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Records |
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Author  |
Ames, S.K.; Gardner, S.N.; Marti, J.M.; Slezak, T.R.; Gokhale, M.B.; Allen, J.E. |
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Title |
Using populations of human and microbial genomes for organism detection in metagenomes |
Type |
Journal Article |
| |
Year |
2015 |
Publication |
Genome Research |
Abbreviated Journal |
Genome Res. |
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| |
Volume |
25 |
Issue |
7 |
Pages |
1056-1067 |
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Keywords |
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Abstract |
Identifying causative disease agents in human patients from shotgun metagenomic sequencing (SMS) presents a powerful tool to apply when other targeted diagnostics fail. Numerous technical challenges remain, however, before SMS can move beyond the role of research tool. Accurately separating the known and unknown organism content remains difficult, particularly when SMS is applied as a last resort. The true amount of human DNA that remains in a sample after screening against the human reference genome and filtering nonbiological components left from library preparation has previously been underreported. In this study, we create the most comprehensive collection of microbial and reference-free human genetic variation available in a database optimized for efficient metagenomic search by extracting sequences from GenBank and the 1000 Genomes Project. The results reveal new human sequences found in individual Human Microbiome Project (HMP) samples. Individual samples contain up to 95% human sequence, and 4% of the individual HMP samples contain 10% or more human reads. Left unidentified, human reads can complicate and slow down further analysis and lead to inaccurately labeled microbial taxa and ultimately lead to privacy concerns as more human genome data is collected. |
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Address |
[Ames, Sasha K.; Gokhale, Maya B.] Lawrence Livermore Natl Lab, Ctr Appl Sci Comp, Livermore, CA 94550 USA, Email: allen99@llnl.gov |
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Cold Spring Harbor Lab Press, Publications Dept |
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English |
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Edition |
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ISSN |
1088-9051 |
ISBN |
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Expedition |
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Conference |
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Notes |
WOS:000357356900012 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
2295 |
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Author |
Amjad, M.S.; Bilokin, S.; Boronat, M.; Doublet, P.; Frisson, T.; Garcia Garcia, I.; Perello, M.; Poschl, R.; Richard, F.; Ros, E.; Rouene, J.; Ruiz-Femenia, P.; Vos, M. |
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Title |
A precise characterisation of the top quark electro-weak vertices at the ILC |
Type |
Journal Article |
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Year |
2015 |
Publication |
European Physical Journal C |
Abbreviated Journal |
Eur. Phys. J. C |
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Volume |
75 |
Issue |
10 |
Pages |
512 - 11pp |
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Keywords |
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Abstract |
Top quark production in the process e(+)e(-) -> t t at a future linear electron positron collider with polarised beams is a powerful tool to determine indirectly the scale of new physics. The presented study, based on a detailed simulation of the ILD detector concept, assumes a centre-of-mass energy of root s = 500GeV and a luminosity of L = 500 fb(-1) equally shared between the incoming beam polarisations of Pe-, Pe+ = +/- 0.8, -/+ 0.3. Events are selected in which the top pair decays semi-leptonically and the cross sections and the forward-backward asymmetries are determined. Based on these results, the vector, axial vector and tensorial CP conserving couplings are extracted separately for the photon and the Z(0) component. With the expected precision, a large number of models in which the top quark acts as a messenger to new physics can be distinguished with many standard deviations. This will dramatically improve expectations from e.g. the LHC for electro-weak couplings of the top quark. |
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Address |
[Amjad, M. S.; Bilokin, S.; Frisson, T.; Poschl, R.; Richard, F.; Rouene, J.] Ctr Sci Orsay, LAL, BP 34,Batiment 200, F-91898 Orsay, France, Email: poeschl@lal.in2p3.fr |
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Publisher |
Springer |
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English |
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Series Issue |
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ISSN |
1434-6044 |
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Expedition |
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Conference |
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Notes |
WOS:000379515400003 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
2766 |
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| Permanent link to this record |
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Author |
AMON and ANTARES Collaborations (Ayala Solares, H.A. et al); Barrios-Marti, J.; Coleiro, A.; Colomer, M.; Gozzini, R.; Hernandez-Rey, J.J.; Illuminati, G.; Khan-Chowdhury, N.R.; Lotze, M.; Thakore, T.; Zornoza, J.D.; Zuñiga, J. |
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Title |
A Search for Cosmic Neutrino and Gamma-Ray Emitting Transients in 7.3 yr of ANTARES and Fermi LAT Data |
Type |
Journal Article |
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Year |
2019 |
Publication |
Astrophysical Journal |
Abbreviated Journal |
Astrophys. J. |
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Volume |
886 |
Issue |
2 |
Pages |
98 - 8pp |
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Keywords |
BL Lacertae objects: general; cosmic rays; gamma-ray burst: general; gamma rays: general; neutrinos |
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Abstract |
We analyze 7.3 yr of ANTARES high-energy neutrino and Fermi Large Area Telescope (LAT) gamma-ray data in search of cosmic neutrino + gamma-ray (nu + gamma) transient sources or source populations. Our analysis has the potential to detect either individual nu + gamma transient sources (durations delta t less than or similar to 1000 s), if they exhibit sufficient gamma-ray or neutrino multiplicity, or a statistical excess of nu + gamma transients of individually lower multiplicities. Individual high gamma-ray multiplicity events could be produced, for example, by a single ANTARES neutrino in coincidence with a LAT-detected gamma-ray burst. Treating ANTARES track and cascade event types separately, we establish detection thresholds by Monte Carlo scrambling of the neutrino data, and determine our analysis sensitivity by signal injection against these scrambled data sets. We find our analysis is sensitive to nu + gamma transient populations responsible for >5% of the observed gamma-coincident neutrinos in the track data at 90% confidence. Applying our analysis to the unscrambled data reveals no individual nu + gamma events of high significance; two ANTARES track + Fermi gamma-ray events are identified that exceed a once per decade false alarm rate threshold (p = 17%). No evidence for subthreshold nu + gamma source populations is found among the track (p = 39%) or cascade (p = 60%) events. Exploring a possible correlation of high-energy neutrino directions with Fermi gamma-ray sky brightness identified in previous work yields no added support for this correlation. While TXS.0506+056, a blazar and variable (nontransient) Fermi gamma-ray source, has recently been identified as the first source of high-energy neutrinos, the challenges in reconciling observations of the Fermi gamma-ray sky, the IceCube high-energy cosmic neutrinos, and ultrahigh-energy cosmic rays using only blazars suggest a significant contribution by other source populations. Searches for transient sources of high-energy neutrinos thus remain interesting, with the potential for either neutrino clustering or multimessenger coincidence searches to lead to discovery of the first nu + gamma transients. |
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Address |
[Solares, H. A. Ayala; Cowen, D. F.; DeLaunay, J. J.; Keivani, A.; Mostafa, M.; Murase, K.; Turley, C. F.] Penn State Univ, Dept Phys, 104 Davey Lab, University Pk, PA 16802 USA, Email: cft114@psu.edu |
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Publisher |
Iop Publishing Ltd |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0004-637x |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000503245500001 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
4227 |
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| Permanent link to this record |
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Author |
AMON Team, ANTARES and HAWC Collaborations (Ayala Solares, H.A. et al); Alves Garres, S.; Calvo, D.; Carretero, V.; Gozzini, R.; Hernandez-Rey, J.J.; Manczak, J.; Pieterse, C.; Real, D.; Sanchez-Losa, A.; Zornoza, J. D.; Zuniga, J.; Salesa Greus, F. |
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Title |
Search for Gamma-Ray and Neutrino Coincidences Using HAWC and ANTARES Data |
Type |
Journal Article |
| |
Year |
2023 |
Publication |
Astrophysical Journal |
Abbreviated Journal |
Astrophys. J. |
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Volume |
944 |
Issue |
2 |
Pages |
166 - 9pp |
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Keywords |
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Abstract |
In the quest for high-energy neutrino sources, the Astrophysical Multimessenger Observatory Network has implemented a new search by combining data from the High Altitude Water Cherenkov (HAWC) Observatory and the Astronomy with a Neutrino Telescope and Abyss environmental RESearch (ANTARES) neutrino telescope. Using the same analysis strategy as in a previous detector combination of HAWC and IceCube data, we perform a search for coincidences in HAWC and ANTARES events that are below the threshold for sending public alerts in each individual detector. Data were collected between 2015 July and 2020 February with a live time of 4.39 yr. Over this time period, three coincident events with an estimated false-alarm rate of <1 coincidence per year were found. This number is consistent with background expectations. |
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Address |
[Solares, H. A. Ayala; Coutu, S.; Cowen, D.; Fox, D. B.; Gregoire, T.; Mostafa, M.; Murase, K.; Wissel, S.; Alonso, M. Fernandez; Whitaker, K.] Penn State Univ, Dept Phys, 104 Davey Lab, University Pk, PA 16802 USA, Email: hgayala@psu.edu |
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Corporate Author |
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Thesis |
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Publisher |
IOP Publishing Ltd |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0004-637x |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000989686100001 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
5566 |
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| Permanent link to this record |
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Author |
AMON Team, HAWC and IceCube Collaborations (Ayala Solares, H.A. et al); Salesa Greus, F. |
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Title |
Multimessenger Gamma-Ray and Neutrino Coincidence Alerts Using HAWC and IceCube Subthreshold Data |
Type |
Journal Article |
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Year |
2021 |
Publication |
Astrophysical Journal |
Abbreviated Journal |
Astrophys. J. |
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Volume |
906 |
Issue |
1 |
Pages |
63 - 10pp |
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Keywords |
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Abstract |
The High Altitude Water Cerenkov (HAWC) and IceCube observatories, through the Astrophysical Multimessenger Observatory Network (AMON) framework, have developed a multimessenger joint search for extragalactic astrophysical sources. This analysis looks for sources that emit both cosmic neutrinos and gamma rays that are produced in photohadronic or hadronic interactions. The AMON system is running continuously, receiving subthreshold data (i.e., data that are not suited on their own to do astrophysical searches) from HAWC and IceCube, and combining them in real time. Here we present the analysis algorithm, as well as results from archival data collected between 2015 June and 2018 August, with a total live time of 3.0 yr. During this period we found two coincident events that have a false-alarm rate (FAR) of <1 coincidence yr(-1), consistent with the background expectations. The real-time implementation of the analysis in the AMON system began on 2019 November 20 and issues alerts to the community through the Gamma-ray Coordinates Network with an FAR threshold of <4 coincidences yr(-1). |
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Address |
[Solares, H. A. Ayala; Coutu, S.; DeLaunay, J. J.; Fox, D. B.; Gregoire, T.; Keivani, A.; Krauss, F.; Mostafa, M.; Murase, K.; Turley, C. F.; Anderson, T.; Cowen, D. F.; Dunkman, M.; Eller, P.; Fienberg, A.; Huang, F.; Kheirandish, A.; Lanfranchi, J. L.; Li, Y.; Pankova, D. V.; Weiss, M. J.] Penn State Univ, Dept Phys, University Pk, PA 16802 USA, Email: hgayala@psu.edu |
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Corporate Author |
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Thesis |
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Publisher |
Iop Publishing Ltd |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0004-637x |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000605929400001 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
4679 |
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| Permanent link to this record |
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Author |
Amoroso, S.; Caron, S.; Jueid, A.; Ruiz de Austri, R.; Skands, P. |
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Title |
Estimating QCD uncertainties in Monte Carlo event generators for gamma-ray dark matter searches |
Type |
Journal Article |
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Year |
2019 |
Publication |
Journal of Cosmology and Astroparticle Physics |
Abbreviated Journal |
J. Cosmol. Astropart. Phys. |
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Volume |
05 |
Issue |
5 |
Pages |
007 - 44pp |
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Keywords |
dark matter simulations; dark matter theory; gamma ray theory |
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Abstract |
Motivated by the recent galactic center gamma-ray excess identified in the Fermi-LAT data, we perform a detailed study of QCD fragmentation uncertainties in the modeling of the energy spectra of gamma-rays from Dark-Matter (DM) annihilation. When Dark-Matter particles annihilate to coloured final states, either directly or via decays such as W(*) -> qq-', photons are produced from a complex sequence of shower, hadronisation and hadron decays. In phenomenological studies their energy spectra are typically computed using Monte Carlo event generators. These results have however intrinsic uncertainties due to the specific model used and the choice of model parameters, which are difficult to asses and which are typically neglected. We derive a new set of hadronisation parameters (tunes) for the PYTHIA 8.2 Monte Carlo generator from a fit to LEP and SLD data at the Z peak. For the first time we also derive a conservative set of uncertainties on the shower and hadronisation model parameters. Their impact on the gamma-ray energy spectra is evaluated and discussed for a range of DM masses and annihilation channels. The spectra and their uncertainties are also provided in tabulated form for future use. The fragmentation-parameter uncertainties may be useful for collider studies as well. |
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Address |
[Amoroso, Simone] DESY, Notkestr 85, D-22607 Hamburg, Germany, Email: simone.amoroso@desy.de; |
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Corporate Author |
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Thesis |
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Publisher |
Iop Publishing Ltd |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
1475-7516 |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000467288200002 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
4006 |
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| Permanent link to this record |
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Author |
An, L.; Auffray, E.; Betti, F.; Dall'Omo, F.; Gascon, D.; Golutvin, A.; Guz, Y.; Kholodenko, S.; Martinazzoli, L.; Mazorra de Cos, J.; Picatoste, E.; Pizzichemi, M.; Roloff, P.; Salomoni, M.; Sanchez, D.; Schopper, A.; Semennikov, A.; Shatalov, P.; Shmanin, E.; Strekalina, D.; Zhang, Y. |
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Title |
Performance of a spaghetti calorimeter prototype with tungsten absorber and garnet crystal fibres |
Type |
Journal Article |
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Year |
2023 |
Publication |
Nuclear Instruments & Methods in Physics Research A |
Abbreviated Journal |
Nucl. Instrum. Methods Phys. Res. A |
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Volume |
1045 |
Issue |
|
Pages |
167629 - 7pp |
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Keywords |
Calorimetry; High energy physics (HEP); Particle detectors; Spaghetti calorimeter (SPACAL); Fibres; Scintillating crystals |
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Abstract |
A spaghetti calorimeter (SPACAL) prototype with scintillating crystal fibres was assembled and tested with electron beams of energy from 1 to 5 GeV. The prototype comprised radiation-hard Cerium-doped Gd3Al2Ga3O12 (GAGG:Ce) and Y3Al5O12 (YAG:Ce) embedded in a pure tungsten absorber. The energy resolution root was studied as a function of the incidence angle of the beam and found to be of the order of 10%/ E a 1%, in line with the LHCb Shashlik technology. The time resolution was measured with metal channel dynode photomultipliers placed in contact with the fibres or coupled via a light guide, additionally testing an optical tape to glue the components. Time resolution of a few tens of picosecond was achieved for all the energies reaching down to (18.5 +/- 0.2) ps at 5 GeV. |
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Address |
[An, L.; Auffray, E.; Betti, F.; Dall'Omo, F.; Martinazzoli, L.; Pizzichemi, M.; Roloff, P.; Salomoni, M.; Schopper, A.] European Org Nucl Res CERN, Geneva, Switzerland, Email: loris.martinazzoli@cern.ch |
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Corporate Author |
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Thesis |
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Publisher |
Elsevier |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
0168-9002 |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000882335600001 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
5413 |
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| Permanent link to this record |
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Author |
Anamiati, G.; Castillo-Felisola, O.; Fonseca, R.M.; Helo, J.C.; Hirsch, M. |
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Title |
High-dimensional neutrino masses |
Type |
Journal Article |
| |
Year |
2018 |
Publication |
Journal of High Energy Physics |
Abbreviated Journal |
J. High Energy Phys. |
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Volume |
12 |
Issue |
12 |
Pages |
066 - 26pp |
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Keywords |
Beyond Standard Model; Neutrino Physics |
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Abstract |
For Majorana neutrino masses the lowest dimensional operator possible is the Weinberg operator at d = 5. Here we discuss the possibility that neutrino masses originate from higher dimensional operators. Specifically, we consider all tree-level decompositions of the d = 9, d = 11 and d = 13 neutrino mass operators. With renormalizable interactions only, we find 18 topologies and 66 diagrams for d = 9, and 92 topologies plus 504 diagrams at the d = 11 level. At d = 13 there are already 576 topologies and 4199 diagrams. However, among all these there are only very few genuine neutrino mass models: At d = (9, 11, 13) we find only (2,2,2) genuine diagrams and a total of (2,2,6) models. Here, a model is considered genuine at level d if it automatically forbids lower order neutrino masses without the use of additional symmetries. We also briefly discuss how neutrino masses and angles can be easily fitted in these high-dimensional models. |
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Address |
[Anamiati, Gaetana; Hirsch, M.] Univ Valencia, CSIC, Inst Fis Corpuscular, AHEP Grp, Edificio Inst Paterna,Apartado 22085, E-46071 Valencia, Spain, Email: anamiati@ific.uv.es; |
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Corporate Author |
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Thesis |
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Publisher |
Springer |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
1029-8479 |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000453296100001 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
yes |
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Call Number |
IFIC @ pastor @ |
Serial |
3845 |
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| Permanent link to this record |
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Author |
Anamiati, G.; De Romeri, V.; Hirsch, M.; Ternes, C.A.; Tortola, M. |
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Title |
Quasi-Dirac neutrino oscillations at DUNE and JUNO |
Type |
Journal Article |
| |
Year |
2019 |
Publication |
Physical Review D |
Abbreviated Journal |
Phys. Rev. D |
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Volume |
100 |
Issue |
3 |
Pages |
035032 - 12pp |
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Keywords |
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Abstract |
Quasi-Dirac neutrinos are obtained when the Lagrangian density of a neutrino mass model contains both Dirac and Majorana mass terms, and the Majorana terms are sufficiently small. This type of neutrino introduces new mixing angles and mass splittings into the Hamiltonian, which will modify the standard neutrino oscillation probabilities. In this paper, we focus on the case where the new mass splittings are too small to be measured, but new angles and phases are present. We perform a sensitivity study for this scenario for the upcoming experiments DUNE and JUNO, finding that they will improve current bounds on the relevant parameters. Finally, we also explore the discovery potential of both experiments, assuming that neutrinos are indeed quasi-Dirac particles. |
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Address |
[Anamiati, G.; De Romeri, V.; Hirsch, M.; Ternes, C. A.; Tortola, M.] Univ Valencia, CSIC, Inst Fis Corpuscular, Paterna 46980, Spain, Email: anamiati@ific.uv.es; |
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Corporate Author |
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Thesis |
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Publisher |
Amer Physical Soc |
Place of Publication |
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Editor |
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Language |
English |
Summary Language |
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Original Title |
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Series Editor |
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Series Title |
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Abbreviated Series Title |
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Series Volume |
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Series Issue |
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Edition |
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ISSN |
2470-0010 |
ISBN |
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Medium |
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Area |
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Expedition |
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Conference |
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Notes |
WOS:000482944200007 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
no |
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Call Number |
IFIC @ pastor @ |
Serial |
4124 |
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| Permanent link to this record |
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Author |
Anamiati, G.; Fonseca, R.M.; Hirsch, M. |
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Title |
Quasi-Dirac neutrino oscillations |
Type |
Journal Article |
| |
Year |
2018 |
Publication |
Physical Review D |
Abbreviated Journal |
Phys. Rev. D |
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Volume |
97 |
Issue |
9 |
Pages |
095008 - 16pp |
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Keywords |
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Abstract |
Dirac neutrino masses require two distinct neutral Weyl spinors per generation, with a special arrangement of masses and interactions with charged leptons. Once this arrangement is perturbed, lepton number is no longer conserved and neutrinos become Majorana particles. If these lepton number violating perturbations are small compared to the Dirac mass terms, neutrinos are quasi-Dirac particles. Alternatively, this scenario can be characterized by the existence of pairs of neutrinos with almost degenerate masses, and a lepton mixing matrix which has 12 angles and 12 phases. In this work we discuss the phenomenology of quasi-Dirac neutrino oscillations and derive limits on the relevant parameter space from various experiments. In one parameter perturbations of the Dirac limit, very stringent bounds can be derived on the mass splittings between the almost degenerate pairs of neutrinos. However, we also demonstrate that with suitable changes to the lepton mixing matrix, limits on such mass splittings are much weaker, or even completely absent. Finally, we consider the possibility that the mass splittings are too small to be measured and discuss bounds on the new, nonstandard lepton mixing angles from current experiments for this case. |
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Address |
[Anamiati, Gaetana; Fonseca, Renato M.; Hirsch, Martin] Univ Valencia, CSIC, Inst Fis Corpuscular, AHEP Grp, Edificio Inst Paterna,Apartado 22085, E-46071 Valencia, Spain, Email: anamiati@ific.uv.es; |
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Publisher |
Amer Physical Soc |
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Language |
English |
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ISSN |
2470-0010 |
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Notes |
WOS:000432970600004 |
Approved |
no |
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Is ISI |
yes |
International Collaboration |
no |
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Call Number |
IFIC @ pastor @ |
Serial |
3581 |
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