| 1. |
- Gorshkov, A.V., et al.
(författare)
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Liquid Chromatography at Critical Conditions : Comprehensive approach to sequence-dependent retention time prediction
- 2006
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Ingår i: Analytical Chemistry. - : American Chemical Society (ACS). - 0003-2700 .- 1520-6882. ; 78:22, s. 7770-7777
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Tidskriftsartikel (refereegranskat)abstract
- An approach to sequence-dependent retention time prediction of peptides based on the concept of liquid chromatography at critical conditions (LCCC) is presented. Within the LCCC approach applied to biopolymers (BioLCCC), the specific retention time corresponds to a particular sequence. In combination with mass spectrometry, this approach provides an efficient tool to solve problems wherein the protein sequencing is essential. In this work, we present a theoretical background of the BioLCCC concept and demonstrate experimentally its feasibility for sequence-dependent LC retention time prediction for peptides. BioLCCC model is based on three notions: ( a) a random walk model for a macromolecule chain; (b) an entropy and energy compensation for the macromolecules within the adsorbent pore; and ( c) a set of phenomenological parameters for the effective interaction energies of interactions between the amino acid residues and the adsorbent surface. In this work, the phenomenological parameters have been obtained for C-18 reversed-phase HPLC. Note, that contrary to alternative additive models for retention time prediction based on summation of the so-called "retention coefficients", the BioLCCC approach takes into account the location of amino acids within the primary structure of a peptide and, thus, allows the identification of the peptides having the same composition of amino acids but differing by their arrangement. As a result, this new approach allows prediction of retention time for any possible amino acid sequence in particular HPLC experiments. In addition, the BioLCCC model lacks of main drawbacks of additive approaches that predict retention time for sequences of limited chain lengths and provide information about amino acid composition only. The proposed BioLCCC approach was characterized experimentally using LTQ FT LC-MS and LC-MS/MS data obtained earlier for Escherichia coli. The HPLC system calibration was performed using peptide retention standards. The results received show a linear correlation between predicted and experimental retention times, with a correlation coefficient, R-2, of 0.97 for a peptide standard mixture and 0.9 for E. coli data, respectively, with the standard error below 1 min. The work presents the first description of a BioLCCC approach for high-throughput peptide characterization and preliminary results of its feasibility tests.
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| 2. |
- Chudoba, V., et al.
(författare)
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Detailed Study of External Correlations in the Low-Energy Spectrum of Beryllium-6
- 2019
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Ingår i: Bulletin of the Russian Academy of Sciences: Physics. - 1062-8738 .- 1934-9432. ; 83:4, s. 392-398
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Tidskriftsartikel (refereegranskat)abstract
- Three-body continuum p-p-α for the charge exchange reaction 1H(6Li,6Be)n is studied in detail. The data are obtained with a high volume of statistics (approximately 4.7 million events), making it possible to analyze three-particle correlations. Detailed information about the structure of 6Ве and the reaction is obtained as a result.
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| 3. |
- Chudoba, V., et al.
(författare)
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Three-body correlations in direct reactions: Example of Be 6 populated in the (p,n) reaction
- 2018
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Ingår i: Physical Review C. - 2469-9993 .- 2469-9985. ; 98:5
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Tidskriftsartikel (refereegranskat)abstract
- The Be6 continuum states were populated in the charge-exchange reaction H1(Li6,Be6)n collecting very high statistics data (∼5×106 events) on the three-body α+p+p correlations. The Be6 excitation energy region below ∼3MeV is considered, where the data are dominated by contributions from the 0+ and 2+ states. It is demonstrated how the high-statistics few-body correlation data can be used to extract detailed information on the reaction mechanism. Such a derivation is based on the fact that highly spin-aligned states are typically populated in the direct reactions.
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| 4. |
- Fomichev, A. S., et al.
(författare)
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Isovector soft dipole mode in Be-6
- 2012
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Ingår i: Physics Letters, Section B: Nuclear, Elementary Particle and High-Energy Physics. - : Elsevier BV. - 0370-2693. ; 708:1-2, s. 6-13
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Tidskriftsartikel (refereegranskat)abstract
- By using the H-1(Li-6,Be-6)n charge-exchange reaction, population of continuum states in Be-6 was observed up to E-T = 16 MeV, E-T being the Be-6 energy above its three-body decay threshold. In kinematically complete measurements performed by detecting alpha + p + p coincidences, an E-T spectrum of high statistics was obtained, containing approximately similar to 5 x 10(6) events. The spectrum provides detailed correlation information about the well-known 0(+) ground state of Be-6 at E-T = 1.37 MeV and its 2(+) state at E-T = 3.05 MeV. Moreover, a broad structure extending from 4 to 16 MeV was observed. It contains negative parity states populated by Delta L = 1 angular momentum transfer without other significant contributions. This structure can be interpreted as a novel phenomenon, i.e. the isovector soft dipole mode associated with the Li-6 ground state. The population of this mode in the charge-exchange reaction is a dominant phenomenon for this reaction, being responsible for about 60% of the cross-section obtained in the measured energy range.
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| 5. |
- Fomichev, A. S., et al.
(författare)
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Lifetime of 26S and a Limit for its 2p Decay Energy
- 2011
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Ingår i: International Journal of Modern Physics E. - : World Scientific Pub Co Pte Lt. - 0218-3013 .- 1793-6608. ; 20:6, s. 1491-1508
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Tidskriftsartikel (refereegranskat)abstract
- The unknown isotope (26)S, expected to decay by two-proton (2p) emission, was studied theoretically and searched experimentally. The structure of this nucleus was examined within the relativistic mean field (RMF) approach. A method for taking into account the many-body structure in the three-body decay calculations was developed. The results of the RMF calculations were used as an input for the three-cluster decay model optimized for the study of a possible 2p decay branch of this nucleus. The experimental search for (26)S was performed by fragmentation of a 50.3 A MeV (32)S beam. No events of a particles table (26)S or (25)P (a presumably proton-unstable subsystem of (26)S) were observed. Based on the obtained production systematics, an upper half-life limit of T(1/2) 640 keV for (26)S. Analogous limits for (25)P are found as T(1/2) 110 keV. In the case that the one-proton emission is the main branch of the (26)S decay, a limit Q(2p) > 230 keV would follow for this nucleus. According to these limits, it is likely that (26)S resides in the picosecond life time range
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| 6. |
- Fomichev, A. S., et al.
(författare)
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Long range plan with radioactive beams at Dubna
- 2010
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Ingår i: 3rd International Conference on Current Problems in Nuclear Physics and Atomic Energy, NPAE 2010; Kyiv; Ukraine; 7 June 2010 through 12 June 2010. ; , s. 64-69
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Konferensbidrag (refereegranskat)abstract
- A program for upgrade of existing radioactive ion beams facilities at Flerov Laboratory of Nuclear Reactions, JINR Dubna is presented. A project of a new in-flight fragment separator ACCULINNA-2 is proposed. It is expected the new instrument will be more universal and powerful than the existing nowadays. The beam intensity should be increased by factor 10-15, its optical quality greatly improved and the range of the accessible secondary radioactive beams broadened up to Z∼20. Main ion-optical characteristics, operating principles and a tentative plan for the project realization are included. An extensive research program based on local experiments made so far and international proposals for these equipments is discussed.
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| 7. |
- Fomichev, A. S., et al.
(författare)
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Status of the ACCULINNA-2 project at FLNR
- 2012
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Ingår i: Journal of Physics: Conference Series. - : IOP Publishing. - 1742-6588 .- 1742-6596. ; 337:1, s. Art. no. 012025-
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Konferensbidrag (refereegranskat)abstract
- The project of a new and more powerful in-flight fragment separator ACCULINNA-2 at U-400M cyclotron in FLNR, JINR planned to build in addition to the existing separator ACCULINNA is presented. The new separator will provide high intensity RIBs in the lowest energy range (5÷50 MeV/nucleon) which is attainable for in-flight separators. The possibilities for the astrophysics studies at the proposed device are presented. ACCULINNA-2 separator is planned to be constructed in the years 2010-2015. The current status of the project is reported.
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| 8. |
- Goloborodko, Anton A., et al.
(författare)
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Empirical approach to false discovery rate estimation in shotgun proteomics
- 2010
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Ingår i: Rapid Communications in Mass Spectrometry. - : Wiley. - 0951-4198 .- 1097-0231. ; 24:4, s. 454-462
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Tidskriftsartikel (refereegranskat)abstract
- Estimation of false discovery rate (FDR) for identified peptides is an important step in large-scale proteomic studies. We introduced an empirical approach to the problem that is based on the FDR-like functions of sets of peptide spectral matches (PSMs). These functions have close values for equal-sized sets with the same FDR and depend monotonically on the FDR of a set. We have found three of them, based on three complementary sources of data: chromatography, mass spectrometry, and sequences of identified peptides. Using a calibration on a set of putative correct PSMs these functions were converted into the FDR scale. The approach was tested on a set of similar to 2800 PSMs obtained from rat kidney tissue. The estimates based on all three data sources were rather consistent with each other as well as with one made using the target-decoy strategy.
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| 9. |
- Krupko, S. A., et al.
(författare)
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The status of new fragment separator ACCULINNA-2 project and the first day experiments
- 2014
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Ingår i: EPJ Web of Conferences. - : EDP Sciences. - 2101-6275 .- 2100-014X. ; 66
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Konferensbidrag (refereegranskat)abstract
- The new facility fragment separator ACCULINNA-2 will be put into operation at the beginning of 2015 in FLNR JINR. The new separator is destined to add considerably to the studies of drip-line nuclei performed with the use of variety of direct reactions known to be distinctive to the 15 - 50 MeV/amu exotic secondary RIBs. Intense beams provided by the U-400M cyclotron will ensure the achievement of this objective. In addition to the RIB separation accomplished by means of the dipole-wedge-dipole selection, the addition of a zero-degree dipole magnet setup is foreseen. A long (13 m) straight section will provide precise time-of-flight measurements. © Owned by the authors, published by EDP Sciences, 2014.
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| 10. |
- Antonov, A. N., et al.
(författare)
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The electron-ion scattering experiment ELISe at the International Facility for Antiproton and Ion Research (FAIR)-A conceptual design study
- 2011
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Ingår i: Nuclear Instruments and Methods in Physics Research, Section A: Accelerators, Spectrometers, Detectors and Associated Equipment. - : Elsevier BV. - 0168-9002 .- 0167-5087. ; 637:1, s. 60-76
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Tidskriftsartikel (refereegranskat)abstract
- The electron-ion scattering experiment ELISe is part of the installations envisaged at the new experimental storage ring at the International Facility for Antiproton and Ion Research (FAIR) in Darmstadt, Germany. It offers an unique opportunity to use electrons as probe in investigations of the structure of exotic nuclei. The conceptual design and the scientific challenges of ELISe are presented. (C) 2011 Elsevier B.V. All rights reserved.
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