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At least 469 records · Page 26

Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network

Using the Cap Analysis of Gene Expression (CAGE) technology, the FANTOM5 consortium provided one of the most comprehensive maps of transcription start sites (TSSs) in several species. Strikingly, ~72% of them could not be assigned to a specific gene and initiate at unconventional regions, outside promoters or enhancers. Here, we probe these unassigned TSSs and show that, in all species studied, a significant fraction of CAGE peaks initiate at microsatellites, also called short tandem repeats (STRs). To confirm this transcription, we develop Cap Trap RNA-seq, a technology which combines cap trapping and long read MinION sequencing. We train sequence-based deep learning models able to predict CAGE signal at STRs with high accuracy. These models unveil the importance of STR surrounding sequences not only to distinguish STR classes, but also to predict the level of transcription initiation. Importantly, genetic variants linked to human diseases are preferentially found at STRs with high transcription initiation level, supporting the biological and clinical relevance of transcription initiation at STRs. Together, our results extend the repertoire of non-coding transcription associated with DNA tandem repeats and complexify STR polymorphism.

59 BASIC BIOLOGICAL SCIENCES↗

The Mu2e Digitizer ReAdout Controller (DiRAC): characterization and radiation hardness

The Mu2e experiment at Fermilab will search for the neutrino-less coherent conversion of a muon into an electron in the field of a nucleus. Mu2e detectors comprise a straw tracker, an electromagnetic calorimeter and a veto for cosmic rays. The calorimeter employs 1348 Cesium Iodide crystals readout by silicon photo-multipliers and fast front-end, and digitization electronics. The digitization board is named DiRAC (Digitizer ReAdout Controller) and 140 cards are needed for the readout of the full calorimeter. The DiRACs are hosted in crates located on the external surface of calorimeter disks, inside the detector solenoid cryostat and must sustain very high radiation and magnetic field so it was necessary to fully qualify it. Several version of prototypes were validated for operation in a high-vacuum (10−4 Torr) and under a 1T magnetic field. An extensive radiation hardness qualification campaign, carried out with photons, 14 MeV neutron beams, and 200 MeV protons, certified the DiRAC design to sustain doses up to 12 Krad, neutron fluences up to ∼ 1011 1 MeV neq/cm2, and very low occurrences of single-event effects. The qualification campaigns and quality assurance procedures will be reviewed.

43 PARTICLE ACCELERATORS↗

photoD with Rubin ’s Data Preview 1: First stellar photometric distances and faint blue star deficits

Aims. We investigate the utility of Rubin’s Data Preview 1 (DP1) for estimating stellar number density profiles across the Milky Way halo. Methods. We used stellar broad-band near-UV to near-IR ugrizy photometry released in Rubin’s DP1 to estimate distance and metallicity for blue main sequence stars brighter than r = 24 in three ~1.1 sq. deg. fields at southern Galactic latitudes. Results. Compared to TRILEGAL simulations of the Galaxy’s stellar content, we found a likely deficit of blue main sequence turn-off stars with 22 < r < 24. We interpreted this discrepancy as a signature of a steeper halo number density profile at galactocentric distances 10–50 kpc than the canonical ~1/r 3 profile assumed in TRILEGAL simulations. Conclusions. This interpretation is consistent with earlier suggestions based on observations of more luminous, but much less numerous, evolved stellar populations, along with a few pencil beam surveys of blue main sequence stars in the northern sky. These results bode well for the future Galactic halo exploration with Rubin’s Legacy Survey of Space and Time (LSST).

Galaxy: fundamental parameters↗

Search for same-charge top-quark pair production in pp collisions at $\sqrt{s}$ = 13 TeV with the ATLAS detector

A search for the production of top-quark pairs with the same electric charge ($tt$ or $\overline{tt}$) is presented. The analysis uses proton-proton collision data at $\sqrt{s}$ = 13 TeV, recorded by the ATLAS detector at the Large Hadron Collider, corresponding to an integrated luminosity of 140 fb −1 . Events with two same-charge leptons and at least two b-tagged jets are selected. Neural networks are employed to define two selections sensitive to additional couplings beyond the Standard Model that would enhance the production rate of same-sign top-quark pairs. No significant signal is observed, leading to an upper limit on the total production cross-section of same-sign top-quark pairs of 1.6 fb at 95% confidence level. Corresponding limits on the three Wilson coefficients associated with the $\mathcal{O}^{(1)}_{tu}$, $\mathcal{O}^{(1)}_{Qu}$, and $\mathcal{O}^{(8)}_{Qu}$ operators in the Standard Model Effective Field Theory framework are derived.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

First measurement of 𝐷 𝑠⁢1 ⁡(1 + )⁢(2536) + and 𝐷$^{*}_{𝑠⁢2}$⁡(2 + )⁢(2573) + production in proton-proton collisions at $\sqrt{s}$ = 13 TeV at the LHC

The production yields of the orbitally excited charm-strange mesons D s⁢1 ⁡(1 + )⁢(2536)+ and 𝐷$^{*}_{𝑠⁢2}$⁡(2 + )⁢(2573) + were measured for the first time in proton-proton (pp) collisions at a center-of-mass energy of $\sqrt{s}$ =13 TeV with the ALICE experiment at the LHC. The D$^{+}_{s⁢1}$ and D$^{*+}_{s⁢2}$ mesons were measured at midrapidity (|𝑦| < 0.5) in minimum-bias and high-multiplicity pp collisions in the transverse-momentum interval 2< 𝑝 T < 24 GeV/𝑐. Their production yields relative to the D$^{+}_{s}$ ground-state yield were found to be compatible between minimum-bias and high-multiplicity collisions, as well as with previous measurements in e ± ⁢p and e + ⁢e − collisions. The measured D$^{+}_{s⁢1}$/D$^{+}_{s}$ and D$^{*+}_{s⁢2}$/D$^{+}_{s}$ yield ratios are described by statistical hadronization models and can be used to tune the parameters governing the production of excited charm-strange hadrons in Monte Carlo generators, such as pythia 8.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Bimolecular Reductive Elimination of Ethane from Pyridine(diimine) Iron Methyl Complexes: Mechanism, Electronic Structure, and Entry into [2+2] Cycloaddition Catalysis

The application of bimolecular reductive elimination to the activation of iron catalysts for alkene–diene cycloaddition is described. Key to this approach was the synthesis, characterization, electronic structure determination, and ultimately solution stability of a family of pyridine(diimine) iron methyl complexes with diverse steric properties and electronic ground states. Both the aryl-substituted, ( Me PDI)FeCH 3 and ( Et PDI)FeCH 3 ( R PDI = 2,6-(2,6-R 2 -C 6 H 3 N=CMe) 2 C 5 H 3 N), and the alkyl-substituted examples, ( Cy APDI)FeCH 3 ( Cy APDI = 2,6-(C 6 H 11 N=CMe) 2 C 5 H 3 N), have molecular structures significantly distorted from planarity and S = 3/2 ground states. The related N-arylated derivative bearing 2,6-di-isopropyl aryl substituents, ( iPr PDI)FeCH 3 , has an idealized planar geometry and exhibits spin crossover behavior from S = 1/2 to S = 3/2 states. At 23 °C under an N 2 atmosphere, both ( Me PDI)FeCH 3 and ( Et PDI)FeCH 3 underwent reductive elimination of ethane to form the iron dinitrogen precatalysts, [( Me PDI)Fe(N 2 )] 2 (μ-N 2 ) and [( Et PDI)Fe(N 2 )] 2 (μ-N 2 ), respectively, while ( iPr PDI)FeCH 3 proved inert to C–C bond formation. By contrast, addition of butadiene to all three iron methyl complexes induced ethane formation and generated the corresponding iron butadiene complexes, ( R PDI)Fe(η 4 -C 4 H 6 ) (R = Me, Et, i Pr), known precatalysts for the [2+2] cycloaddition of olefins and dienes. Kinetic, crossover experiments, and structural studies were combined with magnetic measurements and Mössbauer spectroscopy to elucidate the electronic and steric features of the iron complexes that enable this unusual reductive elimination and precatalyst activation pathway. Furthermore, transmetalation of methyl groups between iron centers was fast at ambient temperature and independent of steric environment or spin state, while the intermediate dimer underwent the sterically controlled rate-determining reaction with either N 2 or butadiene to access a catalytically active iron compound.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

User's manual for EZPLOT version 5.5: A FORTRAN program for 2-dimensional graphic display of data

EZPLOT is a computer applications program that converts data resident on a file into a plot displayed on the screen of a graphics terminal. This program generates either time history or x-y plots in response to commands entered interactively from a terminal keyboard. Plot parameters consist of a single independent parameter and from one to eight dependent parameters. Various line patterns, symbol shapes, axis scales, text labels, and data modification techniques are available. This user's manual describes EZPLOT as it is implemented on the Ames Research Center, Dryden Research Facility ELXSI computer using DI-3000 graphics software tools.

Garbinski, Charles↗

Medium-induced modification of azimuthal correlations of electrons from heavy-flavor hadron decays with charged particles in Pb–Pb collisions at $\mathbf {\sqrt{s_{\textrm{NN}}} = 5.02}$ TeV

The azimuthal-correlation distributions between electrons from the decays of heavy-flavor hadrons and associated charged particles in Pb–Pb collisions at $\sqrt{s_{\textrm{NN}}} = 5.02$ TeV are reported for the 0–10% and 30–50% centrality classes. This measurement provides access to the jet-like correlation observables in the heavy-flavor sector in Pb–Pb collisions. The analysis is performed for trigger electrons from heavy-flavor hadron decays with transverse momentum $4< p_\textrm{T}^\textrm{e} < 16~\textrm{GeV}/c$, considering associated particles within the transverse-momentum range $1< p_\textrm{T}^\textrm{assoc} < 7$ GeV/c, and a pseudorapidity difference of $|\Delta \eta |<1$ between the trigger electron and associated particles. The per-trigger nuclear modification factor ( I AA ) is calculated to compare the near- and away-side peak yields to those in pp collisions at $\sqrt{s} = 5.02$ TeV. In 0–10% central collisions, the indicates a hint of enhancement of associated-particle yields with $p_\textrm{T}<3$ GeV/c on the near side, and a suppression of yields with $p_\textrm{T}>4$ GeV/c on the away side. The I AA for electron triggers from heavy-flavor hadron decays is compared with that for light-flavor and strange-particle triggers to investigate the dependence on different fragmentation processes and parton-medium dynamics, and is found to be the same within uncertainties.

Abualrob, I. J. [University of Houston] (ORCID:000↗

Valence 1⁢𝑠−0⁢𝑑 proton vacancy of the 32 Si ground state

The 32 Si( 3 He,d) 33 P reaction was studied in inverse kinematics at 6.3 MeV/u. States in 33 P corresponding to the proton 1s-0d single-particle orbitals were identified up to ≈ 4.5 MeV in excitation energy. The ( 3 He,d) spectroscopic factors were determined from distorted-wave Born approximation calculations. When combined with complementary neutron-adding data, the 1s-0d proton vacancies in the 32 Si ground state were extracted. In conjunction with a reanalysis of data from previous single-particle measurements, the trends in proton and neutron vacancy were explored across the 28,30,32,34 Si isotopes. Both proton and neutron vacancy data show gradual changes in their occupancies. The proton 1s 1/2 orbitals in 32 Si and 34 Si are both consistent with being empty. In conclusion, the ground-state nucleon distributions are described by shell-model calculations constrained to the 1s-0d model space.

Watwood, N. [Argonne National Laboratory (ANL), Ar↗

$\overline{\Sigma }^{\pm }$ production in $\text {pp}$ and $\text {p}{-}\text{Pb}$ collisions at $\sqrt{s_{\textrm{NN}}} = 5.02$ TeV with ALICE

The transverse momentum spectra and integrated yields of anti-$Σ$ hyperons ($\overline{\Sigma}^{\pm}$) have been measured in and collisions at $\sqrt{s_{\textrm{NN}}} = 5.02$ TeV with the ALICE experiment. Measurements are performed via the newly accessed decay channel $\overline{\Sigma}^{\pm}$ → $\bar{\textrm{n}}π^±$. A new method of antineutron reconstruction with the PHOS electromagnetic spectrometer is developed and applied to this analysis. The p T spectra of $\overline{\Sigma}^{\pm}$ are measured in the range 0.5 < p T < 3 GeV/c and compared to predictions of the PYTHIA 8, DPMJET, PHOJET, EPOS LHC and EPOS4 models. The EPOS LHC and EPOS4 models provide the best descriptions of the measured spectra both in pp and p-Pb collisions, while models which do not account for multiparton interactions provide a considerably worse description at high p T . The total yields of $\overline{\Sigma }^{\pm }$ in both pp and p-Pb collisions are compared to predictions of the Thermal-FIST model and dynamical models PYTHIA 8, DPMJET, PHOJET, EPOS LHC and EPOS4. All models reproduce the total yields in both colliding systems within uncertainties. The nuclear modification factors R pPb for both $\overline{\Sigma}^{+}$ and $\overline{\Sigma}^{-}$ are evaluated and compared to those of protons, $Λ$ and $Ξ$ hyperons, and predictions of EPOS LHC and EPOS4 models. No deviations of R pPb for $\overline{\Sigma}^{\pm}$ from the model predictions or measurements for other hadrons are found within uncertainties.

Abualrob, I. J. [University of Houston] (ORCID:000↗

Reconstruction of atmospheric neutrinos in DUNE’s horizontal-drift far-detector module

This paper reports on the capabilities in reconstructing and identifying atmospheric neutrino interactions in one of the Deep Underground Neutrino Experiment’s (DUNE) far detector modules, a liquid argon time projection chamber (LArTPC) with horizontal drift (FD-HD) of ionization electrons. The reconstruction is based upon the workflow developed for DUNE’s long-baseline oscillation analysis, with some necessary machine-learning models’ retraining and the addition of features relevant only to atmospheric neutrinos such as the neutrino direction reconstruction. Where relevant, the impact of the detection of the charged particles of the hadronic system is emphasized, and comparisons are carried out between the case when lepton-only information is considered in the reconstruction (as is the case for many neutrino oscillation experiments), versus when all particles identified in the LArTPC were included. Three neutrino direction reconstruction methods have been developed and studied for the atmospheric analyses: using lepton-only information, using all reconstructed particles, and using only correlations from reconstructed hits. The results indicate that incorporating more than just lepton information significantly improves the resolution of both neutrino direction and energy reconstruction. The angle reconstruction algorithms developed in this work result in no strong dependence on particle direction for reconstruction efficiencies or neutrino flavor identification. This comprehensive review of the reconstruction of atmospheric neutrinos in DUNE’s FD-HD LArTPC is the first step towards developing a first neutrino oscillation sensitivity analysis, which will ready DUNE for its first measurements.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

First observation of strange baryon enhancement with effective energy in pp collisions at the LHC

The production of (multi-)strange hadrons is measured at midrapidity in proton-proton collisions at $\sqrt{s}$ = 13 TeV as a function of the local charged-particle multiplicity in the pseudorapidity interval |η| < 0.5 and of the very-forward energy measured by the ALICE Zero-Degree Calorimeters. The latter provides information on the effective energy, i.e. the energy available for particle production in the collision once subtracted from the centre-of-mass energy. The yields of K$^{0}_{s}$, $Λ$ + $\overline{Λ}$, and $Ξ$ – + $\overline{Ξ}$ + per charged-particle increase with the effective energy. In addition, this work exploits a multi-differential approach to decouple the roles of local multiplicity and effective energy in such an enhancement. The results presented in this article provide new insights into the interplay between global properties of the collision, such as the initial available energy in the event, and the locally produced final hadronic state, connected to the charged-particle multiplicity at midrapidity. Notably, a strong increase of strange baryon production with effective energy is observed for fixed charged-particle multiplicity at midrapidity. These results are discussed within the context of existing phenomenological models of hadronisation implemented in different tunes of the PYTHIA 8 event generator.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Multiplicity-dependent jet modification from di-hadron correlations in pp collisions at $ \sqrt{s} $ = 13 TeV

Short-range correlations between charged particles are studied via two-particle angular correlations in pp collisions at $\sqrt{s}$ = 13 TeV. The correlation functions are measured as a function of the relative azimuthal angle ∆φ and the pseudorapidity separation ∆η for pairs of primary charged particles within the pseudorapidity interval |η| < 0.9 and the transverse-momentum range 1 < p T < 8 GeV/c. Near-side (|∆φ| < 1.3) peak widths are extracted from a generalised Gaussian fitted over the correlations in full pseudorapidity separation (|∆η| < 1.8), while the per-trigger associated near-side yields are extracted for the short-range correlations (|∆η| < 1.3). Both are evaluated as a function of charged-particle multiplicity obtained by two different event activity estimators. The width of the near-side peak decreases with increasing multiplicity, and this trend is reproduced qualitatively by the Monte Carlo event generators PYTHIA 8, AMPT, and EPOS. However, the models overestimate the width in the low transverse-momentum region (p T < 3 GeV/c). The per-trigger associated near-side yield increases with increasing multiplicity. Although this trend is also captured qualitatively by the considered event generators, the yield is mostly overestimated by the models in the considered kinematic range. The measurement of the shape and yield of the short-range correlation peak can help us understand the interplay between jet fragmentation and event activity, quantify the narrowing trend of the near-side peak as a function of transverse momentum and multiplicity selections in pp collisions, and search for final-state jet modification in small collision systems.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Probing Strangeness Hadronization with Event-by-Event Production of Multistrange Hadrons

This Letter presents the first measurement of event-by-event fluctuations of the net number (difference between the particle and antiparticle multiplicities) of multistrange hadrons Ξ − and $\overline{Ξ}$ + and its correlation with the net-kaon number using the data collected by the ALICE Collaboration in pp, p-Pb, and Pb-Pb collisions at a center-of-mass energy per nucleon pair $\sqrt{s_{NN}}$ = 5.02 TeV. The statistical hadronization model with a correlation over three units of rapidity between hadrons having the same and opposite strangeness content successfully describes the results. On the other hand, string-fragmentation models that mainly correlate strange hadrons with opposite strange quark content over a small rapidity range fail to describe the data.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Study of cosmogenic activation above ground for the DarkSide-20k experiment

The activation of materials due to exposure to cosmic rays may become an important background source for experiments investigating rare event phenomena. DarkSide-20k, currently under construction at the Laboratori Nazionali del Gran Sasso, is a direct detection experiment for galactic dark matter particles, using a two-phase liquid-argon Time Projection Chamber (TPC) filled with 49.7 tonnes (active mass) of Underground Argon (UAr) depleted in 39 Ar. Despite the outstanding capability of discriminating γ / β background in argon TPCs, this background must be considered because of induced dead time or accidental coincidences mimicking dark-matter signals and it is relevant for low-threshold electron-counting measurements. Here, the cosmogenic activity of relevant long-lived radioisotopes induced in the experiment has been estimated to set requirements and procedures during preparation of the experiment and to check that it is not dominant over primordial radioactivity; particular attention has been paid to the activation of the 120 t of UAr used in DarkSide-20k. Expected exposures above ground and production rates, either measured or calculated, have been considered in detail. From the simulated counting rates in the detector due to cosmogenic isotopes, it is concluded that activation in copper and stainless steel is not problematic. The activity of 39 Ar induced during extraction, purification and transport on surface is evaluated to be 2.8% of the activity measured in UAr by DarkSide-50 experiment, which used the same underground source, and thus considered acceptable. Other isotopes in the UAr such as 37 Ar and 3 H are shown not to be relevant due to short half-life and assumed purification methods.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Direct measurement of the muonic content of extensive air showers between 2 $\times$ 10 17 and 2 $\times$ 10 18 eV at the Pierre Auger Observatory

The hybrid design of the Pierre Auger Observatory allows for the measurement of the properties of extensive air showers initiated by ultra-high energy cosmic rays with unprecedented precision. By using an array of prototype underground muon detectors, we have performed the first direct measurement, by the Auger Collaboration, of the muon content of air showers between 2 $\times$ 10 17 and 2 $\times$ 10 18 eV. We have studied the energy evolution of the attenuation-corrected muon density, and compared it to predictions from air shower simulations. The observed densities are found to be larger than those predicted by models. We quantify this discrepancy by combining the measurements from the muon detector with those from the Auger fluorescence detector at 10 17.5 eV and 10 18 eV. We find that, for the models to explain the data, an increase in the muon density of 38% $±$4%(12%) $±^{21\%}_{18\%}$ for EPOS-LHC, and of 50%(53%) $±$4%(13%) $±^{23\%}_{20\%}$ for QGSJETII-04, is respectively needed.

79 ASTRONOMY AND ASTROPHYSICS↗

Plasma expansion and relativistic filamentation in intense laser-irradiated cone targets

We report that compound parabolic concentrator (CPC) cone targets have been shown to produce increased MeV photons on the NIF-ARC by 10× over flat targets. Multiple x-ray frames can potentially be generated by firing the NIF-ARC's beamlets into distinct cone targets at few nanosecond relative delays. This requires that the cone targets with delayed beams are not degraded by their proximity to previous targets. One concern is that the spatial wings of a beam fired into one target can fall on neighboring targets, producing a preformed plasma that may interfere with laser light reaching the tip of the cone. In this work, 3D hydra simulations of realistic targets and beam parameters show that hundreds of micrometer scale length preplasmas are produced in cones within 1 mm of the laser spot. 2D particle-in-cell simulations of the intense main pulse in this preplasma indicate a density threshold for the onset of relativistic filamentation in our conditions. Applying our modeling approach to a NIF-ARC shot with an intentional 15 J prepulse yields good agreement with experimental results.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗