| 1. |
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| 2. |
- Bergqvist, Jenny, et al.
(författare)
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Quantitative real-time PCR analysis and microarray-based RNA expression of HER2 in relation to outcome
- 2007
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Ingår i: Annals of Oncology. - : Elsevier BV. - 0923-7534 .- 1569-8041. ; 18:5, s. 845-850
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUND: Our aim was to use quantitative real-time PCR (Q-PCR) and RNA expression profiles (RNA-EPs) to investigate HER2 status in relation to outcome. PATIENTS AND METHODS: Cut-off levels for Q-PCR and RNA-EP were established in relation to immunohistochemistry (IHC) validated by FISH in a test set of frozen tissue samples from 40 primary breast cancers. The HER2 status was subsequently studied in another validation set of 306 tumors, where Q-PCR and RNA-EP results were compared with previously carried out IHC that we had validated by chromogenic in situ hybridization (CISH). RESULTS: Q-PCR and RNA-EP offered similar sensitivity (90% versus 77%), specificity (93% versus 95%), and negative (99% versus 98%) and positive (63% versus 61%) predictive values for HER2 determinations. Analyses of relapse-free survival (RFS) and overall survival on the basis of 5 and 10 years of follow-up indicated equivalent hazard ratios for all three techniques. In contrast to IHC/CISH, both Q-PCR and RNA-EP analyses of HER2 also gave statistically significant results regarding RFS and breast cancer-corrected survival after 10 years of follow-up. CONCLUSION: The use of RNA-EP and Q-PCR to analyze HER2 in frozen and formalin-fixed breast cancer samples may be an alternate approach to IHC in combination with FISH/CISH.
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| 3. |
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| 4. |
- Söderström, J., et al.
(författare)
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X-ray yield and selectively excited X-ray emission spectra of atenolol and nadolol
- 2005
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Ingår i: Journal of Electron Spectroscopy and Related Phenomena. - : Elsevier BV. - 0368-2048 .- 1873-2526. ; 144, s. 283-285
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Tidskriftsartikel (refereegranskat)abstract
- A pre-study in a project aimed at increasing the understanding of drug solubility by applying X-ray spectroscopy to substances in solid phases, in aqueous solution, and in gas-phase is presented. Influence of the molecular surrounding on the local electronic structure is reflected in X-ray yield fine structure, and in site-selectively excited X-ray emission spectra. Results for atenolol and nadolol in solid form are discussed.
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| 5. |
- Modin, A., et al.
(författare)
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Closed source experimental system for soft x-ray spectroscopy of radioactive materials
- 2008
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Ingår i: Review of Scientific Instruments. - : AIP Publishing. - 0034-6748 .- 1089-7623. ; 79:9, s. 093103-
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Tidskriftsartikel (refereegranskat)abstract
- An instrumental and experimental setup for soft x-ray spectroscopy meeting the requirements of a closed source for radioactivity is described. The system consists of a vacuum sealed cell containing the sample, mounted on a tubing system to ensure compatibility with most standard manipulators. The soft x rays penetrate a thin x-ray window separating the interior of the cell from the vacuum in the experimental chamber. Our first results for single crystal PuO2 confirm the feasibility of experiments using the setup. The results are consistent with results of first principles calculations and previously recorded spectra obtained using a standard open source setup. The results show that the closed source experimental system can be used to collect valuable experimental data from radioactive materials.
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| 6. |
- Agåker, Marcus, et al.
(författare)
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Novel instruments for ultra-soft X-ray emission spectroscopy
- 2009
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Ingår i: Nuclear Instruments and Methods in Physics Research Section A. - : Elsevier BV. - 0168-9002 .- 1872-9576. ; 601:1-2, s. 213-219
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Tidskriftsartikel (refereegranskat)abstract
- Two alternative instrument designs to the traditional Rowland grating spectrometer for high resolution ultra-soft X-ray spectroscopy are presented. The first instrument is a plane grating spectrometer using off-axis parabolic mirrors for collection and refocusing, and with a spatially resolving multichannel detector with delay line read-out. The instrument offers substantially higher performance in terms of resolution and sensitivity than traditional instruments. The second instrument is a Fourier transform spectrometer based on a grazing incidence Mach-Zehnder interferometer using wavefront dividing beamsplitters. The path length difference can be scanned over 0.1 mm, which corresponds to a resolution of 12 meV. (C) 2009 Elsevier B.V. All rights reserved.
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| 7. |
- Glover, C. J., et al.
(författare)
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Stationary and dispersive features in resonant inelastic soft X-ray scattering at the Ge 3p resonances
- 2009
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Ingår i: Journal of Electron Spectroscopy and Related Phenomena. - : Elsevier BV. - 0368-2048 .- 1873-2526. ; 173:2-3, s. 103-107
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Tidskriftsartikel (refereegranskat)abstract
- Resonant inelastic soft X-ray scattering at the 3p resonances in crystalline Ge is presented. Both stationary and dispersive features are observed in a wide energy range above as well as below the ionization limits. These observations are in agreement with theoretical predictions based on a two-step model where the initially excited electron has no influence on the emission step. Excess population of states in the conduction band is found, and discussed in terms of attosecond electron dynamics. (c) 2009 Elsevier B.V. All rights reserved.
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| 8. |
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| 9. |
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| 10. |
- Schiessling, J, et al.
(författare)
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Bulk and surface charge states of K3C60
- 2005
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Ingår i: Physical Review B (Condensed Matter and Materials Physics). - 1098-0121. ; 71:16
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Tidskriftsartikel (refereegranskat)abstract
- We detect a significant angle-dependence in the core level and valence line shapes of photoelectron spectra of single crystal K3C60. This allows the identification of bulk and surface components in the data, and allows us to explain the anomalous line shapes observed for this system. The states near the Fermi level are associated with the bulk of the sample. There is strong evidence of an insulating surface layer, which we ascribe to intermolecular electron correlations. These results simplify the interpretation of previous, apparently conflicting observations.
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| 11. |
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| 12. |
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| 13. |
- Såthe, C., et al.
(författare)
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Resonant LII;III x-ray raman scattering from HCl
- 2006
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Ingår i: Physical Review A. - 1050-2947 .- 1094-1622. ; 74:6, s. 062512-
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Tidskriftsartikel (refereegranskat)abstract
- We have studied the spectral features of Cl LII,III resonant x-ray Raman scattering of HCl molecules in gas phase both experimentally and theoretically. The theory, formulated in the intermediate-coupling scheme, takes into account the spin-orbital and molecular-field splittings in the Cl 2p shells, as well as the Coulomb interaction of the core hole with unoccupied molecular orbitals. Experiment and theory display nondispersive dissociative peaks formed by decay transitions in both molecular and dissociative regions. The molecular and atomic peaks collapse in a single narrow resonance because the dissociative potentials of core-excited and final states are parallel to each other along the whole pathway of the nuclear wave packet.
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| 14. |
- Brena, Barbara, et al.
(författare)
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Conformation dependence of electronic structures of poly(ethylene oxide)
- 2005
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Ingår i: Journal of Physical Chemistry B. - : American Chemical Society (ACS). - 1520-6106 .- 1520-5207. ; 109:16, s. 7907-7914
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Tidskriftsartikel (refereegranskat)abstract
- The electronic structure of pure poly(ethylene oxide) (PEO) for four different polymeric chain conformations has been studied by Hartree-Fock (HF) and density functional theory (DFT) through the analysis of their valence band photoelectron spectroscopy (VB-PES), X-ray emission spectroscopy (XES), and resonant inelastic X-ray scattering (RIXS). It is shown that the valence band of PEO presents specific conformation dependence, which can be used as a fingerprint of the polymeric structures. The calculated spectra have been compared with experimental results for PEO powder.
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| 15. |
- Duda, L.-C., et al.
(författare)
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Resonant inelastic X-ray scattering at the NiO O K-resonance: non-local charge-transfer and double singlet excitations
- 2007
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Ingår i: MAX-lab. - Lund : MAX-lab. ; , s. 270-271
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Bokkapitel (övrigt vetenskapligt/konstnärligt)abstract
- NiO is one of the prototypical compounds that has highlighted the importance of correlation effects in transition metal oxides. Core level spectroscopies bear evidence for the highly correlated nature of low energy excitations. For instance, the asymmetry of the Ni2p-line shape has been attributed to non-local charge transfer excitations and multi-site cluster calculations show that solidstate effects generally are appreciable for correlated materials, such as cuprates and high Tc-compounds.....
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| 16. |
- Forsberg, Johan, et al.
(författare)
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System for in situ studies of atmospheric corrosion of metal films using soft x-ray spectroscopy and quartz crystal microbalance
- 2007
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Ingår i: Review of Scientific Instruments. - : AIP Publishing. - 0034-6748 .- 1089-7623. ; 78:8
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Tidskriftsartikel (refereegranskat)abstract
- We present a versatile chamber (atmospheric corrosion cell) for soft x-ray absorption/emission spectroscopy of metal surfaces in a corrosive atmosphere allowing novel in situ electronic structure studies. Synchrotron x rays passing through a thin window separating the corrosion cell interior from a beamline vacuum chamber probe a metal film deposited on a quartz crystal microbalance (QCM) or on the inside of the window. We present some initial results on chloride induced corrosion of iron surfaces in humidified synthetic air. By simultaneous recording of QCM signal and soft x-ray emission from the corroding sample, correlation between mass changes and variations in spectral features is facilitated.
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| 17. |
- Guo, J. H., et al.
(författare)
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Polarization-dependent soft-x-ray absorption of a highly oriented ZnO microrod-array
- 2005
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Ingår i: Journal of Physics. - : IOP Publishing. - 0953-8984 .- 1361-648X. ; 17:1, s. 235-240
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Tidskriftsartikel (refereegranskat)abstract
- Polarization-dependent x-ray absorption measurements were performed on a crystalline ZnO three-dimensional array consisting of highly oriented microrods as well as on particulate thin film consisting of monodisperse spherical nanoparticles. Strong anisotropic effects have been observed for the highly oriented ZnO rods, unlike for the isotropic spherical ones. Full-potential calculations of orbital-resolved x-ray absorption of a ZnO wurtzite periodic crystal, including the Zn 3d as part of the valence states, shows a very good agreement with the experimental findings. Comprehensive fundamental knowledge of the electronic structure of ZnO is obtained by probing and demonstrating the orbital symmetry of oxygen and its contribution to the conduction band of this important II-VI semiconductor.
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| 18. |
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| 19. |
- Kvashnina, K.O., et al.
(författare)
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Electronic structure of complex copper systems probed by resonant inelastic X-ray scattering at Cu L3 edge
- 2009
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Ingår i: Physica. B, Condensed matter. - : Elsevier B.V.. - 0921-4526 .- 1873-2135. ; 404:20, s. 3559-3566
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Tidskriftsartikel (refereegranskat)abstract
- We have used X-ray absorption (XA) and resonant inelastic X-ray scattering (RIXS) spectroscopies to study a series of copper compounds, namely Cu2O, CuO, Cu(OH)2, CuCl2, Cu2S, CuSO4, malachite (Cu2(CO3)2(OH)2) and atacamite (CuCl2·3Cu(OH)2). Cu 2p XA spectra provide information about oxidation states. Divalent copper gives a single narrow line due to excitations into the empty 3d state, whereas monovalent copper gives a broad band at higher energy due to transitions to 4s states. Chemical shifts of the main line in the Cu2+ XA spectra of different compounds are observed but in some cases they are too small to make a clear distinction between the species. It is shown that RIXS at the Cu 2p edge has a great potential to distinguish between the species due to large differences in spectral shapes for the same energy of the incident photon beam. First evidence for the possibility of detecting chemical composition of copper compounds is presented and discussed in details.
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| 20. |
- Liu, H J, et al.
(författare)
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Electronic structure of cobalt nanocrystals suspended in liquid
- 2007
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Ingår i: Nano letters (Print). - : American Chemical Society (ACS). - 1530-6984 .- 1530-6992. ; 7:7, s. 1919-1922
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Tidskriftsartikel (refereegranskat)abstract
- The electronic structure of cobalt nanocrystals suspended in liquid as a function of size has been investigated using in situ X-ray absorptionand emission spectroscopy. A sharp absorption peak associated with the ligand molecules is found that increases in intensity upon reducingthe nanocrystal size. X-ray Raman features due to d−d and to charge-transfer excitations of ligand molecules are identified. The study revealsthe local symmetry of the surface of E-Co phase nanocrystals, which originates from a dynamic interaction between Co nanocrystals andsurfactant + solvent molecules.
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| 21. |
- Persson, Clas, et al.
(författare)
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X-ray absorption and emission spectroscopy of ZnO nanoparticle and highly oriented ZnO microrod arrays
- 2006
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Ingår i: Microelectronics Journal. - : Elsevier BV. - 0026-2692. ; 37:8, s. 686-689
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Tidskriftsartikel (refereegranskat)abstract
- The electronic structures of ZnO nanoparticles and microrod arrays are studied by 0 Is X-ray absorption spectroscopy (XAS) and O K alpha X-ray emission spectroscopy (XES). We show that the present LDA +U-SIC calculation approach is suitable to correct the LDA self-interaction error of the cation d-states. The atomic eigenstates of 3d in zinc and 2p in oxygen are energetically close, which induces strong Zn-3d-O-2p hybridization. This anomalous valence band cation-d-anion-p hybridization is affected when the localization of the Zn 3d-states is taken into account. Experimentally, the XES spectra show energy dependence in the spectral shape revealing selected excitations to the Zn 3d, 4s and 4p states, hybridized with 0 2p states. Strong anisotropic effects are observed for the highly oriented ZnO rods, but not for the isotropic spherical nanoparticles. The nanostructured ZnO has primarily bulk XAS and XES properties.
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| 22. |
- Shin, D. W., et al.
(författare)
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Size dependence of the electronic structure of copper nanoclusters in SiC matrix
- 2006
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Ingår i: Chemical Physics Letters. - : Elsevier BV. - 0009-2614 .- 1873-4448. ; 422:4-6, s. 543-546
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Tidskriftsartikel (refereegranskat)abstract
- We studied the size dependence of the electronic structure of nanocrystalline copper embedded in silicon carbide by means of soft Xray absorption spectroscopy. Changes in the local electronic states of copper nanoclusters, including the shift in binding energy and the reduction of s-p-d hybridization, occurred. The experimental result was compared with the ab initio self-consistent, real-space, multiple-scattering calculation. The calculation was in good agreement with the trend found in our experimental results. We concluded that the reduction of d-d interaction and the concomitant changes in s-p-d hybridization in copper nanoclusters arise due to the surface effect.
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| 23. |
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| 24. |
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| 25. |
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| 26. |
- Bucardo, F, et al.
(författare)
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Mutated G4P[8] rotavirus associated with a nationwide outbreak of gastroenteritis in Nicaragua in 2005
- 2007
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Ingår i: Journal of Clinical Microbiology. - 0095-1137 .- 1098-660X. ; 45:3, s. 990-997
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Tidskriftsartikel (refereegranskat)abstract
- During February and March 2005, one of the largest national recorded outbreaks of severe acute gastroenteritis occurred in Nicaragua, affecting ≥64,000 individuals and causing ≥56 deaths, predominantly in children under 5 years of age. Through a nationwide laboratory-based study, stool samples were collected and investigated for rotavirus. Of 108 stool samples examined, 72 (67%) were positive for rotavirus. While 69% (50/72) of the positive samples were found in children less than 2 years of age, 50% (6/12) of the adult samples were positive. A mutated G4P[8] strain was the most commonly recognized strain (85%), followed by mixed G strains (8%) and G9P[8] (7%) strains. Phylogenetic analysis of the VP7 gene revealed that the G4 strains belonged to the emerging lineage Ic and was distantly related to the ST3 and VA70 G4 strains. Secondary structure predictions of the VP7 G4 protein revealed an insert of an asparagine residue in position 76, which, combined with additional mutations, surprisingly modified two downstream β-sheets at amino acid positions 80 to 85 and 115 to 119. The 2005 G4P[8] strain compared to a G4P[8] strain from 2002 had a substitution of an asparagine residue for threonine (Asn→Thr) at position 96 within antigenic region A, thus eliminating a potential glycosylation site. The mutated G4 virus was introduced in Nicaragua after 2002 and probably emerged from Brazil, Argentina, or Uruguay. Copyright © 2007, American Society for Microbiology. All Rights Reserved.
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| 27. |
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| 28. |
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| 29. |
- Hilton, Emma N, et al.
(författare)
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Left-sided embryonic expression of the BCL-6 corepressor, BCOR, is required for vertebrate laterality determination.
- 2007
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Ingår i: Human Molecular Genetics. - : Oxford University Press (OUP). - 0964-6906 .- 1460-2083. ; 16:14, s. 1773-1782
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Tidskriftsartikel (refereegranskat)abstract
- Oculofaciocardiodental (OFCD) syndrome is an X-linked male lethal condition encompassing cardiac septal defects, as well as ocular and dental anomalies. The gene mutated in OFCD syndrome, the BCL-6 corepressor (BCOR), is part of a transcriptional repression complex whose transcriptional targets remain largely unknown. We reviewed cases of OFCD syndrome and identified patients exhibiting defective lateralization including dextrocardia, asplenia and intestinal malrotation, suggesting that BCOR is required in normal laterality determination. To study the function of BCOR, we used morpholino oligonucleotides (MOs) to knockdown expression of xtBcor in Xenopus tropicalis, thus creating an animal model for OFCD syndrome. The resulting tadpoles had cardiac and ocular features characteristic of OFCD syndrome. Reversed cardiac orientation and disorganized gut patterning were seen when MOs were injected into the left side of embryos, demonstrating a left-sided requirement for xtBcor in lateral determination in Xenopus. Ocular defects displayed no left-right bias and included anterior and posterior segment disorders such as microphthalmia and coloboma. Expression of xtPitx2c was shown to be downregulated when xtBcor was depleted. This identifies a pathway in which xtBcor is required for lateral specification, a process intrinsically linked to correct cardiac septal development.
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| 30. |
- Kjeldgaard, Lisbeth, et al.
(författare)
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Intramolecular vibronic dynamics in molecular solids: C60
- 2005
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Ingår i: Physical Review B (Condensed Matter and Materials Physics). - 1098-0121. ; 72:20
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Tidskriftsartikel (refereegranskat)abstract
- Vibronic coupling in solid C60 has been investigated with a combination of resonant photoemission spectroscopy (RPES) and resonant inelastic x-ray scattering (RIXS). Excitation as a function of energy within the lowest unoccupied molecular orbital resonance yielded strong oscillations in intensity and dispersion in RPES, and a strong inelastic component in RIXS. Reconciling these two observations establishes that vibronic coupling in this core hole excitation leads to predominantly inelastic scattering and localization of the excited vibrations on the molecule on a femtosecond time scale. The coupling extends throughout the widths of the frontier valence bands.
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| 31. |
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| 32. |
- Kvashnina, Kristina O., et al.
(författare)
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In situ X-ray absorption study of copper films in ground water solutions
- 2007
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Ingår i: Chemical Physics Letters. - : Elsevier BV. - 0009-2614 .- 1873-4448. ; 447:1-3, s. 54-57
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Tidskriftsartikel (refereegranskat)abstract
- This study illustrates how the damage from copper corrosion can be reduced by modifying the chemistry of the copper surface environment. The surface modification of oxidized copper films induced by chemical reaction with Cl− and in aqueous solutions was monitored by in situ X-ray absorption spectroscopy. The results show that corrosion of copper can be significantly reduced by adding even a small amount of sodium bicarbonate. The studied copper films corroded quickly in chloride solutions, whereas the same solution containing 1.1 mM prevented or slowed down the corrosion processes.
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| 33. |
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| 34. |
- Käämbre, Tanel, et al.
(författare)
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Bulk electronic structure of K3C60 as revealed by soft x-rays
- 2007
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Ingår i: Physical Review B. Condensed Matter and Materials Physics. - 1098-0121 .- 1550-235X. ; 75:19, s. 195432-
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Tidskriftsartikel (refereegranskat)abstract
- We present C 1s x- ray absorption, x- ray emission, and resonant inelastic x- ray scattering (RIXS ) spectra of single- phase crystalline K3C60. The comparison to valence- band photoelectron spectra from the same sample facilitates identification of the contribution from surface and bulk electronic states in the latter. Bulk- sensitive techniques show that the valence bands of K3C60 and pure C-60 are characterized by spectral features of similar width, in agreement with the predictions of band- structure calculations. Symmetry selectivity in the RIXS process allows us to assign peaks in the C 1s absorption spectrum, demonstrating a close correspondence with pure C-60 also in the conduction band. The symmetry selectivity is as pronounced in K3C60 as in pure C-60, indicating that the local C-60 symmetry is not appreciably affected by the K doping, either in the ground state or intermediate state, on the time scale of 6 fs.
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| 35. |
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| 37. |
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