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- Kawahara, R., et al.
(författare)
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Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis
- 2021
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Ingår i: Nature Methods. - : Springer Science and Business Media LLC. - 1548-7091 .- 1548-7105. ; 18, s. 1304-1316
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Tidskriftsartikel (refereegranskat)abstract
- Glycoproteomics is a powerful yet analytically challenging research tool. Software packages aiding the interpretation of complex glycopeptide tandem mass spectra have appeared, but their relative performance remains untested. Conducted through the HUPO Human Glycoproteomics Initiative, this community study, comprising both developers and users of glycoproteomics software, evaluates solutions for system-wide glycopeptide analysis. The same mass spectrometrybased glycoproteomics datasets from human serum were shared with participants and the relative team performance for N- and O-glycopeptide data analysis was comprehensively established by orthogonal performance tests. Although the results were variable, several high-performance glycoproteomics informatics strategies were identified. Deep analysis of the data revealed key performance-associated search parameters and led to recommendations for improved 'high-coverage' and 'high-accuracy' glycoproteomics search solutions. This study concludes that diverse software packages for comprehensive glycopeptide data analysis exist, points to several high-performance search strategies and specifies key variables that will guide future software developments and assist informatics decision-making in glycoproteomics. This analysis presents the results of a community-based evaluation of existing software for large-scale glycopeptide data analysis.
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- Covington, A. M., et al.
(författare)
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Inner-shell photodetachment from the K- ion
- 2007
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Ingår i: Journal of Physics B-Atomic Molecular and Optical Physics. - : IOP Publishing. - 0953-4075 .- 1361-6455. ; 40:5, s. 935-942
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Tidskriftsartikel (refereegranskat)
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- Andersson, P., et al.
(författare)
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Selective detection of C-13 by laser photodetachment mass spectrometry
- 2008
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Ingår i: Nuclear Instruments and Methods in Physics Research Section B. - : Elsevier BV. - 0168-583X .- 1872-9584. ; 266:16, s. 3667-3673
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Tidskriftsartikel (refereegranskat)abstract
- In this paper, we demonstrate how laser photodetachment mass spectrometry (LPMS) can be used to selectively detect C-13(-) ions in the presence of C-12(-) ions in a low energy ion beam. An isotopically enriched beam of carbon ions consisting of equal amounts of C-13(-) and 12C- ions was extracted from an ion source. The ions interacted with a laser beam in a collinear geometry over a distance of 70 cm. Residual atoms produced in the photodetachment process were detected in a neutral particle detector placed downstream of the collinear interaction region. By making use of the Doppler effect we were able to selectively photodetach C-13(-) ions. The number of detected C-13 atoms was 13 times larger than the number of detected C-12 atoms. The population of the excited, weakly bound D-2 excited state of the C- ion was depleted by the use of a second laser. This significantly reduced the background accompanying the signal arising from the photodetachment of the S-4 ground state C- ion. Different applications of the LPMS method will be discussed in the paper.
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- Andersson, Pontus, 1971, et al.
(författare)
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Radiative lifetimes of metastable states of negative ions
- 2006
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Ingår i: Physical Review A. Atomic, Molecular, and Optical Physics. - 1050-2947 .- 1094-1622 .- 2469-9926 .- 2469-9934. ; 73, s. 032705-
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Tidskriftsartikel (refereegranskat)abstract
- We present a technique for measuring the radiative lifetimes of metastable states of negative ions that involves the use of a heavy-ion storage ring. The method has been applied to investigate the radiative decay of the np(3) P-2(1/2) levels of Te-(n=5) and Se-(n=4) and the 3p(3) D-2 state of Si- for which the J=3/2 and 5/2 levels were unresolved. All of these states are metastable and decay primarily by emission of E2 and M1 radiation. Multi Configuration Dirac-Hartree-Fock calculations of rates for the transitions in Te- and Se- yielded lifetimes of 0.45 s and 4.7 s, respectively. The measured values agree well with these predicted values. In the case of the D-2 state of Si-, however, our measurement was only able to set a lower limit on the lifetime. The upper limit of the lifetime that can be measured with our apparatus is set by how long the ions can be stored in the ring, a limit determined by the rate of collisional detachment. Our lower limit of 1 min for the lifetime of the D-2 state is consistent with both the calculated lifetimes of 162 s for the D-2(3/2) level and 27.3 h for the D-2(5/2) level reported by O'Malley and Beck and 14.5 h and 12.5 h, respectively, from our Breit-Pauli calculations.
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- Collins, G F, et al.
(författare)
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Electron-impact fragmentation of Cl-2(-)
- 2005
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Ingår i: Physical Review A. Atomic, Molecular, and Optical Physics. - 1050-2947 .- 1094-1622. ; 72:4, s. 042708-
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Tidskriftsartikel (refereegranskat)abstract
- A merged beam technique has been used to investigate the fragmentation of the Cl-2(-) ion in collisions with electrons over an energy range of 0-200 eV. We have measured absolute cross sections for detachment, detachment plus dissociation and dissociation processes. Over the energy range studied, the dominant breakup mechanism is dissociation. Dissociation is relatively enhanced in the e(-)+Cl-2(-) collision system due to the suppression of the normally dominant detachment process, as a result of the large difference between the equilibrium internuclear distances of the Cl-2 and Cl-2(-) ground state potential curves. A prominent structure is observed just above the threshold in the Cl-+Cl+e(-) dissociation channel. It is proposed that the structure is a resonance associated with production and rapid decay of an excited state of the doubly charged Cl-2(-) ion. A plausible mechanism for production of the di-anionic state based on an excitation plus capture process is suggested.
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