| 1. |
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| 2. |
- Beal, Jacob, et al.
(författare)
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Robust estimation of bacterial cell count from optical density
- 2020
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Ingår i: Communications Biology. - : Springer Science and Business Media LLC. - 2399-3642. ; 3:1
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Tidskriftsartikel (refereegranskat)abstract
- Optical density (OD) is widely used to estimate the density of cells in liquid culture, but cannot be compared between instruments without a standardized calibration protocol and is challenging to relate to actual cell count. We address this with an interlaboratory study comparing three simple, low-cost, and highly accessible OD calibration protocols across 244 laboratories, applied to eight strains of constitutive GFP-expressing E. coli. Based on our results, we recommend calibrating OD to estimated cell count using serial dilution of silica microspheres, which produces highly precise calibration (95.5% of residuals <1.2-fold), is easily assessed for quality control, also assesses instrument effective linear range, and can be combined with fluorescence calibration to obtain units of Molecules of Equivalent Fluorescein (MEFL) per cell, allowing direct comparison and data fusion with flow cytometry measurements: in our study, fluorescence per cell measurements showed only a 1.07-fold mean difference between plate reader and flow cytometry data.
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| 3. |
- Klionsky, Daniel J., et al.
(författare)
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Guidelines for the use and interpretation of assays for monitoring autophagy
- 2012
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Ingår i: Autophagy. - : Informa UK Limited. - 1554-8635 .- 1554-8627. ; 8:4, s. 445-544
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Forskningsöversikt (refereegranskat)abstract
- In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field.
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| 4. |
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- 2019
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Tidskriftsartikel (refereegranskat)
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| 5. |
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| 6. |
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| 7. |
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| 8. |
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| 9. |
- Ablikim, M., et al.
(författare)
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Amplitude analysis of D0 → K -π+π+π-
- 2017
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Ingår i: Physical Review D. - 2470-0010 .- 2470-0029. ; 95:7
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Tidskriftsartikel (refereegranskat)abstract
- We present an amplitude analysis of the decay D0 → K -π+π+π- based on a data sample of 2.93 fb−1 acquired by the BESIII detector at the ψ(3770) resonance. With a nearly background free sample of about 16000 events, we investigate the substructure of the decay and determine the relative fractions and the phases among the different intermediate processes. Our amplitude model includes the two-body decays D0 → ¯K*0ρ0, D0 → K−a+1(1260) and D0 → K−1(1270)π+, the three-body decays D0 →¯K*0π+π− and D0 → K−π+ρ0, as well as the four-body nonresonant decay D0 → K−π+π+π−. The dominant intermediate process is D0 → K−a+1(1260), accounting for a fit fraction of 54.6%.
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| 10. |
- Ablikim, M., et al.
(författare)
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Amplitude analysis of the pi(0)pi(0) system produced in radiative J/psi decays
- 2015
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 92:5
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Tidskriftsartikel (refereegranskat)abstract
- An amplitude analysis of the pi(0)pi(0) system produced in radiative J/psi decays is presented. In particular, a piecewise function that describes the dynamics of the pi(0)pi(0) system is determined as a function of M pi(0)pi(0) from an analysis of the (1.311 +/- 0.011) x 10(9) J/psi decays collected by the BESIII detector. The goal of this analysis is to provide a description of the scalar and tensor components of the pi(0)pi(0) system while making minimal assumptions about the properties or number of poles in the amplitude. Such a model-independent description allows one to integrate these results with other related results from complementary reactions in the development of phenomenological models, which can then be used to directly fit experimental data to obtain parameters of interest. The branching fraction of J/psi -> pi(0)pi(0) is determined to be (1.15 +/- 0.05) x 10(-3), where the uncertainty is systematic only and the statistical uncertainty is negligible.
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| 11. |
- Ablikim, M., et al.
(författare)
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An improved limit for Gamma(ee) of X(3872) and Gamma(ee) measurement of psi(3686)
- 2015
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Ingår i: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 749, s. 414-420
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Tidskriftsartikel (refereegranskat)abstract
- Using the data sets taken at center-of-mass energies above 4 GeV by the BESIII detector at the BEPCII storage ring, we search for the reaction e(+)e(-) -> gamma(ISR) X(3872) -> gamma(ISR)pi(+)pi(-) J/psi via the Initial State Radiation technique. The production of a resonance with quantum numbers J(PC) = 1(++) such as the X(3872) via single photon e(+)e(-) annihilation is forbidden, but is allowed by a next-to-leading order box diagram. We do not observe a significant signal of X(3872), and therefore give an upper limit for the electronic width times the branching fraction Gamma B-X(3872)(ee)(X(3872) -> pi(+)pi(-) J/psi) < 0.13 eVat the 90% confidence level. This measurement improves upon existing limits by a factor of 46. Using the same final state, we also measure the electronic width of the psi(3686) to be Gamma(psi)(ee)(3686) ee = 2213 +/- 18(stat) +/- 99(sys) eV.
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| 12. |
- Ablikim, M., et al.
(författare)
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Confirmation of a charged charmoniumlike state Z(c)(3885)(-/+) in e(+)e(-) -> pi(+/-) (D(D)over-bar*)(-/+) with double D tag
- 2015
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 92:9
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Tidskriftsartikel (refereegranskat)abstract
- We present a study of the process e(+)e(-) -> pi(+/-) (D (D) over bar*)(-/+) using data samples of 1092 pb(-1) at root s = 4.23 GeV and 826 pb(-1) at root s = 4.26 GeV collected with the BESIII detector at the BEPCII storage ring. With full reconstruction of the D meson pair and the bachelor pi(+) in the final state, we confirm the existence of the charged structure Z(c) (3885)(-/+) in the (D (D) over bar*)(-/+) system in the two isospin processes e(+)e(-) -> pi(+DD)-D-0*(-) and e(+)e(-) -> pi+D-D*(0). By performing a simultaneous fit, the statistical significance of Zc(3885)(-/+) signal is determined to be greater than 10 sigma, and its pole mass and width are measured to be M-pole = (3881.7 +/- 1.6(stat) +/- 1.6(syst)) MeV/c(2) and Gamma(pole) = (26.6 +/- 2.0(stat) +/- 2.1(syst)) MeV, respectively. The Born cross section times the (D (D) over bar*)(-/+) branching fraction (sigma(e(+)e(-) -> pi(+/-)Z(c)(3885)(-/+)) x Br(Z(c)(3885)(-/+) -> (D (D) over bar*)(-/+) )) is measured to be (141.6 +/- 7.9(stat) +/- 12.3(syst)) pb at root s = 4.23 GeV and (108.4 +/- 6.9(stat) +/- 8.8(syst)) pb at root s = 4.26 GeV. The polar angular distribution of the pi(+) - Z(c)(3885)(-/+) system is consistent with the expectation of a quantum number assignment of J(P) = 1(+) for Z(c)(3885)(-/+).
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| 13. |
- Ablikim, M., et al.
(författare)
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Dark photon search in the mass range between 1.5 and 3.4 GeV/c
- 2017
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Ingår i: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 774, s. 252-257
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Tidskriftsartikel (refereegranskat)abstract
- Using a data set of 2.93 fb taken at a center-of-mass energy root s = 3.773 GeV with the BESIII detector at the BEPCII collider, we perform a search for an extra U(1) gauge boson, also denoted as a dark photon. We examine the initial state radiation reactions e(+)e(-) -> e(+)e(-) gamma(ISR) and e(+)e(-) -> mu(+)mu(-) gamma(ISR) for this search, where the dark photon would appear as an enhancement in the invariant mass distribution of the leptonic pairs. We observe no obvious enhancement in the mass range between 1.5 and 3.4 GeV/c(2) and set a 90% confidence level upper limit on the mixing strength of the dark photon and the Standard Model photon. We obtain a competitive limit in the tested mass range.
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| 14. |
- Ablikim, M., et al.
(författare)
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Determination of the Spin and Parity of the Z(c)(3900)
- 2017
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Ingår i: Physical Review Letters. - : AMER PHYSICAL SOC. - 0031-9007 .- 1079-7114. ; 119:7
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Tidskriftsartikel (refereegranskat)abstract
- The spin and parity of the Z(c)(3900)(+/-) state are determined to be J(P) = 1(+) with a statistical significance larger than 7 sigma over other quantum numbers in a partial wave analysis of the process e(+)e(-) -> pi(+)pi(-) J/psi We use a data sample of 1.92 fb(-1) accumulated at root s = 4.23 and 4.26 GeV with the BESIII experiment. When parametrizing the Z(c)(3900)(+/-) with a Flatte-like formula, we determine its pole mass M-pole = (3881.2 +/- 4.2(stat) +/- 52.7(syst)) MeV/c(2) and pole width Gamma(pole) = (51.8 +/- 4.6(stat) +/- 36.0(syst)) MeV. We also measure cross sections for the process e(+)e(-) -> Z(c)(3900)(+)pi(-) + c.c. -> J/psi pi(+)pi(-) and determine an upper limit at the 90% confidence level for the process e(+)e(-) -> Z(c)(4020)(+)pi(-) + c.c. -> J/psi pi(+)pi(-).
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| 15. |
- Ablikim, M., et al.
(författare)
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Evidence for e(+)e(-)->gamma chi c1,2 at center-of-mass energies from 4.009 to 4.360 GeV
- 2015
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Ingår i: Chinese Physics C. - : IOP Publishing. - 1674-1137 .- 2058-6132. ; 39:4
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Tidskriftsartikel (refereegranskat)abstract
- Using data samples collected at center-of-mass energies of root s=4.009, 4.230, 4.260, and 4.360 GeV with the BESIII detector operating at the BEPCII collider, we perform a search for the process e(+)e(-)->gamma chi(cJ) (J=0, 1, 2) and find evidence for e(+)e(-)->gamma chi(c1) and e(+)e(-)->gamma chi(c2) with statistical significances of 3.0 sigma and 3.4 sigma, respectively. The Born cross sections sigma(B)(e(+)e(-)->gamma chi(cJ)), as well as their upper limits at the 90% confidence level (C.L.) are determined at each center-of-mass energy.
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| 16. |
- Ablikim, M., et al.
(författare)
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Measurement of B(psi(3770) -> gamma chi(c1)) and search for psi(3770) -> gamma chi(c2)
- 2015
-
Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 91:9
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Tidskriftsartikel (refereegranskat)abstract
- We report a measurement of the branching fraction for psi(3770) -> gamma chi(c1) and search for the transition psi(3770) -> gamma chi(c2) based on 2.92 fb(-1) of e(+)e(-) data accumulated at root s = 3.773 GeV with the BESIII detector at the BEPCII collider. We measure B(psi(3770) -> gamma chi(c1)) = (2.48 +/- 0.15 +/- 0.23) x 10(-3), which is the most precise measurement to date. The upper limit on the branching fraction of psi(3770) -> gamma chi(c2) at a 90% confidence level is B(psi(3770) -> gamma chi(c2)) < 0.64 x 10(-3). The corresponding partial widths are Gamma(psi(3770) -> gamma chi(c1)) = (67.5 +/- 4.1 +/- 6.7)keV and Gamma(psi(3770) -> gamma chi(c2)) < 17.4 keV.
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| 17. |
- Ablikim, M., et al.
(författare)
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Measurement of higher-order multipole amplitudes in psi(3686) -> gamma chi(c1,2) with chi(c1,2) -> gamma J/psi and search for the transition eta(c)(2S) -> gamma J/psi
- 2017
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Ingår i: Physical Review D. - : AMER PHYSICAL SOC. - 2470-0010 .- 2470-0029. ; 95:7
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Tidskriftsartikel (refereegranskat)abstract
- Using 106 x 10(6) psi(3686) events collected with the BESIII detector, we measure multipole amplitudes for the decay psi(3686) ->; gamma chi(c1,2) -> gamma gamma J/psi beyond the dominant electric-dipole amplitudes. The normalized magnetic-quadrupole (M2) amplitude for psi(3686) -> gamma chi(c1,2) -> gamma gamma J/psi and the normalized electric-dipole amplitudes for psi(3686) -> gamma chi(c2) -> gamma J/psi and determined. The M2 amplitudes for psi(3686) -> gamma chi(c1) and ; chi(c1,2) -> gamma J/psi are found to differ significantly from zero and are consistent with theoretical predictions. We also obtain the ratios of M2 contributions of psi(3686) and J/psi decays to;2,chi(c1,2,) b(2)(1/)b(2)(2) = 1.35 +/- 0.72 and a(2)(1/)a(2)(2) = 0.617 +/- 0.083,,which agree well with theoretical expectations. By considering the multipole contributions of chi(c1,2), we measure the product branching fractions for the cascade decays psi(3686) -> gamma chi(c 0,1,2) -> gamma gamma J/psi and search for the process eta(c)(2s) -> gamma J/psi through psi(3686) -> gamma eta(c)(2s).The product branching fraction for psi(3686) -> gamma chi(c0) -> gamma gamma J/psi is 3 sigma larger than published measurements, while those of psi(3686) -> gamma chi(c1,2) -> gamma gamma J/psi are consistent. No significant signal for the decay psi(3686) -> gamma eta(c) (2s) -> gamma gamma J/psi is observed, and the upper limit of the product branching fraction at the 90% confidence level is determined.
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| 18. |
- Ablikim, M., et al.
(författare)
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Measurement of the branching fraction for psi(3686) -> omega K+K-
- 2014
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 89:11, s. 112006-
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Tidskriftsartikel (refereegranskat)abstract
- With 1.06 x 10(8) psi(3686) events collected with the BESIII detector, the branching fraction of psi(3686) -> omega K+K- is measured to be (1.54 +/- 0.04 +/- 0.11) x 10(-4). This is the most precise result to date, due to the largest psi(3686) sample, improved signal reconstruction efficiency, good simulation of the detector performance, and a more accurate knowledge of the continuum contribution. Using the branching fraction of J/psi -> omega K+K-, the ratio B(psi(3868) -> K+K-)/B(J/psi -> K+K-) is determined to be (18.4 +/- 3.7)%. This constitutes a significantly improved test of the 12% rule, with the uncertainty now dominated by the J/psi branching fraction.
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| 19. |
- Ablikim, M., et al.
(författare)
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Measurement of the branching fractions of D-s(+) -> eta ' X and D-s(+) -> eta 'rho(+) in e(+)e(-) -> Ds+Ds-
- 2015
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Ingår i: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 750, s. 466-474
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Tidskriftsartikel (refereegranskat)abstract
- We study D-s(+) decays to final states involving the eta' with a 482 pb(-1) data sample collected at root s = 4.009 GeV with the BESIII detector at the BEPCII collider. We measure the branching fractions B(D-s(+) -> eta'X) = (8.8 +/- 1.8 +/- 0.5)% and B(D-s(+) > eta'rho(+)) = (5.8 +/- 1.4 +/- 0.4)% where the first uncertainty is statistical and the second is systematic. In addition, we estimate an upper limit on the non-resonant branching ratio B(D-s(+) -> eta'pi(+)pi(0)) < 5.1% at the 90% confidence level. Our results are consistent with CLEO's recent measurements and help to resolve the disagreement between the theoretical prediction and CLEO's previous measurement of B(D-s(+) -> eta'rho(+)).
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| 20. |
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| 21. |
- Ablikim, M., et al.
(författare)
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Measurement of the leptonic decay width of J/psi using initial state radiation
- 2016
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Ingår i: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 761, s. 98-103
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Tidskriftsartikel (refereegranskat)abstract
- Using a data set of 2.93 fb(-1) taken at a center-of-mass energy of root s = 3.773 GeV with the BESIII detector at the BEPCII collider, we measure the process e(+) e(-) -> J/psi gamma -> mu(+)mu(-)gamma and determine the product of the branching fraction and the electronic width B-mu mu . Gamma(ee) = (333.4 +/- 2.5(stat) +/- 4.4(sys)) eV. Using the earlier-published BESIII result for B-mu mu = (5.973 +/- 0.007(stat) +/- 0.037(sys))%, we derive the J/psi electronic width Gamma(ee) = (5.58 +/- 0.05(stat) +/- 0.08(sys)) keV. (C) 2016 The Author(s). Published by Elsevier B.V.
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| 22. |
- Ablikim, M., et al.
(författare)
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Measurement of the matrix elements for the decays eta -> pi(+)pi(-)pi(0) and eta/eta ' -> pi(0)pi(0)pi(0)
- 2015
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 92:1
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Tidskriftsartikel (refereegranskat)abstract
- Based on a sample of 1.31 x 10(9) J/psi events collected with the BESIII detector at the BEPCII collider, Dalitz plot analyses of selected 79,625 eta -> pi(+)pi(-)pi(0) events, 33,908 eta -> pi(0)pi(0)pi(0) events, and 1,888 eta' -> pi(0)pi(0)pi(0) events are performed. The measured matrix elements of eta -> pi(+)pi(-)pi(0) are in reasonable agreement with previous measurements. The Dalitz plot slope parameters of eta -> pi(0)pi(0)pi(0) and eta' -> pi(0)pi(0)pi(0) are determined to be -0.055 +/- 0.014 +/- 0.004 and -0.640 +/- 0.046 +/- 0.047, respectively, where the first uncertainties are statistical and the second systematic. Both values are consistent with previous measurements, while the precision of the latter one is improved by a factor of 3. Final state interactions are found to have an important role in those decays.
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| 23. |
- Ablikim, M., et al.
(författare)
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Measurement of the proton form factor by studying e(+)e(-) -> p(p)over-tilde
- 2015
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 91:11
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Tidskriftsartikel (refereegranskat)abstract
- Using data samples collected with the BESIII detector at the BEPCII collider, we measure the Born cross section of e(+)e(-) -> p (p) over tilde at 12 center-of-mass energies from 2232.4 to 3671.0 MeV. The corresponding effective electromagnetic form factor of the proton is deduced under the assumption that the electric and magnetic form factors are equal (vertical bar G(E)vertical bar = vertical bar G(M)vertical bar). In addition, the ratio of electric to magnetic form factors, vertical bar G(E)/G(M)vertical bar, and vertical bar G(M)vertical bar are extracted by fitting the polar angle distribution of the proton for the data samples with larger statistics, namely at root s = 2232.4 and 2400.0 MeV and a combined sample at root s = 3050.0, 3060.0 and 3080.0 MeV, respectively. The measured cross sections are in agreement with recent results from BABAR, improving the overall uncertainty by about 30%. The vertical bar G(E)/G(M)vertical bar ratios are close to unity and consistent with BABAR results in the same q(2) region, which indicates the data are consistent with the assumption that vertical bar G(E)vertical bar = vertical bar G(M)vertical bar within uncertainties.
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| 24. |
- Ablikim, M., et al.
(författare)
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Measurement of y(CP) in D-0-(D)over-bar(0) oscillation using quantum correlations in e(+)e(-) -> D-0(D)over-bar(0) at root s=3.773 GeV
- 2015
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Ingår i: Physics Letters B. - : Elsevier BV. - 0370-2693 .- 1873-2445. ; 744, s. 339-346
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Tidskriftsartikel (refereegranskat)abstract
- We report a measurement of the parameter y(CP) in D-0-(D) over bar (0) oscillations performed by taking advantage of quantum coherence between pairs of D-0(D) over bar (0) mesons produced in e(+)e(-) annihilations near threshold. In this work, doubly-tagged D-0(D) over bar (0) events, where one D decays to a CP eigenstate and the other D decays in a semileptonic mode, are reconstructed using a data sample of 2.92 fb(-1) collected with the BESIII detector at the center-of-mass energy of root s = 3.773 GeV. We obtain y(CP) = (-2.0 +/- 1.3 +/- 0.7)%, where the first uncertainty is statistical and the second is systematic. This result is compatible with the current world average.
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| 25. |
- Ablikim, M., et al.
(författare)
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Measurements of psi(3686) -> K-Lambda(Xi)over-bar(+) + c.c. and psi(3686) -> gamma K-Lambda(Xi)over-bar(+) + c.c.
- 2015
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 91:9
-
Tidskriftsartikel (refereegranskat)abstract
- Using a sample of 1.06 x 10(8) psi(3686) events produced in e(+)e(-) collisions at root s = 3.686 GeV and collected with the BESIII detector at the BEPCII collider, we present studies of the decays psi(3686) -> K-Lambda(Xi) over bar (+) + c.c. and psi(3686) -> gamma K-Lambda(Xi) over bar (+) + c.c. We observe two hyperons, Xi(1690)(-) and Xi(1820)(-), in the K-Lambda invariant mass distribution in the decay psi(3686) -> K-Lambda(Xi) over bar (+) + c.c. with significances of 4.9 sigma and 6.2 sigma, respectively. The branching fractions of psi(3686) -> K-Lambda(Xi) over bar (+) + c.c., psi(3686) -> K-Sigma(0)(Xi) over bar (+) + c.c, psi(3686) -> gamma chi cJ -> gamma K-Lambda(Xi) over bar (+) + c.c (J = 0, 1, 2), and psi(3686) -> Xi(1690/1820)(-)(Xi) over bar (+) + c.c with sub-sequent decay Xi(1690/1820)(-) -> K-Lambda are measured for the first time.
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