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  • 101.
    Keogh, Sinead
    et al.
    School of Physics, University College Dublin.
    Aldahan, Ala
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences, Air and Water Science.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Finegan, P.
    School of Physics, University College Dublin.
    Vintro, L
    School of Physics, University College Dublin.
    Mitchel, P
    School of Physics, University College Dublin.
    Trends in the spatial and temporal distribution of 129I and 99Tc in coastal waters surrounding Ireland using Fucus vesiculosus as a bio-indicator2007In: Journal of Environmental Radioactivity, ISSN 0265-931X, E-ISSN 1879-1700, Vol. 95, no 1, p. 23-38Article in journal (Refereed)
    Abstract [en]

    Spatial and temporal trends in 129I and 99Tc concentrations around the Irish coastline have been evaluated using Fucus vesiculosus as a bio-indicator. 129I concentrations in a recent set of seawater samples have also been recorded and reveal an identical spatial pattern. Concentrations of 129I in Fucus from the northeast coast of Ireland proved to be at least two orders of magnitude higher than concentrations in Fucus from the west coast. The 129I content of Fucus increased significantly between 1985 and 2003, in line with increases in discharges of 129I from the Sellafield nuclear reprocessing plant. Similar trends were observed in the case of 99Tc. 129I/99Tc ratios in Irish seawater were deduced from the Fucus data, and compared to ratios in discharges from Sellafield and from the French reprocessing plant at Cap de la Hague. Levels of 129I and 99Tc in Fucus from the west coast were found to be enhanced with respect to levels in seaweeds from other regions in the Northern Hemisphere unaffected by discharges from nuclear installations such as those referred to.

  • 102. Khalfaoui, N.
    et al.
    Rotaru, C. C.
    Bouffard, S.
    Toulemonde, M.
    Stoquert, J. P.
    Haas, F.
    Trautmann, C.
    Jensen, Jens
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Dunlop, A.
    Characterization of swift heavy ion tracks in CaF2 by scanning force and transmission electron microscopy2005In: Nucl. Inst. Meth., Vol. B 240, p. 819-Article in journal (Refereed)
  • 103.
    Kjeldsen, Frank
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Haselmann, Kim F
    Budnik, Bogdan A
    Sörensen, Esben S
    Zubarev, Roman A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. jonfysik.
    Complete characterization of posttranslational modification sites in the bovine milk protein PP3 by tandem mass spectrometry with electron capture dissociation as the last stage.2003In: Anal Chem, ISSN 0003-2700, Vol. 75, no 10, p. 2355-61Article in journal (Refereed)
  • 104.
    Kjeldsen, Frank
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Haselmann, Kim F.
    Sorenson, Esben S.
    Zubarev, Roman A.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. jonfysik.
    Distinguishing of lle/Leu Amino Acid Residues in PP3 Protein by (Hot) Electron Capture Dissociation in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry2003In: Analytical Chemistry, Vol. 75, no 6, p. 1267-1274Article in journal (Refereed)
  • 105.
    Kjeldsen, Frank
    et al.
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Pharmacy, Department of Pharmaceutical Biosciences, MMS, Medical Mass Spectrometry.
    Savitski, Mikhail
    Adams, Christopher
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Zubarev, Roman
    Determination of the location of positive charges in gas-phase polypeptide polycations by tandem mass spectrometry2006In: International Journal of Mass Spectrometry, ISSN 1387-3806, E-ISSN 1873-2798, Vol. 252, no 3, p. 204-212Article in journal (Refereed)
    Abstract [en]

    Location of protonated sites in electrospray-ionized gas-phase peptides and proteins was performed with tandem mass spectrometry using ion activation by both electron capture dissociation (ECD) and collisional activation dissociation (CAD). Charge-carrying sites were assigned based on the increment in the charge state of fragment ions compared to that of the previous fragment in the same series. The property of ECD to neutralize preferentially the least basic site was confirmed by the analysis of three thousand ECD mass spectra of doubly charged tryptic peptides. Multiply charged cations of bradykinin, neurotensin and melittin were studied in detail. For n+ precursors, ECD revealed the positions of (n − 1) most basic sites, while CAD could in principle locate all n charges. However, ECD introduced minimal proton mobilization and produced more conclusive data than CAD, for which N- and C-terminal data often disagreed. Consistent with the dominance of one charge conformer and its preservation in ECD, the average charge states of complementary fragments of n+ ions almost always added up to (n − 1)+, while the similar figure in CAD often deviated from n+, indicating extensive charge isomerization under collisional excitation. For bradykinin and neurotensin, the charge assignments were largely in agreement with the intrinsic gas-phase basicity of the respective amino acid residues. For melittin ions in higher charge states, ECD revealed the charging at both intrinsically basic as well as at less basic residues, which was attributed to charge sharing with other groups due to the presence of secondary and higher order structures in this larger polypeptide.

  • 106.
    Kjeldsen, Frank
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    Silivra, Oleg A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    Ivonin, Igor A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Medical Pharmacology. Department of Engineering Sciences, Ion Physics. Ion physics.
    Haselmann, Kim F
    Gorshkov, Mikhail
    Zubarev, Roman A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    C alpha-C backbone fragmentation dominates in electron detachment dissociation of gas-phase polypeptide polyanions.2005In: Chemistry, ISSN 0947-6539, Vol. 11, no 6, p. 1803-12Article in journal (Refereed)
  • 107.
    Kjeldsen, Frank
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Silivra, Oleg
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Zubarev, Roman
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Zwitterionic States in Gas-Phase Polypeptide Ions Revealed by 157-nm Ultra-Violet Photodissociation2006In: Chemistry - A European Journal, ISSN 0947-6539, E-ISSN 1521-3765, Vol. 12, no 30, p. 7920-7928Article in journal (Refereed)
    Abstract [en]

    A new method of detecting the presence of deprotonation and determining its position in gas-phase polypeptide cations is described. The method involves 157-nm ultra-violet photodissociation (UVPD) and is based on monitoring the losses of CO2 (44 Da) from electronically excited deprotonated carboxylic groups relative to competing COOH losses (45 Da) from neutral carboxylic groups. Loss of CO2 is a strong indication of the presence of a zwitterionic [(+)center dot center dot center dot(-)center dot center dot center dot(+)] salt bridge in the gas-phase polypeptide cation. This method provides a tool for studying, for example, the nature of binding within polypeptide clusters. Collision-activated dissociation (CAD) of decarboxylated cations localizes the position of deprotonation. Fragment abundances can be used for the semi-quantitative assessment of the branching ratio of deprotonation among different acidic sites, however, the mechanism of the fragment formation should be taken into account. Cations of Trp-cage proteins exist preferentially as zwitterions, with the deprotonation position divided between the Asp(9) residue and the C terminus in the ratio 3:2. The majority of dications of the same molecule are not zwitterions. Furthermore, 157-nm UVPD produces abundant radical cations M center dot+ from protonated molecules through the loss of a hydrogen atom. This method of producing M center dot+ ions is general and can be applied to any gas-phase peptide cation. The abundance of the molecular radical cations M center dot+ produced is sufficient for further tandem mass spectrometry (MS/MS), which, in the cases studied, yielded side-chain loss of a basic amino acid as the most abundant fragmentation channel together with some backbone cleavages.

  • 108.
    Kjeldsen, Frank
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Zubarev, Roman
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. jonfysik.
    Secondary losses via gamma-lactam formation in hot electron capture dissociation: a missing link to complete de novo sequencing of proteins?2003In: J Am Chem Soc, ISSN 0002-7863, Vol. 125, no 22, p. 6628-9Article in journal (Other scientific)
  • 109. Kjellström, A.
    et al.
    Storå, J.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Linderholm, Anna
    Dietary patterns and social structures in medieval Sigtuna, Sweden, as reflected in stable isotope values in human skeletal remains2009In: Journal of Archaeological Science, ISSN 0305-4403, E-ISSN 1095-9238, Vol. 36, no 12, p. 2689-2699Article in journal (Refereed)
    Abstract [en]

    Stable isotopes (delta C-13, delta N-15) have been studied in human   burials from the medieval town Sigtuna in Sweden. Dietary patterns of   80 adult individuals were analyzed on three cemeteries representing the   phases of establishment, prosperity and decline of the town. All   analyzed individuals were radiocarbon dated. One of the cemeteries,   Church 1, represents a population of higher social status than those at   the other two cemeteries.   The delta C-13 values are homogenous and showed that the protein intake   was mainly of terrestrial origin in the whole population. delta N-15   values varies more and they may indicate a higher input of vegetables   in the diet at one of the cemeteries, the Nunnan block.   Already in the initial phases of Sigtuna a social hierarchy had been   established which is reflected in dietary patterns. Apparently more   animal protein was consumed among the high status population of the   town. Furthermore, differences in dietary patterns between the sexes   were noted. In all phases the females show more clustered values   indicating a more homogeneous diet than that of the males.

  • 110.
    Kolstrup, Else
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences.
    Murray, Andrew
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Luminescence and radiocarbon ages from laminated Lateglacial aeolian sediments in western Jutland, Denmark2007In: Boreas, ISSN 0300-9483, E-ISSN 1502-3885, Vol. 36, no 3, p. 314-325Article in journal (Refereed)
    Abstract [en]

    The chronology of two adjacent Danish Lateglacial sedimentary sequences with well- developed layering of alternating aeolian sand and organic matter has been investigated using both Optically Stimulated Luminescence (OSL) and Accelerator Mass Spectrometry (C-14). Both sites are known to cover at least the period Bolling to Younger Dryas, with the so- called older and younger coversand types present at both localities. Typical overall uncertainties with the OSL data are about two to five times those of the C-14 ages, but both data sets contain clear outliers. When these are excluded, OSL ages appear to be systematically slightly younger than the C-14 ages, by about 10%; possible reasons for this are discussed. The investigation stresses the importance of making several age estimates from any single locality. The older coversand type makes up the pre- Bolling and most, or possibly all, of the Bolling (which also has the highest net accumulation rate). Deposits of the younger coversand type are dominant in layers younger than the Bolling.

  • 111. Kreter, A.
    et al.
    Baldwin, M. J.
    Doerner, R. P.
    Nishijima, D.
    Petersson, Per
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Disciplinary Domain of Science and Technology, För teknisk-naturvetenskapliga fakulteten gemensamma enheter, Tandem Laboratory.
    Pospieszczyk, A.
    Rubel, M.
    Umstadter, K.
    Fuel retention in carbon materials under ITER-relevant mixed species plasma conditions2009In: Physica Scripta, ISSN 0031-8949, E-ISSN 1402-4896, Vol. T138, p. 014012-Article in journal (Refereed)
  • 112.
    Krings, M
    et al.
    Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany.
    Capelli, C
    Institute of Legal Medicine, Catholic University of S. Cuore, Rome, Italy.
    Tschentscher, F
    Institute for Human Genetics, University Clinic, Essen, Germany.
    Geisert, H
    Institute of Zoology, University of Munich, Munich, Germany.
    Meyer, S
    Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany.
    von Haeseler, A
    Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany.
    Grossschmidt, K
    Institute for Histology and Embryology, University of Vienna, Vienna, Austria.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Paunovic, M
    Institute of Quaternary Paleontology and Geology of the Croatian Academy of Sciences and Arts.
    Pääbo, S
    Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany.
    A view of Neandertal genetic diversity2000In: Nature Genetics, ISSN 1061-4036, E-ISSN 1546-1718, Vol. 26, no 2, p. 144-146Article in journal (Refereed)
  • 113.
    Kubart, Tomas
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Nyberg, Tomas
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Liljeholm, Lina
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Depla, D.
    Berg, Sören
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Influence of the target composition on reactively sputtered titanium oxide films2009In: Vacuum, ISSN 0042-207X, E-ISSN 1879-2715, Vol. 83, no 10, p. 1295-1298Article in journal (Refereed)
    Abstract [en]

    Titanium dioxide thin films have many interesting properties and are used in various applications. High refractive index of titania makes it attractive for the glass coating industry, where it is used in low-emissivity and antireflective coatings. Magnetron sputtering is the most common deposition technique for large area coatings and a high deposition rate is therefore of obvious interest. It has been shown previously that high rate can be achieved using substoichiometric targets. This work deals with reactive magnetron sputtering of titanium oxide films from TiOx targets with different oxygen contents. The deposition rate and hysteresis behaviour are disclosed. Films were prepared at various oxygen flows and all films were deposited onto glass and silicon substrates with no external heating. The elemental compositions and structures of deposited films were evaluated by means of X-ray photoelectron spectroscopy, elastic recoil detection analysis and X-ray diffraction. All deposited films were X-ray amorphous. No significant effect of the target composition on the optical properties of coatings was observed. However, the residual atmosphere is shown to contribute to the oxidation of growing films.

  • 114.
    Kulan A., Vintersved I
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences. Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics.
    Aldahan, Ala
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences. Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. ELD.
    Possnert, Göran
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. Jonfysik.
    Solar cycle activity and atmospheric dynamics revealed by Be-72003In: Geophysical Research Abstr., 2003, p. 11267-Conference paper (Refereed)
  • 115.
    Köcher, Thomas
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion Physics.
    Engström, Åke
    Medicinska vetenskapsområdet, Faculty of Medicine, Department of Medical Biochemistry and Microbiology. Department of Engineering Sciences, Ion Physics.
    Zubarev, Roman A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion Physics.
    Fragmentation of peptides in MALDI in-source decay mediated by hydrogen radicals.2005In: Anal Chem, ISSN 0003-2700, Vol. 77, no 1, p. 172-7Article in journal (Refereed)
  • 116.
    Köcher, Thomas
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Savitski, Mikhail M
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Nielsen, Michael L
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Zubarev, Roman A
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    PhosTShunter: A fast and reliable tool to detect phosphorylated peptides in liquid chromatography Fourier transform tandem mass spectrometry data sets2006In: Journal of Proteome Research, ISSN 1535-3893, E-ISSN 1535-3907, Vol. 5, no 3, p. 659-668Article in journal (Refereed)
    Abstract [en]

    A database independent search algorithm for the detection of phosphopeptides is described. The program interrogates the tandem mass spectra of LC-MS/MS data sets regarding the presence of phosphorylation specific signatures. To achieve maximum informational content, the complementary fragmentation techniques electron capture dissociation (ECD) and collisionally activated dissociation (CAD) are used independently for peptide fragmentation. Several criteria characteristic for peptides phosphorylated on either serine or threonine residues were evaluated. The final algorithm searches for product ions generated by either the neutral loss of phosphoric acid or the combined neutral loss of phosphoric acid and water. Various peptide mixtures were used to evaluate the program. False positive results were not observed because the program utilizes the parts-per-million mass accuracy of Fourier transform ion cyclotron resonance mass spectrometry. Additionally, false negative results were not generated owing to the high sensitivity of the chosen criteria. The limitations of database dependent data interpretation tools are discussed and the potential of the novel algorithm to overcome these limitations is illustrated.

  • 117. Large, DJ
    et al.
    Spiro, B
    Ferrat, M
    Shopland, M
    Kylander, M
    Gallagher, K
    Li, X
    Shen, C
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Disciplinary Domain of Science and Technology, För teknisk-naturvetenskapliga fakulteten gemensamma enheter, Tandem Laboratory.
    Zhang, G
    Darling, WG
    Weiss, D
    The influence of climate, hydrology and permafrost on Holocene peat accumulation at 3500 m on the eastern Qinghai-Tibetan plateau2009In: Quaternary Science Reviews, ISSN 0277-3791, E-ISSN 1873-457X, Vol. 28, no 27-28, p. 3303-3314Article in journal (Refereed)
    Abstract [en]

    Peatland of the eastern Qinghai–Tibetan Plateau lies at the convergence of the East Asian and Indian monsoon systems in eastern Asia. To understand the evolution of this peatland and its potential to provide new insights into the Holocene evolution of the East Asian monsoon a 6 m peat core was collected from the undisturbed central part of a peat deposit near Hongyuan. The age-depth profile was determined using 16 14C-AMS age dates, the peat analysed for a range of environmental variables including carbon, nitrogen and hydrogen concentration, bulk density, δ13C and the associated spring water analysed for hydrogen and oxygen isotopes. The age-depth profile of the recovered peat sequence covers the period from 9.6 to 0.3 kyr BP and is linear indicating that the conditions governing productivity and decay varied little over the Holocene. Using changes in carbon density, organic carbon content and its δ13C, cold dry periods of permafrost characterised by low density and impeded surface drainage were identified. The low δ18O and δD values of the spring water emanating around the peat deposit, down to −13.8 and −102‰ (VSMOW), respectively, with an inverse relationship between electrical conductivity and isotopic composition indicate precipitation under colder and drier conditions relative to the present day. In view of the current annual mean air temperature of 1 °C this suggests conditions in the past have been conducive to permafrost. Inferred periods of permafrost correspond to independently recognised cold periods in other Holocene records from across China at 8.6, 8.2–7.8, 5.6–4.2, 3.1 and 1.8–1.5 kyr BP. The transition to a cold dry climate appears to be more rapid than the subsequent recovery and cold dry periods at Hongyuan are of longer duration than equivalent cold dry periods over central and eastern China. Light–dark banding peat on a scale of 15–30 years from 9.6 to 5.5 kyr BP may indicate a strong influence of decadal oscillations possibly the Pacific Decadal Oscillation and a potential link between near simultaneous climatic changes in the northwest Pacific, ENSO, movement of the Intertropical Convergence Zone and the East Asian Monsoon.

  • 118.
    Lindeberg, Mikael
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Physics, Department of Physics and Materials Science, Materials Science. Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Yousef, Hanna
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Physics, Department of Physics and Materials Science, Materials Science. Technology, Department of Engineering Sciences, Ion Physics.
    Hjort, Klas
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Physics, Department of Physics and Materials Science, Materials Science. Technology, Department of Engineering Sciences, Ion Physics.
    How to deal with stochastically distributed ion tracks in sensor applications2005In: , 6th Int. Symp. On Swift Heavy Ions in Matter, SHIM (May 28-31, 2005, Aschaffenburg, Germany) O-4., 2005Conference paper (Refereed)
  • 119.
    Maghanga, Christopher M.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Niklasson, Gunnar A.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Granqvist, Claes-Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Mwamburi, M.
    Transparent and conducting TiO2:Nb films made by sputter deposition: Application to spectrally selective solar reflectors2010In: Solar Energy Materials and Solar Cells, ISSN 0927-0248, E-ISSN 1879-3398, Vol. 94, no 1, p. 75-79Article in journal (Refereed)
    Abstract [en]

    Transparent and conducting thin films of TiO2:Nb were prepared on glass and aluminum substrates by dual-target reactive DC magnetron sputtering in an Ar+O-2 plasma. The Nb content lay between 0 and 4.9 at% as determined by ion beam analyses. X-ray diffraction showed that vacuum annealing at 450 degrees C led to crystallinity and prevalence of the anatase phase. The influence of Nb doping was studied with regard to structural, optical, and electrical data. Optical constants were determined from spectrophotometric recordings for films on glass, and the onset of free-electron behavior was documented for annealed films. The latter films, deposited onto Al2O3-coated Al, were found to display optically selective reflectance and to be useful for solar energy applications.

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  • 120. Manil, B.
    et al.
    Boduch, P.
    Cassimi, A.
    Kamalou, O.
    Maunoury, L.
    Jensen, Jens
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Zettergren, H.
    Collision induced fragmentation of fullerene clusters2005In: Int. Journ. Modern Physics, Vol. B 19, p. 2345-2352Article in journal (Refereed)
  • 121. Manil, B.
    et al.
    Maonoury, L.
    Jensen, Jens
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Cederquist, H.
    Schmidt, H.T.
    Zettergren, H.
    Hvelplund, P.
    Tomita, S.
    Huber, B.A.
    Fragmentation of chaged fullerene dimers:: Kinetic energy release2005In: Nucl. Instr. Meth., Vol. B 235, p. 419-Article in journal (Refereed)
  • 122. Mannering, U
    et al.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Disciplinary Domain of Science and Technology, För teknisk-naturvetenskapliga fakulteten gemensamma enheter, Tandem Laboratory.
    Heinemeier, J
    Gleba, M
    Dating Danish textiles and skins from bog finds by means of 14-C AMS2010In: Journal of Archaeological Science, ISSN 0305-4403, E-ISSN 1095-9238, Vol. 37, no 2, p. 261-268Article in journal (Refereed)
    Abstract [en]

    This study presents the results of 44 new C-14 analyses of Danish Early Iron Age textiles and skins. Of 52 Danish bog finds containing skin and textile items, 30 are associated with bog bodies. Until now, only 18 of these have been dated. In this paper we add dates to the remaining finds. The results demonstrate that the Danish custom of depositing clothed bodies in a bog is centred to the centuries immediately before and at the beginning of the Common Era. Most of these bodies are carefully placed in the bog - wrapped or dressed in various textile and/or skin garments. The care with which these people were placed in the bog indicates that they represent a hitherto unrecognised burial custom supplementing the more common burial pratice for this period.

  • 123.
    Martin, David
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Enlund, Johannes
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Kappertz, Oliver
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Comparing XPS and ToF-ERDA measurement of high-k dielectric materials2007Conference paper (Refereed)
  • 124.
    Martin, David
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Enlund, Johannes
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Kappertz, Oliver
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Electronics.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Comparing XPS and ToF-ERDA measurement of high-k dielectric materials2008In: Journal of Physics, Conference Series, ISSN 1742-6588, E-ISSN 1742-6596, Vol. 100, no 1, p. 012036-Article in journal (Refereed)
  • 125.
    Martin, David
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Electronics. Fasta tillståndets elektronik.
    Enlund, Johannes
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Electronics. Fasta tillståndets elektronik.
    Kappertz, Oliver
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Electronics. Fasta tillståndets elektronik.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Compositional characterization of high-k dielectric material via XPS and ToF-ERDA2006Conference paper (Other (popular science, discussion, etc.))
  • 126. Maunoury, L.
    et al.
    Pacquet, J. Y.
    Pedersen, U. V.
    Jensen, Jens
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Tomita, S.
    Zettergren, H.
    Gustavo, F.
    Ion beams of carbon clusters and multiply charged fullerenes produced with electron cyclotron resonance ion sources2005In: Rev. Sci. Instrum., Vol. 76Article in journal (Refereed)
  • 127.
    Misharin, Alexander S
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    Silivra, Oleg A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    Kjeldsen, Frank
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    Zubarev, Roman A
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Materials Science. Department of Engineering Sciences, Ion Physics. Ion physics.
    Dissociation of peptide ions by fast atom bombardment in a quadrupole ion trap.2005In: Rapid Commun Mass Spectrom, ISSN 0951-4198, Vol. 19, no 15, p. 2163-71Article in journal (Refereed)
  • 128.
    Misharin, Alexander S.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Zubarev, Roman
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Coaxial multi-electrode cell (' O-trap ') for high-sensitivity detection at a multiple frequency in Fourier transform ion cyclotron resonance mass spectrometry: main design and modeling results2006In: Rapid Communications in Mass Spectrometry, ISSN 0951-4198, E-ISSN 1097-0231, Vol. 20, no 21, p. 3223-3228Article in journal (Refereed)
    Abstract [en]

    Separation of the functions of ion excitation and detection between different cell compartments allows for implementation of excitation and detection techniques unattainable in a single compartment of the conventional ion cyclotron resonance (ICR) cell. In particular, multi-electrode detection at a multiple of the main cyclotron frequency can be utilized without the loss of sensitivity and other negative effects. The new O-trap designed exclusively for ion detection adds an additional, internal coaxial cylinder around which ions with excited cyclotron orbits rotate. Comparison of simulated performance characteristics of the new O-trap with those of the same-size conventional cylindrical cell shows that the O-trap can provide higher sensitivity and ion capacity. Multiplexing of the O-traps can further increase the analysis speed. Future efforts will be aimed at building and testing experimentally the coaxial O-trap, including optimization of the method of ion transfer between the compartments of the cell.

  • 129.
    Muscheler, R
    et al.
    GeoBiosphere Science Centre, Quaternary Sciences, Lund University.
    Aldahan, Ala
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences, LUVAL.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Disciplinary Domain of Science and Technology, För teknisk-naturvetenskapliga fakulteten gemensamma enheter, Tandem Laboratory.
    Berggren, Ann-Marie
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences, LUVAL.
    Svensson, A
    Niels Bohr Institute, Ice and Climate Research, University of Copenhagen, Denmark.
    Johnsen, S
    Niels Bohr Institute, Ice and Climate Research, University of Copenhagen.
    Björck, S
    GeoBiosphere Science Centre, Quaternary Sciences, Lund University.
    Beer, J
    Swiss Federal Institute of Aquatic Science and Technology, Switzerland.
    The cosmic ray clock during the Younger Dryas cold period clues about climate forcing and the timing of climate change: clues about climate forcing and the timing of climate change2009Conference paper (Refereed)
    Abstract [en]

    The last cold spell of the last deglaciation, the Younger Dryas period, serves as the prime example for rapid climate change induced by ocean circulation changes. However, the detailed processes behind this cold event are far from being satisfactorily understood. Although, the oceanic involvement in this climate deterioration is not disputed, there are various speculations about mechanisms that could have triggered and terminated it. Here we present 10Be data from the GRIP ice core around the transition from the Bölling/Alleröd warm period into the Younger Dryas cold period. The data provide a high-resolution cosmic ray signal that can be used to synchronize different radionuclide records and the connected climate reconstructions. This approach can lead to robust results about synchronous and non-synchronous climate changes at different locations, insights into the possible processes behind the changes and also the prospect of an improved 14C calibration beyond the Holocene period.

  • 130. Mörner, Nils-Axel
    et al.
    Lind, Bob G.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Heimdall's stones at Vitemölla in Sweden and the chronology and stratigraphy of the surroundings2009In: Geografiska Annaler. Series A, Physical Geography, ISSN 0435-3676, E-ISSN 1468-0459, Vol. 91A, no 3, p. 205-213Article in journal (Refereed)
    Abstract [en]

    Heimdall's Stones at Vitemolla is an archaeological monument of stones   arranged in circles and where sightlines can be identified of the   sunrise and sunset at winter and summer solstices and spring and autumn   equinoxes. Therefore, this stone monument is likely to have served as   an archaeoastronomic observatory. It is founded in a fossil land   surface now covered by half a metre of eolian sand. In order to date   this sand drift, sediment coring was performed in the nearby Sandefloen   bog. Seven levels were subjected to AMS C14 dating. The first sand   drift, correlated with the sand drift covering Heimdall's Stones, was   dated at 500-600 cal. bc. Consequently, the observatory has to date   back to the Bronze Age, fitting well with its Sun cult and with the   rock carvings recorded on the individual stones. At the seashore 500 m   east of the observatory and the bog, we were able to reconstruct the   sea-level changes. In conclusion, we combine the recorded sea-level   changes with the C14-dated bog stratigraphy and the observed   stratigraphy at Heimdall's Stones (covering an area of 500x500 m) into   one unified picture. The chronostratigraphic position of Heimdall's   Stones agrees well with the dating of the Kivik grave. The Vitemolla   area is likely to have been an important cultural centre in the Bronze   Age.

  • 131. Mörner, Nils-Axel
    et al.
    Tooley, Michael J
    Possnert, Göran
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    New prospects for the future of the Maldives2004In: Global and Planetary, Vol. 40, no 1-2, p. 177-182Article in journal (Refereed)
  • 132. Nath, B. N.
    et al.
    Borole, D. V.
    Aldahan, Ala
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences.
    Patil, S. K.
    Mascarenhas-Pereira, M. B. L.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Ericsson, T.
    Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences.
    Ramaswamy, V.
    Gupta, S. M.
    Pb-210, Th-230, and Be-10 in Central Indian Basin seamount sediments: Signatures of degassing and hydrothermal alteration of recent origin2008In: Geophysical Research Letters, ISSN 0094-8276, E-ISSN 1944-8007, Vol. 35, no 9, p. L09603-Article in journal (Refereed)
    Abstract [en]

    Isotopic (Pb-210, U-238-Th-230, Be-10), major and trace elements, and micromorphological and microchemical data, were used to identify recent (similar to 100 yrs) hydrothermal alteration of a >200 kyr sedimentary record from the flank of a seamount in the Central Indian Basin located at the edge of the 75 degrees 30'E fracture zone. Alteration effects are also reflected in 1) the depleted sedimentary organic carbon, 2) dissolution features of radiolarian skeletons, 3) the presence of altered minerals such as smectite and zeolites, and 4) distinctly different magnetic properties in the altered sediments. We interpret a predominant influence of neutral chloride type hydrothermal fluids. This is the first report of recently occurring sediment alteration by shallow circulating sub-surface fluids along the Indian Ocean intra-plate seamount environment.

  • 133. Nath, Nagender
    et al.
    Aldahan, Ala
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Disciplinary Domain of Science and Technology, Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. miljö-och landskapsdynamik.
    Gupta, S
    Borole, V
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Tectonic control and the orbital forcing on the 3 million year sedimentary record from the Central Indian Basi2006Conference paper (Other (popular science, discussion, etc.))
  • 134. Nath, Nagender
    et al.
    Aldahan, Ala
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences. Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. ELD.
    Possnert, Göran
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Technology, Department of Engineering Sciences, Ion Physics. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. jonfysik.
    10Be variation in surficial sediment of the Central Indian Ocean2005In: 10th International conference on accelerator mass spectrometry, Berkeley, 2005, p. 32-Conference paper (Refereed)
  • 135.
    Nielsen, Michael L.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Savitski, Mikhail M.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Kjeldsen, Frank
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Zubarev, Roman A.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Physicochemical properties determining the detection probability of tryptic peptides in Fourier transform mass spectrometry. A correlation study2004In: Analytical Chemistry, ISSN 0003-2700, E-ISSN 1520-6882, Vol. 76, no 19, p. 5872-5877Article in journal (Refereed)
    Abstract [en]

    Sequence verification and mapping of posttranslational modifications require nearly 100% sequence coverage in the "bottom-up" protein analysis. Even in favorable cases, routine liquid chromatography-mass spectrometry detects from protein digests peptides covering 50-90% of the sequence. Here we investigated the reasons for limited peptide detection, considering various physicochemical aspects of peptide behavior in liquid chromatography-Fourier transform mass spectrometry (LC-FTMS). No overall correlation was found between the detection probability and peptide mass. In agreement with literature data, the signal increased with peptide hydrophobicity. Surprisingly, the pI values exhibited an opposite trend, with more acidic tryptic peptides detected with higher probability. A mixture of synthesized peptides of similar masses confirmed the hydrophobicity dependence but showed strong positive correlation between pI and signal response. An explanation of this paradoxal behavior was found through the observation that more acidic tryptic peptide lengths tend to be longer. Longer peptides tend to acquire higher average charge state in positive mode electrospray ionization than more basic but shorter counterparts. The induced-current detection in FTMS favors ions in higher charge states, thus providing the observed pI-FTMS signal anticorrelation.

  • 136.
    Nielsen, Michael L
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences.
    Savitski, Mikhail M
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences.
    Zubarev, Roman A
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Improving protein identification using complementary fragmentation techniques in Fourier transform mass spectrometry2005In: Molecular & Cellular Proteomics, ISSN 1535-9476, E-ISSN 1535-9484, Vol. 4, no 6, p. 835-845Article in journal (Refereed)
    Abstract [en]

    Identification of proteins by MS/MS is performed by matching experimental mass spectra against calculated spectra of all possible peptides in a protein data base. The search engine assigns each spectrum a score indicating how well the experimental data complies with the expected one; a higher score means increased confidence in the identification. One problem is the false-positive identifications, which arise from incomplete data as well as from the presence of misleading ions in experimental mass spectra due to gas-phase reactions, stray ions, contaminants, and electronic noise. We employed a novel technique of reduction of false positives that is based on a combined use of orthogonal fragmentation techniques electron capture dissociation (ECD) and collisionally activated dissociation (CAD). Since ECD and CAD exhibit many complementary properties, their combined use greatly increased the analysis specificity, which was further strengthened by the high mass accuracy (approximately 1 ppm) afforded by Fourier transform mass spectrometry. The utility of this approach is demonstrated on a whole cell lysate from Escherichia coli. Analysis was made using the data-dependent acquisition mode. Extraction of complementary sequence information was performed prior to data base search using in-house written software. Only masses involved in complementary pairs in the MS/MS spectrum from the same or orthogonal fragmentation techniques were submitted to the data base search. ECD/CAD identified twice as many proteins at a fixed statistically significant confidence level with on average a 64% higher Mascot score. The confidence in protein identification was hereby increased by more than 1 order of magnitude. The combined ECD/CAD searches were on average 20% faster than CAD-only searches. A specially developed test with scrambled MS/MS data revealed that the amount of false-positive identifications was dramatically reduced by the combined use of CAD and ECD.

  • 137.
    Niklasson, Gunnar A.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Norling, Anna-Karin
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Berggren, Lars
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Solid State Physics.
    Optical properties of amorphous tungsten oxide films: Effect of stoichiometry2008In: Journal of Physics, Conference Series, ISSN 1742-6588, E-ISSN 1742-6596, Vol. 100, no 8, p. 082023-Article in journal (Refereed)
    Abstract [en]

    The optical properties of sputter deposited amorphous tungsten oxide films have been measured in-situ during slow electrochemical cycling in a lithium containing electrolyte. Amorphous films exhibit coloration under Li insertion and bleaching under Li extraction. Substoichiometric films show almost reversible optical changes already in the first electrochemical cycle and are completely reversible thereafter. Tungsten oxide films sputtered in a large excess of oxygen were found to be slightly overstoichiometric, as determined by Rutherford Backscattering Spectrometry. They exhibit irreversible charge transfer and coloration in the first cycle. Thereafter they cannot be completely bleached and exhibit transmittance contrast between coloured and partially bleached states. The irreversible colouration of the stoichiometric films is associated with a feature at 2.6 to 2.9 eV vs. Li in electrochemical measurements. Possible chemical reactions giving rise to this behaviour are discussed.

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  • 138. Nilsson, A
    et al.
    Snowball, I
    Muscheler, R
    Aldahan, Ala
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Augustinus, PM
    Laschamp geomagnetic excursion confirmed in New Zealand lake sediments using 10Be.2009Conference paper (Refereed)
  • 139.
    Nilsson, Martina
    et al.
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Medicinsk genetik och genomik.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Edlund, Hanna
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Medicinsk genetik och genomik.
    Budowle, Bruce
    Kjellström, Anna
    Allen, Marie
    Uppsala University, Disciplinary Domain of Medicine and Pharmacy, Faculty of Medicine, Department of Immunology, Genetics and Pathology, Medicinsk genetik och genomik.
    Analysis of the putative remains of a European patron saint--St. Birgitta2010In: PLoS ONE, ISSN 1932-6203, Vol. 5, no 2, p. e8986-Article in journal (Refereed)
    Abstract [en]

    Saint Birgitta (Saint Bridget of Sweden) lived between 1303 and 1373 and was designated one of Europe's six patron saints by the Pope in 1999. According to legend, the skulls of St. Birgitta and her daughter Katarina are maintained in a relic shrine in Vadstena abbey, mid Sweden. The origin of the two skulls was assessed first by analysis of mitochondrial DNA (mtDNA) to confirm a maternal relationship. The results of this analysis displayed several differences between the two individuals, thus supporting an interpretation of the two skulls not being individuals that are maternally related. Because the efficiency of PCR amplification and quantity of DNA suggested a different amount of degradation and possibly a very different age for each of the skulls, an orthogonal procedure, radiocarbon dating, was performed. The radiocarbon dating results suggest an age difference of at least 200 years and neither of the dating results coincides with the period St. Birgitta or her daughter Katarina lived. The relic, thought to originate from St. Birgitta, has an age corresponding to the 13(th) century (1215-1270 cal AD, 2sigma confidence), which is older than expected. Thus, the two different analyses are consistent in questioning the authenticity of either of the human skulls maintained in the Vadstena relic shrine being that of St. Birgitta. Of course there are limitations when interpreting the data of any ancient biological materials and these must be considered for a final decision on the authenticity of the remains.

  • 140.
    Nilsson, Stefan
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Chemistry, Department of Chemistry. Department of Physical and Analytical Chemistry, Analytical Chemistry. Technology, Department of Engineering Sciences, Ion Physics. Analytisk kemi.
    Ramström, Margareta
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Chemistry, Department of Chemistry. Department of Physical and Analytical Chemistry, Analytical Chemistry. Technology, Department of Engineering Sciences, Ion Physics. Analytisk kemi.
    Palmblad, Magnus
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Department of Physical and Analytical Chemistry, Analytical Chemistry. Technology, Department of Engineering Sciences, Ion Physics. Jonfysik.
    Axelsson, Ove
    Bergquist, Jonas
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Chemistry, Department of Chemistry. Department of Physical and Analytical Chemistry, Analytical Chemistry. Technology, Department of Engineering Sciences, Ion Physics. Analytisk kemi.
    Explorative Study of the Protein Composition of Amniotic Fluid by Liquid Chromatography Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry2004In: Journal of Proteome Research, no 3, p. 884-889Article in journal (Refereed)
    Abstract [en]

    To explore the suitability of FTICR mass spectrometry for the analysis of the protein composition of amniotic fluid (AF), an AF sample from 15 weeks gestation from a healthy 36-year-old woman was tryptically digested, with or without prior serum albumin removal. The tryptic peptides were separated by gradient capillary liquid chromatography (LC) followed by electrospray ionization (ESI) and mass spectrometric detection with a 9.4 T Fourier transform ion cyclotron resonance mass spectrometer (FT-ICR). The obtained data underwent computer-aided mathematical and statistical evaluation to extract significant tryptic peptide patterns from human proteins. Forty-three proteins were putatively identified; among them were known protein constituents of amniotic fluid, but also many that not have been detected before. The removal of serum albumin prior to tryptic digestion reduced ion suppression from abundant HSA fragments. The protein analysis of amniotic fluid by albumin removal, tryptic digestion and LC/FT-ICR-MS analysis was found to be a straightforward technique.

  • 141.
    Palmblad, Magnus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Materials Science.
    Buijs, Jos
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Surface Biotechnology.
    Håkansson, Per
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Automatic Analysis of Hydrogen/Deuterium Exchange Mass Spectra of Peptides and Proteins using Calculations of Isotopic Distributions2001In: Journal of the American Society for Mass Spectrometry, ISSN 1044-0305, E-ISSN 1879-1123, Vol. 12, no 11, p. 1153-1162Article in journal (Refereed)
    Abstract [en]

    High mass-resolving power has been shown to be useful for studying the conformational dynamics of proteins by hydrogen/deuterium (H/D) exchange. A computer algorithm was developed that automatically identifies peptides and their extent of deuterium incorporation from H/D exchange mass spectra of enzymatic digests or fragment ions produced by collisionally induced dissociation (CID) or electron capture dissociation (ECD). The computer algorithm compares measured and calculated isotopic distributions and uses a fast calculation of isotopic distributions using the fast Fourier transform (FFT). The algorithm facilitates rapid and automated analysis of H/D exchange mass spectra suitable for high-throughput approaches to the study of peptide and protein structures. The algorithm also makes the identification independent on comparisons with undeuterated control samples. The applicability of the algorithm was demonstrated on simulated isotopic distributions as well as on experimental data, such as Fourier transform ion cyclotron resonance (FTICR) mass spectra of myoglobin peptic digests, and CID and ECD spectra of substance P.

  • 142.
    Palmblad, Magnus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Materials Science.
    Håkansson, Kristina
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Håkansson, Per
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Feng, Xidong
    Cooper, Helen J
    Giannakopulos, Anastassios E
    Green, Philip S
    Derrick, Peter J
    A 9.4 T Fourier Transform Ion Cyclotron Resonance Mass Spectrometer: Description and Performance2000In: European journal of mass spectrometry, ISSN 1469-0667, E-ISSN 1751-6838, Vol. 6, no 3, p. 267-275Article in journal (Refereed)
    Abstract [en]

    9.4 Tesla Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometers (Bruker BioAPEX-94e) have been installed at the Division of Ion Physics, Uppsala University, and at the Department of Chemistry, University of Warwick, The BioAPEX-94e FT-ICR instrument is built around a high-field, superconducting magnet and a platform with easily interchangeable ion sources [matrix-assisted laser desorption/ionisation (MALDI), secondary ion mass spectrometry (SIMS), electrospray ionisation (ESI) and electron impact/chemical ionisation (EI/CI)I. In this paper a technical description of the instrument is given. Outstanding performance characteristics are demonstrated, notably clear resolution of C59N+ and (C58C2+)-C-13 (mass difference 3.65 mDa) and mass measurement accuracy at the low ppm level. A wide range of applications in Warwick and Uppsala is described, demonstrating the versatility and high performance of the instrument.

  • 143.
    Palmblad, Magnus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Ramström, Margareta
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Markides, Karin E
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Håkansson, Per
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Bergquist, Jonas
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Prediction of chromatographic retention and protein identification in liquid chromatography/mass spectrometry2002In: Analytical Chemistry, ISSN 0003-2700, E-ISSN 1520-6882, Vol. 74, no 22, p. 5826-5830Article in journal (Refereed)
    Abstract [en]

    Liquid chromatography coupled on- or off-line with mass spectrometry is rapidly advancing as a tool in proteomics capable of dealing with the inherent complexity in biology and complementing conventional approaches based on two-dimensional gel electrophoresis. Proteins can be identified by proteolytic digestion and peptide mass fingerprinting or by searching databases using short-sequence tags generated by tandem mass spectrometry. This paper shows that information on the chromatographic behavior of peptides can assist protein identification by peptide mass fingerprinting in liquid chromatography/mass spectrometry. This additional information is significant and already available at no extra experimental cost.

  • 144.
    Palmblad, Magnus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Materials Science.
    Tsybin, Youri O
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Materials Science.
    Ramström, Margareta
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Bergquist, Jonas
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Håkansson, Per
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Liquid Chromatography and Electron Capture Dissociation in Fourier Transform Ion Cyclotron Resonance Mass Spectrometry2002In: Rapid Communications in Mass Spectrometry, ISSN 0951-4198, E-ISSN 1097-0231, Vol. 16, no 10, p. 988-992Article in journal (Refereed)
    Abstract [en]

    Liquid separation methods in combination with electrospray mass spectrometry as well as the recently introduced fragmentation method electron capture dissociation (ECD) have become powerful tools in proteomics research. This paper presents the results of the first successful attempts to combine liquid chromatography (LC) and Fourier transform ion cyclotron resonance mass spectrometry (FTICRMS) with ECD in the analysis of a mixture of standard peptides and of a bovine serum albumin tryptic digest. A novel electron injection system provided conditions for ECD sufficient to yield extensive sequence information for the most abundant peptides in the mixtures on the time-scale of the chromatographic separation. The results suggest that LC/ECD-FTICRMS can be employed in the characterization of peptides in enzymatic digests of proteins or protein mixtures and identify and localize posttranslational modifications.

  • 145.
    Palmblad, Magnus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Westlind-Danielsson, Anita
    Bergquist, Jonas
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry. Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Oxidation of Methionine-35 Attenuates Formation of Amyloid β-Peptide 1-40 Oligomers2002In: Journal of chemical biology, ISSN 1864-6158, E-ISSN 1864-6166, Vol. 277, p. 19506-19510Article in journal (Refereed)
    Abstract [en]

    Amyloid plaques formed by aggregation of the amyloid β-peptide (Aβ) are an intrinsic component of Alzheimer disease pathogenesis. It has been suggested that oxidation of methionine 35 in Aβ has implications for Alzheimer disease, and it has been shown that oxidation of Met-35 significantly inhibits aggregation in vitro. In this study, the aggregational properties of Aβ-(1–40) before and after Met-35 oxidation were investigated using electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry. The results show that Aβ-(1–40)Met-35(O) trimer and tetramer formation is significantly attenuated as compared with Aβ-(1–40). This suggests that oxidation of Met-35 inhibits a conformational switch in Aβ-(1–40) necessary for trimer but not dimer formation. Random incorporation of Aβ-(1–40) and Aβ-(1–40)Met-35(O) in homo- and heterooligomers could also be observed. This is the first report of an early rate-limiting step in Aβ-(1–40) aggregation. Slowing of the fibrillization process at this early step is likely to support prolonged solubility and clearance of Aβ from brain and may reduce disease progression.

  • 146.
    Palmblad, Magnus
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Materials Science. Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Wetterhall, Magnus
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Markides, Karin E
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Håkansson, Per
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Bergquist, Jonas
    Uppsala University, Disciplinary Domain of Science and Technology, Chemistry, Department of Chemistry, Analytical Chemistry.
    Analysis of Enzymatically Digested Proteins and Protein Mixtures using a 9.4 Tesla Fourier Transform Ion Cyclotron Resonance Mass Spectrometer2000In: Rapid Communications in Mass Spectrometry, ISSN 0951-4198, E-ISSN 1097-0231, Vol. 14, no 12, p. 1029-1034Article in journal (Refereed)
    Abstract [en]

    A commercially available 9.4 Tesla Fourier transform ion cyclotron resonance (FTICR) mass spectrometer was applied in the analysis of tryptic digests of protein mixtures without any separation. First, the method was demonstrated on a mixture of tryptic digests of equine cytochrome c, equine myoglobin and bovine serum albumin. The same method was then applied to human plasma from a healthy blood donor. Computer programs were employed to simplify analysis of the complex spectra. The 2745 peaks in the human plasma electrospray ionization FTICR spectrum could be reduced to 1165 isotopic clusters and 669 unique masses. Out of these, 82 masses matched tryptic fragments of serum albumin with mass measurement errors less than 10 ppm, covering 93% of the sequence. Another 16 masses were assigned to tryptic fragments of transferrin, covering 41% of the sequence on the 10 ppm mass measurement error level (14 within 2 ppm). The mass measurement errors were approximately normal distributed with a standard deviation of 1.7 ppm. This demonstrates the feasibility of combining the ultra-high mass resolving power and accuracy of FTICR mass spectrometry with automated computer analysis for investigating complex biological matrices.

  • 147.
    Patriksson, Alexandra
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Adams, Christopher
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. BMMS.
    Kjeldsen, Frank
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. BMMS.
    Raber, Johan
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    van der Spoel, David
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Cell and Molecular Biology.
    Zubarev, Roman
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics. BMMS.
    Prediction of N-Ca Bond Cleavage Frequencies in Electron Capture Dissociation of Trp-cage Dications by Force-field Molecular Dynamics Simulations2006In: Int. J. Mass Spectrom., Vol. 248, p. 124-135Article in journal (Refereed)
  • 148.
    Persson, Susanne
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. jonfysik.
    Alfimov, Vasily
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. Jonfysik.
    Aldahan, Ala
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. ELD.
    Possnert, Göran
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences. Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Technology, Department of Engineering Sciences, Ion Physics. Earth Sciences, Department of Earth Sciences, Environment and Landscape Dynamics. jonfysik.
    129I variability in precipitation over Europe2005In: 10th International conference on accelerator mass spectrometry, Berkeley, 2005, p. 65-Conference paper (Refereed)
  • 149.
    Petersson, Per
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Bergsåker, Henric
    Hallén, Anders
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Mapping of hydrogen isotopes with a scanning nuclear microprobe2008In: Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms, ISSN 0168-583X, E-ISSN 1872-9584, Vol. 266, no 10, p. 2429-2432Article in journal (Refereed)
    Abstract [en]

    Elastic recoil detection analysis using heavy ions with a scanning nuclear microprobe was applied to determine the content of hydrogen isotopes in carbon material facing fusion plasma in the JET fusion reactor. The hydrogen and deuterium concentrations in re-deposited material were obtained by mapping a cross sectional cut of a wall sample. De-trapping and hydrogen release caused by the primary ion beam were investigated. For both the deuterium and hydrogen concentration a drop of similar to 75% was observed from an extrapolated initial value to a final steady state region. A procedure was used to determine the initial concentration. In this way a mapping of the initial deuterium concentration could be obtained.

  • 150.
    Petersson, Per
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Jensen, Jens
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Hallén, Anders
    Department of Microelectronics and IT, Royal Institute of Technology, Sweden .
    Possnert, Göran
    Uppsala University, Disciplinary Domain of Science and Technology, Technology, Department of Engineering Sciences, Ion Physics.
    Measurement of hydrogen isotopes by nuclear microprobe2008In: Journal of Physics, Conference Series, ISSN 1742-6588, E-ISSN 1742-6596, Vol. 100, no 6, p. 062029-Article in journal (Refereed)
12345 101 - 150 of 247
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