Müller, S.K. (Sebastian), Ohno, T. (Tomoki), Popp, M. (Max), Prabhakaran, T. (Thara), Randall, D. (David), Rios-Berrios, R. (Rosimar), Rochetin, N. (Nicolas), Roehrig, R. (Romain), Romps, D.M. (David), Ruppert Jr., J.H. (James), Satoh, M. (Masaki), Silvers, L.G. (Levi), Singh, M.S. (Martin), Stevens, B. (Bjorn), Tomassini, L. (Lorenzo), Heerwaarden, C.C. (Chiel) van, Wang, S. (Shuguang), Zhao, M. (Ming), Wing, A. (Allison), Stauffer, L. (Catherine), Becker, T. (Tobias), Reed, K.A. (Kevin), Ahn, M.-S. (Min-Seop), Arnold, N.P. (Nathan), Bony, S. (Sandrine), Branson, M. (Mark), Bryan, G.H. (George), Chaboureau, J.-P. (Jean-Pierre), Roode, S.R. (Stephan) de, Gayatri, K. (Kulkarni), Hohenegger, C. (Cathy), Hu, I-K. (I-Kuan), Jansson, F.R. (Fredrik), Jones, T.R. (Todd), Khairoutdinov, M. (Marat), Kim, D. (Daehyun), Martin, Z.K. (Zane), Matsugishi, S. (Shuhei), Medeiros, B. (Brian), Miura, H. (Hiroaki), Moon, Y. (Yumin), Müller, S.K. (Sebastian), Ohno, T. (Tomoki), Popp, M. (Max), Prabhakaran, T. (Thara), Randall, D. (David), Rios-Berrios, R. (Rosimar), Rochetin, N. (Nicolas), Roehrig, R. (Romain), Romps, D.M. (David), Ruppert Jr., J.H. (James), Satoh, M. (Masaki), Silvers, L.G. (Levi), Singh, M.S. (Martin), Stevens, B. (Bjorn), Tomassini, L. (Lorenzo), Heerwaarden, C.C. (Chiel) van, Wang, S. (Shuguang), and Zhao, M. (Ming)

Abstract

The Radiative‐Convective Equilibrium Model Intercomparison Project (RCEMIP) is an intercomparison of multiple types of numerical models configured in radiative‐convective equilibrium (RCE). RCE is an idealization of the tropical atmosphere that has long been used to study basic questions in climate science. Here, we employ RCE to investigate the role that clouds and convective activity play in determining cloud feedbacks, climate sensitivity, the state of convective aggregation, and the equilibrium climate. RCEMIP is unique among intercomparisons in its inclusion of a wide range of model types, including atmospheric general circulation models (GCMs), single column models (SCMs), cloud‐resolving models (CRMs), large eddy simulations (LES), and global cloud‐resolving models (GCRMs). The first results are presented from the RCEMIP ensemble of more than 30 models. While there are large differences across the RCEMIP ensemble in the representation of mean profiles of temperature, humidity, and cloudiness, in a majority of models anvil clouds rise, warm, and decrease in area coverage in response to an increase in sea surface temperature (SST). Nearly all models exhibit self‐aggregation in large domains and agree that self‐aggregation acts to dry and warm the troposphere, reduce high cloudiness, and increase cooling to space. The degree of self‐aggregation exhibits no clear tendency with warming. There is a wide range of climate sensitivities, but mo

Published
2020
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11. Isolation of a novel Campylobacter jejuni clone associated with the bank vole, Myodes glareolus

Author

Williams, N.J., Birtles, R.J., Lahuerta-Marin, A., Bennett, M., Winstanley, C., Jones, T.R., and Leatherbarrow, H.J.

Subjects
Campylobacter -- Physiological aspects, Campylobacter -- Genetic aspects, Clone cells -- Analysis, Biological sciences
Abstract

Multilocus sequence typing is used for finding associations between particular clones of Campylobacter jejuni and specific hosts. The isolation of a novel clone of Campylobacter jejuni associated with the bank vole (Myodes glareolus) is described.

Published
2010

16. Comparison of methods for image-based profiling of cellular morphological responses to small-molecule treatment

Author

Ljosa, V., Caie, P.D., Horst, R. ter, Sokolnicki, K.L., Jenkins, E.L., Daya, S., Roberts, M.E., Jones, T.R., Singh, S., Genovesio, A., Clemons, P.A., Carragher, N.O., Carpenter, A.E., Ljosa, V., Caie, P.D., Horst, R. ter, Sokolnicki, K.L., Jenkins, E.L., Daya, S., Roberts, M.E., Jones, T.R., Singh, S., Genovesio, A., Clemons, P.A., Carragher, N.O., and Carpenter, A.E.

Abstract

Item does not contain fulltext, Quantitative microscopy has proven a versatile and powerful phenotypic screening technique. Recently, image-based profiling has shown promise as a means for broadly characterizing molecules' effects on cells in several drug-discovery applications, including target-agnostic screening and predicting a compound's mechanism of action (MOA). Several profiling methods have been proposed, but little is known about their comparative performance, impeding the wider adoption and further development of image-based profiling. We compared these methods by applying them to a widely applicable assay of cultured cells and measuring the ability of each method to predict the MOA of a compendium of drugs. A very simple method that is based on population means performed as well as methods designed to take advantage of the measurements of individual cells. This is surprising because many treatments induced a heterogeneous phenotypic response across the cell population in each sample. Another simple method, which performs factor analysis on the cellular measurements before averaging them, provided substantial improvement and was able to predict MOA correctly for 94% of the treatments in our ground-truth set. To facilitate the ready application and future development of image-based phenotypic profiling methods, we provide our complete ground-truth and test data sets, as well as open-source implementations of the various methods in a common software framework.

Published
2013

17. Eemian interglacial reconstructed from a Greenland folded ice core

Author

Dahl-Jensen, D., Albert, M.R., Aldahan, A., Azuma, N., Balslev-Clausen, D., Baumgartner, M., Berggren, A.-M., Bigler, M., Binder, T., Blunier, T., Bourgeois, J.C., Brook, E.J., Buchardt, S.L., Buizert, C., Capron, E., Chappellaz, J., Chung, J., Clausen, H.B., Cvijanovic, I., Davies, S. M., Ditlevsen, P., Eicher, O., Fischer, H., Fisher, D.A., Fleet, L.G., Gfeller, G., Gkinis, V., Gogineni, S., Goto-Azuma, K., Grinsted, A., Gudlaugsdottir, H., Guillevic, M., Hansen, S.B., Hansson, M., Hirabayashi, M., Hong, S., Hur, S.D., Huybrechts, P., Hvidberg, C.S., Iizuka, Y., Jenk, T., Johnsen, S.J., Jones, T.R., Jouzel, J., Karlsson, N.B., Kawamura, K., Keegan, K., Kettner, E., Kipfstuhl, S., Kjær, H.A., Koutnik, M., Kuramoto, T., Köhler, P., Laepple, T., Landais, A., Langen, P.L., Larsen, L.B., Leuenberger, D., Leuenberger, M., Leuschen, C., Li, J., Lipenkov, V., Martinerie, P., Maselli, O.J., Masson-Delmotte, V., McConnell, J.R., Miller, H., Mini, O., Miyamoto, A., Montagnat-Rentier, M., Mulvaney, R., Muscheler, R., Orsi, A.J., Paden, J., Panton, C., Pattyn, F., Petit, J.-R., Pol, K., Popp, T., Possnert, G., Prié, F., Prokopiou, M., Quiquet, A., Rasmussen, S.O., Raynaud, D., Ren, J., Reutenauer, C., Ritz, C., Röckmann, T., Rosen, J.L., Rubino, M., Rybak, O., Samyn, D., Sapart, C.J., Schilt, A., Schmidt, A.M.Z., Schwander, J., Schüpbach, S., Seierstad, I., Severinghaus, J.P., Sheldon, S., Simonsen, S.B., Sjolte, J., Solgaard, A.M., Sowers, T., Sperlich, P., Steen-Larsen, H.C., Steffen, K., Steffensen, J.P., Steinhage, D., Stocker, T.F., Stowasser, C., Sturevik, A.S., Sturges, W.T., Sveinbjörnsdottir, A., Svensson, A., Tison, J.-L., Uetake, J., Vallelonga, P., van de Wal, R.S.W., van der Wel, G., Vaughn, B.H., Vinther, B., Waddington, E., Wegner, A., Weikusat, I., White, J.W.C., Wilhelms, F., Winstrup, M., Witrant, E., Wolff, E.W., Xiao, C., Zheng, J., Dahl-Jensen, D., Albert, M.R., Aldahan, A., Azuma, N., Balslev-Clausen, D., Baumgartner, M., Berggren, A.-M., Bigler, M., Binder, T., Blunier, T., Bourgeois, J.C., Brook, E.J., Buchardt, S.L., Buizert, C., Capron, E., Chappellaz, J., Chung, J., Clausen, H.B., Cvijanovic, I., Davies, S. M., Ditlevsen, P., Eicher, O., Fischer, H., Fisher, D.A., Fleet, L.G., Gfeller, G., Gkinis, V., Gogineni, S., Goto-Azuma, K., Grinsted, A., Gudlaugsdottir, H., Guillevic, M., Hansen, S.B., Hansson, M., Hirabayashi, M., Hong, S., Hur, S.D., Huybrechts, P., Hvidberg, C.S., Iizuka, Y., Jenk, T., Johnsen, S.J., Jones, T.R., Jouzel, J., Karlsson, N.B., Kawamura, K., Keegan, K., Kettner, E., Kipfstuhl, S., Kjær, H.A., Koutnik, M., Kuramoto, T., Köhler, P., Laepple, T., Landais, A., Langen, P.L., Larsen, L.B., Leuenberger, D., Leuenberger, M., Leuschen, C., Li, J., Lipenkov, V., Martinerie, P., Maselli, O.J., Masson-Delmotte, V., McConnell, J.R., Miller, H., Mini, O., Miyamoto, A., Montagnat-Rentier, M., Mulvaney, R., Muscheler, R., Orsi, A.J., Paden, J., Panton, C., Pattyn, F., Petit, J.-R., Pol, K., Popp, T., Possnert, G., Prié, F., Prokopiou, M., Quiquet, A., Rasmussen, S.O., Raynaud, D., Ren, J., Reutenauer, C., Ritz, C., Röckmann, T., Rosen, J.L., Rubino, M., Rybak, O., Samyn, D., Sapart, C.J., Schilt, A., Schmidt, A.M.Z., Schwander, J., Schüpbach, S., Seierstad, I., Severinghaus, J.P., Sheldon, S., Simonsen, S.B., Sjolte, J., Solgaard, A.M., Sowers, T., Sperlich, P., Steen-Larsen, H.C., Steffen, K., Steffensen, J.P., Steinhage, D., Stocker, T.F., Stowasser, C., Sturevik, A.S., Sturges, W.T., Sveinbjörnsdottir, A., Svensson, A., Tison, J.-L., Uetake, J., Vallelonga, P., van de Wal, R.S.W., van der Wel, G., Vaughn, B.H., Vinther, B., Waddington, E., Wegner, A., Weikusat, I., White, J.W.C., Wilhelms, F., Winstrup, M., Witrant, E., Wolff, E.W., Xiao, C., and Zheng, J.

Abstract

Efforts to extract a Greenland ice core with a complete record of the Eemian interglacial (130,000 to 115,000 years ago) have until now been unsuccessful. The response of the Greenland ice sheet to the warmer-than-present climate of the Eemian has thus remained unclear. Here we present the new North Greenland Eemian Ice Drilling (‘NEEM’) ice core and show only a modest ice-sheet response to the strong warming in the early Eemian. We reconstructed the Eemian record from folded ice using globally homogeneous parameters known from dated Greenland and Antarctic ice-core records. On the basis of water stable isotopes, NEEM surface temperatures after the onset of the Eemian (126,000 years ago) peaked at 8 ± 4 degrees Celsius above the mean of the past millennium, followed by a gradual cooling that was probably driven by the decreasing summer insolation. Between 128,000 and 122,000 years ago, the thickness of the northwest Greenland ice sheet decreased by 400 ± 250 metres, reaching surface elevations 122,000 years ago of 130 ± 300 metres lower than the present. Extensive surface melt occurred at the NEEM site during the Eemian, a phenomenon witnessed when melt layers formed again at NEEM during the exceptional heat of July 2012. With additional warming, surface melt might become more common in the future.

Published
2013

18. Eemian interglacial reconstructed from a Greenland folded ice core

Author

Dahl-Jensen, Dorthe, Albert, M. R., Aldahan, A., Azuma, N., Balslev-Clausen, David Morten, Baumgartner, M., Berggren, A.-M., Bigler, M., Binder, Thomas, Blunier, Thomas, Bourgeois, J.C., Brook, E.J., Buchardt, Susanne Lilja, Buizert, Christo, Capron, E., Chappellaz, J., Chung, J., Clausen, Henrik Brink, Cvijanovic, Ivana, Davies, S.M., Ditlevsen, Peter, Eicher, O., Fischer, H., Fisher, D. A., Fleet, L.G., Gfeller, G., Gkinis, Vasileios, Gogineni, S., Goto-Azuma, K., Grinsted, Aslak, Gudlaugsdottir, H., Guillevic, Myriam, Hansen, S. B., Hansson, M., Hirabayashi, M., Hong, S., Hur, S.D., Huybrechts, P., Hvidberg, Christine Schøtt, Iizuka, Y., Jenk, Theo Manuel, Johnsen, Sigfus Johann, Jones, T.R., Jouzel, J., Karlsson, Nanna Bjørnholt, Kawamura, K., Keegan, K., Kettner, Ernesto, Kipfstuhl, S., Kjær, Helle Astrid, Koutnik, M., Kuramoto, T., Köhler, P., Laepple, T., Landais, A., Langen, Peter Lang, Larsen, Lars Berg, Leuenberger, D., Leuenberger, M., Leuschen, C., Li, J., Lipenkov, V., Martinerie, P., Maselli, O. J., Masson-Delmotte, V., McConnell, J. R., Miller, H., Mini, O., Miyamoto, A., Montagnat-Rentier, M., Mulvaney, R., Muscheler, R., Orsi, A.J., Paden, J., Panton, Christian, Pattyn, F., Petit, J.-R., Pol, K., Popp, Trevor James, Possnert, G., Prié, F., Prokopiou, M., Quiquet, A., Rasmussen, Sune Olander, Raynaud, D., Ren, J., Reutenauer, Corentin, Ritz, C., Röckmann, T., Rosen, J.L., Rubino, Mauro, Rybak, O., Samyn, D., Sapart, C.J., Schilt, A., Schmidt, Astrid Mariah Zelma, Schwander, J., Schüpbach, S., Seierstad, Inger Kathrine, Severinghaus, J. P., Sheldon, S., Simonsen, Sebastian Bjerregaard, Sjolte, Jesper, Solgaard, Anne Munck, Sowers, T., Sperlich, Peter, Steen-Larsen, Hans Christian, Steffen, K., Steffensen, Jørgen Peder, Steinhage, D., Stocker, T.F., Stowasser, Christopher, Sturevik, A.S., Sturges, W.T., Sveinbjörnsdottir, A., Svensson, Anders, Tison, J.-L., Uetake, J., Vallelonga, Paul Travis, Van De Wal, R.S.W., Van Der Wel, G., Vaughn, B.H., Vinther, Bo Møllesøe, Waddington, E., Wegner, A., Weikusat, I., White, J. W. C., Wilhelms, F., Winstrup, Mai, Witrant, E., Wolff, E.W., Xiao, C., Zheng, Jin, Dahl-Jensen, Dorthe, Albert, M. R., Aldahan, A., Azuma, N., Balslev-Clausen, David Morten, Baumgartner, M., Berggren, A.-M., Bigler, M., Binder, Thomas, Blunier, Thomas, Bourgeois, J.C., Brook, E.J., Buchardt, Susanne Lilja, Buizert, Christo, Capron, E., Chappellaz, J., Chung, J., Clausen, Henrik Brink, Cvijanovic, Ivana, Davies, S.M., Ditlevsen, Peter, Eicher, O., Fischer, H., Fisher, D. A., Fleet, L.G., Gfeller, G., Gkinis, Vasileios, Gogineni, S., Goto-Azuma, K., Grinsted, Aslak, Gudlaugsdottir, H., Guillevic, Myriam, Hansen, S. B., Hansson, M., Hirabayashi, M., Hong, S., Hur, S.D., Huybrechts, P., Hvidberg, Christine Schøtt, Iizuka, Y., Jenk, Theo Manuel, Johnsen, Sigfus Johann, Jones, T.R., Jouzel, J., Karlsson, Nanna Bjørnholt, Kawamura, K., Keegan, K., Kettner, Ernesto, Kipfstuhl, S., Kjær, Helle Astrid, Koutnik, M., Kuramoto, T., Köhler, P., Laepple, T., Landais, A., Langen, Peter Lang, Larsen, Lars Berg, Leuenberger, D., Leuenberger, M., Leuschen, C., Li, J., Lipenkov, V., Martinerie, P., Maselli, O. J., Masson-Delmotte, V., McConnell, J. R., Miller, H., Mini, O., Miyamoto, A., Montagnat-Rentier, M., Mulvaney, R., Muscheler, R., Orsi, A.J., Paden, J., Panton, Christian, Pattyn, F., Petit, J.-R., Pol, K., Popp, Trevor James, Possnert, G., Prié, F., Prokopiou, M., Quiquet, A., Rasmussen, Sune Olander, Raynaud, D., Ren, J., Reutenauer, Corentin, Ritz, C., Röckmann, T., Rosen, J.L., Rubino, Mauro, Rybak, O., Samyn, D., Sapart, C.J., Schilt, A., Schmidt, Astrid Mariah Zelma, Schwander, J., Schüpbach, S., Seierstad, Inger Kathrine, Severinghaus, J. P., Sheldon, S., Simonsen, Sebastian Bjerregaard, Sjolte, Jesper, Solgaard, Anne Munck, Sowers, T., Sperlich, Peter, Steen-Larsen, Hans Christian, Steffen, K., Steffensen, Jørgen Peder, Steinhage, D., Stocker, T.F., Stowasser, Christopher, Sturevik, A.S., Sturges, W.T., Sveinbjörnsdottir, A., Svensson, Anders, Tison, J.-L., Uetake, J., Vallelonga, Paul Travis, Van De Wal, R.S.W., Van Der Wel, G., Vaughn, B.H., Vinther, Bo Møllesøe, Waddington, E., Wegner, A., Weikusat, I., White, J. W. C., Wilhelms, F., Winstrup, Mai, Witrant, E., Wolff, E.W., Xiao, C., and Zheng, Jin

Abstract

Efforts to extract a Greenland ice core with a complete record of the Eemian interglacial (130,000 to 115,000 years ago) have until now been unsuccessful. The response of the Greenland ice sheet to the warmer-than-present climate of the Eemian has thus remained unclear. Here we present the new North Greenland Eemian Ice Drilling ('NEEM') ice core and show only a modest ice-sheet response to the strong warming in the early Eemian. We reconstructed the Eemian record from folded ice using globally homogeneous parameters known from dated Greenland and Antarctic ice-core records. On the basis of water stable isotopes, NEEM surface temperatures after the onset of the Eemian (126,000 years ago) peaked at 8 ± 4 degrees Celsius above the mean of the past millennium, followed by a gradual cooling that was probably driven by the decreasing summer insolation. Between 128,000 and 122,000 years ago, the thickness of the northwest Greenland ice sheet decreased by 400 ± 250 metres, reaching surface elevations 122,000 years ago of 130 ± 300 metres lower than the present. Extensive surface melt occurred at the NEEM site during the Eemian, a phenomenon witnessed when melt layers formed again at NEEM during the exceptional heat of July 2012. With additional warming, surface melt might become more common in the future.

Published
2013

19. The prevalence of antimicrobial resistant Escherichia coli in sympatric wild rodents varies by season and host.

Author

Williams, N. J., Sherlock, Christopher, Jones, T.R., Clough, H.E., Telfer, S.E., Begon, M., French, N.P., Bennett, M., Williams, N. J., Sherlock, Christopher, Jones, T.R., Clough, H.E., Telfer, S.E., Begon, M., French, N.P., and Bennett, M.

Abstract

Aims: To investigate the prevalence and temporal patterns of antimicrobial resistance in wild rodents with no apparent exposure to antimicrobials. Methods and Results: Two sympatric populations of bank voles and wood mice were trapped and individually monitored over a 2- year period for faecal carriage of antimicrobial-resistant Escherichia coli. High prevalences of ampicillin-, chloramphenicol-, tetracycline- and trimethoprim-resistant E. coli were observed. A markedly higher prevalence of antimicrobial-resistant E. coli was found in wood mice than in bank voles, with the prevalence in both increasing over time. Superimposed on this trend was a seasonal cycle with a peak prevalence of resistant E. coli in mice in early- to mid-summer and in voles in late summer and early autumn. Conclusions: These sympatric rodent species had no obvious contact with antimicrobials, and the difference in resistance profiles between rodent species and seasons suggests that factors present in their environment are unlikely to be drivers of such resistance. Significance and Impact of the Study: These findings suggest that rodents may represent a reservoir of antimicrobial-resistant bacteria, transmissible to livestock and man. Furthermore, such findings have implications for human and veterinary medicine regarding antimicrobial usage and subsequent selection of antimicrobial-resistant organisms.

Published
2011

32. Discovery of L-740,515, a potent thienopyridine cysLT1 receptor (LTD4 receptor) antagonist

Author

Labelle, M., primary, Gareau, Y., additional, Dufresne, C., additional, Lau, C.K., additional, Belley, M., additional, Jones, T.R., additional, Leblanc, Y., additional, McAuliffe, M., additional, McFarlane, C.S., additional, Metters, K.M., additional, Ouimet, N., additional, Perrier, H., additional, Rochette, C., additional, Sawyer, N., additional, Slipetz, D., additional, Xiang, Y.B., additional, Wang, Z., additional, Pickett, C.B., additional, Ford-Hutchinson, A.W., additional, Young, R.N., additional, and Zamboni, R.J., additional

Published
1995
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34. Discovery of MK-0476, a potent and orally active leukotriene D4 receptor antagonist devoid of peroxisomal enxyme induction

Author

Labelle, M., primary, Belley, M., additional, Gareau, Y., additional, Gauthier, J.Y., additional, Guay, D., additional, Gordon, R., additional, Grossman, S.G., additional, Jones, T.R., additional, Leblanc, Y., additional, McAuliffe, M., additional, McFarlane, C., additional, Masson, P., additional, Metters, K.M., additional, Ouimet, N., additional, Patrick, D.H., additional, Piechuta, H., additional, Rochette, C., additional, Sawyer, N., additional, Xiang, Y.B., additional, Pickett, C.B., additional, Ford-Hutchinson, A.W., additional, Zamboni, R.J., additional, and Young, R.N., additional

Published
1995
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35. The discovery of L-699,392, a novel potent and orally active leukotriene D4 receptor antagonist

Author

Labelle, M., primary, Belley, M., additional, Champion, E., additional, Gordon, R., additional, Hoogsteen, K., additional, Jones, T.R., additional, Leblanc, Y., additional, Lord, A., additional, McAuliffe, M., additional, McFarlane, C., additional, Masson, P., additional, Metters, K.M., additional, Nicoll-Griffith, D., additional, Ouimet, N., additional, Piechuta, H., additional, Rochette, C., additional, Sawyer, N., additional, Xiang, Y.B., additional, Yergey, J., additional, Ford-Hutchinson, A.W., additional, Pickett, C.B., additional, Zamboni, R.J., additional, and Young, R.N., additional

Published
1994
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36. Book helps when processing deer

Author

Jones, T.R.

Abstract

COUNTRYSIDE: Other than the Nov/ Dec 03 issue on processing a deer, do you have an article that tells (and shows) where to make the cuts on the deer? For […]

Published
2004

37. The discovery of a new structural class of potent orally active leukotriene D4 antagonists

Author

Labelle, M., primary, Prasit, P., additional, Belley, M., additional, Blouin, M., additional, Champion, E., additional, Charette, L., additional, DeLuca, J.G., additional, Dufresne, C., additional, Frenette, R., additional, Gauthier, J.Y., additional, Grimm, E., additional, Grossman, S.J., additional, Guay, D., additional, Herold, E.G., additional, Jones, T.R., additional, Lau, C.K., additional, Leblanc, Y., additional, Léger, S., additional, Lord, A., additional, McAuliffe, M., additional, McFarlane, C., additional, Masson, P., additional, Metters, K.M., additional, Ouimet, N., additional, Patrick, D.H., additional, Perrier, H., additional, Pickett, C.B., additional, Piechuta, H., additional, Roy, P., additional, Williams, H., additional, Wang, Z., additional, Xiang, Y.B., additional, Zamboni, R.J., additional, Ford-Hutchinson, A.W., additional, and Young, R.N., additional

Published
1992
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39. The prevalence of antimicrobial-resistant Escherichia coli in sympatric wild rodents varies by season and host.

Author

Williams, N.J., Sherlock, C., Jones, T.R., Clough, H.E., Telfer, S.E., Begon, M., French, N., Hart, C.A., and Bennett, M.

Subjects
ESCHERICHIA coli, DRUG resistance in microorganisms, ANTI-infective agents, AMPICILLIN, CHLORAMPHENICOL
Abstract

Aims: To investigate the prevalence and temporal patterns of antimicrobial resistance in wild rodents with no apparent exposure to antimicrobials. Methods and Results: Two sympatric populations of bank voles and wood mice were trapped and individually monitored over a 2- year period for faecal carriage of antimicrobial-resistant Escherichia coli. High prevalences of ampicillin-, chloramphenicol-, tetracycline- and trimethoprim-resistant E. coli were observed. A markedly higher prevalence of antimicrobial-resistant E. coli was found in wood mice than in bank voles, with the prevalence in both increasing over time. Superimposed on this trend was a seasonal cycle with a peak prevalence of resistant E. coli in mice in early- to mid-summer and in voles in late summer and early autumn. Conclusions: These sympatric rodent species had no obvious contact with antimicrobials, and the difference in resistance profiles between rodent species and seasons suggests that factors present in their environment are unlikely to be drivers of such resistance. Significance and Impact of the Study: These findings suggest that rodents may represent a reservoir of antimicrobial-resistant bacteria, transmissible to livestock and man. Furthermore, such findings have implications for human and veterinary medicine regarding antimicrobial usage and subsequent selection of antimicrobial-resistant organisms. [ABSTRACT FROM AUTHOR]

Published
2011
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49. The venom apparatus of the boomslang or tree snake, Dispholidus typus.

Author

Lake, A.R. and Trevor-Jones, T.R.

Subjects
*POISONOUS snakes, *VENOM, *ANATOMY
Abstract

Investigates the venom-secreting apparatus of the boomslang or tree snake. Some of the main effects of envenomation; Description of the venom apparatus; Secretion; Toxicity of the venom.

Published
1996

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