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At least 793 records · Page 44
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Rate-capability of the VMM3a front-end in the RD51 Scalable Readout System

The VMM3a is an Application Specific Integrated Circuit (ASIC), specifically developed for the readout of gaseous detectors. Originally developed within the ATLAS New Small Wheel (NSW) upgrade, it has been successfully integrated into the Scalable Readout System (SRS) of the RD51 collaboration. This allows, to use the VMM3a also in small laboratory set-ups and mid-scale experiments, which make use of Micro-Pattern Gaseous Detectors (MPGDs). As part of the integration of the VMM3a into the SRS, the readout and data transfer scheme was optimised to reach a high rate-capability of the entire readout system and profit from the VMM3a's high single-channel rate-capability of 3.6Mhits/s. The optimisation focused mainly on the handling of the data output stream of the VMM3a, but also on the development of a trigger-logic between the front-end cards and the DAQ computer. In this article, two firmware implementations of the non-ATLAS continuous readout mode are presented, as well as the implementation of the trigger-logic. Afterwards, a short overview on X-ray imaging results is presented, to illustrate the high rate-capability from an application point-of-view.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2024

Search for the decay of the Higgs boson to a $Z$ boson and a light pseudoscalar particle decaying to two photons

A search for the decay of the Higgs boson to a Z boson and a light, pseudoscalar particle, a, decaying respectively to two leptons and to two photons is reported. The search uses the full LHC Run 2 proton–proton collision data at $\sqrt{s}$ = 13 TeV, corresponding to 139 fb –1 collected by the ATLAS detector. This is one of the first searches for this specific decay mode of the Higgs boson, and it probes unexplored parameter space in models with axion-like particles (ALPs) and extended scalar sectors. The mass of the $a$ particle is assumed to be in the range 0.1–33 GeV. The data are analysed in two categories: a merged category where the photons from the $a$ decay are reconstructed in the ATLAS calorimeter as a single cluster, and a resolved category in which two separate photons are detected. The main background processes are from Standard Model Z boson production in association with photons or jets. The data are in agreement with the background predictions, and upper limits on the branching ratio of the Higgs boson decay to $Za$ times the branching ratio $a → γγ$ are derived at the 95% confidence level and they range from 0.08% to 2% depending on the mass of the $a$ particle. The results are also interpreted in the context of ALP models.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2023

Multi-decade high-resolution regional hindcasts for wave energy resource characterization in U.S. coastal waters

Long-term, high-resolution, regional wave hindcast datasets were generated using unstructured-grid Simulating WAves Nearshore (SWAN) models for the U.S. coastal waters to support nearshore wave energy development in the U.S. including those bordering U.S. territorial islands. The model domains resolved the entire U.S. exclusive economic zones, with a spatial resolution of approximately 200 m nearshore. The regional SWAN models were driven by the global WAVEWATCH III® model outputs and run for a 42-year period from 1979 to 2020. Extensive model validations were performed using buoy observations and altimeter data. Regional resource characterization was performed based on hindcast data points at 2 km from shore and along the 100 m isobath. Aggregations of wave resource parameters were produced, and spatial and seasonal variations were analyzed for all the regions. Wave resource metrics recommended by international standards, including a 3-hour time series of six resource parameters, hourly frequency- and directionally resolved wave spectra at selected “virtual buoy” locations, and average-annual values of omni-directional wave power, significant wave height, and energy period are publicly disseminated through an Amazon Web Service and a Marine Energy Atlas web application tool to facilitate wave energy research and a wide range of coastal ocean applications.

16 TIDAL AND WAVE POWER↗
DOE OSTI2020

Modelling kidney disease using ontology: insights from the Kidney Precision Medicine Project

An important need exists to better understand and stratify kidney disease according to its underlying pathophysiology in order to develop more precise and effective therapeutic agents. National collaborative efforts such as the Kidney Precision Medicine Project are working towards this goal through the collection and integration of large, disparate clinical, biological and imaging data from patients with kidney disease. Ontologies are powerful tools that facilitate these efforts by enabling researchers to organize and make sense of different data elements and the relationships between them. Ontologies are critical to support the types of big data analysis necessary for kidney precision medicine, where heterogeneous clinical, imaging and biopsy data from diverse sources must be combined to define a patient’s phenotype. Here, the development of two new ontologies — the Kidney Tissue Atlas Ontology and the Ontology of Precision Medicine and Investigation — will support the creation of the Kidney Tissue Atlas, which aims to provide a comprehensive molecular, cellular and anatomical map of the kidney. These ontologies will improve the annotation of kidney-relevant data, and eventually lead to new definitions of kidney disease in support of precision medicine.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2026

Multiomics and deep learning dissect regulatory syntax in human development

Transcription factors establish cell identity during development by binding regulatory DNA in a sequence-specific manner, often promoting local chromatin accessibility and regulating gene expression1. Mapping accessible chromatin offers critical insights into transcriptional control, but available datasets for human development are restricted to bulk tissue, single organs or single modalities2. Here we present the Human Development Multiomic Atlas, a single-cell atlas of chromatin accessibility and gene expression from 817,740 fetal cells across 12 organs, spanning 203 cell types and more than 1 million candidate cis-regulatory elements, many of which exhibit organ-specific in vivo enhancer activity. Deep learning models trained to predict accessibility from local DNA sequence unravel a comprehensive lexicon of motifs that influence accessibility, including composite motifs exhibiting distinct syntactic constraints that are predicted to mediate transcription factor cooperativity. We identify ‘hard’ syntactic rules requiring precise motif spacing and orientation, ‘soft’ rules allowing flexible motif arrangements, and ubiquitous motifs inhibiting accessibility. Model-based interpretation of genetic variants reveals that disruption of motifs with positive and negative effects is associated with concordant effects on gene expression. Our work delineates how motif syntax governs cell-type-specific chromatin accessibility and provides a foundational resource for decoding cis-regulatory logic and interpreting genetic variation during human development.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses

Complex morphological traits are the product of many genes with transient or lasting developmental effects that interact in anatomical context. Mouse models are a key resource for disentangling such effects, because they offer myriad tools for manipulating the genome in a controlled environment. Unfortunately, phenotypic data are often obtained using laboratory-specific protocols, resulting in self-contained datasets that are difficult to relate to one another for larger scale analyses. To enable meta-analyses of morphological variation, particularly in the craniofacial complex and brain, we created MusMorph, a database of standardized mouse morphology data spanning numerous genotypes and developmental stages, including E10.5, E11.5, E14.5, E15.5, E18.5, and adulthood. To standardize data collection, we implemented an atlas-based phenotyping pipeline that combines techniques from image registration, deep learning, and morphometrics. Alongside stage-specific atlases, we provide aligned micro-computed tomography images, dense anatomical landmarks, and segmentations (if available) for each specimen (N = 10,056). Our workflow is open-source to encourage transparency and reproducible data collection.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Implementation and analysis of quantum computing application to Higgs boson reconstruction at the large Hadron Collider

With the advent of the High-Luminosity Large Hadron Collider (HL-LHC) era, high energy physics (HEP) event selection will require new approaches to rapidly and accurately analyze vast databases. The current study addresses the enormity of HEP databases in an unprecedented manner—a quantum search using Grover’s Algorithm (GA) on an unsorted database, ATLAS Open Data, from the ATLAS detector. A novel method to identify rare events at 13 TeV in CERN’s LHC using quantum computing (QC) is presented. As indicated by the Higgs boson decay channel H→ZZ*→4l , the detection of four leptons in one event may be used to reconstruct the Higgs boson and, more importantly, evince Higgs boson decay to some new phenomena, such as H→ZZ d →4l . Searching the dataset for collisions resulting in detection of four leptons using a Jupyter Notebook, a classical simulation of GA, and several quantum computers with multiple qubits, the current application was found to make the proper selection in the unsorted dataset. Quantum search efficacy was analyzed for the incoming HL-LHC by implementing the QC method on multiple classical simulators and IBM’s quantum computers with the IBM Qiskit Open Source Software. The current QC application provides a novel, high-efficiency alternative to classical database searches, demonstrating its potential utility as a rapid and increasingly accurate search method in HEP.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2021

Experience with Rucio in the wider HEP community

Managing the data of scientific projects is an increasingly complicated challenge, which was historically met by developing experiment-specific solutions. However, the ever-growing data rates and requirements of even small experiments make this approach very difficult, if not prohibitive. In recent years, the scientific data management system Rucio has evolved into a successful open-source project that is now being used by many scientific communities and organisations. Rucio is incorporating the contributions and expertise of many scientific projects and is offering common features useful to a diverse re-search community. This article describes the recent experiences in operating Rucio, as well as contributions to the project, by ATLAS, Belle II, CMS, ES-CAPE, IGWN, LDMX, Folding@Home, and the UK's Science and Technology Facilities Council (STFC).

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2024

Darshan for HEP applications

Modern HEP workflows must manage increasingly large and complex data collections. HPC facilities may be employed to help meet these workflows’ growing data processing needs. However, a better understanding of the I/O patterns and underlying bottlenecks of these workflows is necessary to meet the performance expectations of HPC systems.Darshan is a lightweight I/O characterization tool that captures concise views of HPC application I/O behavior. It intercepts application I/O calls at runtime, records file access statistics for each process, and generates log files detailing application I/O access patterns.Typical HEP workflows include event generation, detector simulation, event reconstruction, and subsequent analysis stages. A study of the I/O behavior of the ATLAS simulation and filtering stage, and the CMS simulation workflow using Darshan is presented, including insights into the I/O operations and data access size.

Wang, Rui↗
DOE OSTI2024

Celeritas: Accelerating Geant4 with GPUs

Celeritas [1] is a new Monte Carlo (MC) detector simulation code designed for computationally intensive applications (specifically, High Lumi- nosity Large Hadron Collider (HL-LHC) simulation) on high-performance heterogeneous architectures. In the past two years Celeritas has advanced from prototyping a GPU-based single physics model in infinite medium to implementing a full set of electromagnetic (EM) physics processes in complex geometries. The current release of Celeritas, version 0.3, has incorporated full device-based navigation, an event loop in the presence of magnetic fields, and detector hit scoring. New functionality incorporates a scheduler to offload electromagnetic physics to the GPU within a Geant4-driven simulation, enabling integration of Celeritas into high energy physics (HEP) experimental frameworks such as CMSSW. On the Summit supercomputer, Celeritas performs EM physics between 6 and 32 faster using the machine’s Nvidia GPUs compared to using only CPUs. When running a multithreaded Geant4 ATLAS test beam application with full hadronic physics, using Celeritas to accelerate the EM physics results in an overall simulation speedup of 1.8–2.3× on GPU and 1.2× on CPU.

Johnson, Seth R.↗
DOE OSTI2025

Demonstration of closed shell breeding of cesium ions with an electron beam ion source

An electron beam ion source serves as a charge breeder for the Californium Rare Isotope Breeder Upgrade (CARIBU) at the Argonne Tandem Linac Accelerator System (ATLAS). The source accepts radioactive beams of 1+ or 2+ ions and raises their charge state for post-acceleration by ATLAS. The efficiency of this process impacts the length of each experiment and, hence, the type and number of experiments that can be run in each program cycle. Recent efforts to improve the charge breeding efficiency for the 80 < A < 160 species typical of CARIBU have focused on utilizing the closed shell breeding technique. Here, with this technique, the electron beam energy is manipulated to take advantage of the large gap in ionization energies at shell closures and selectively populate a single charge state. Charge breeding studies with stable cesium ions have demonstrated an absolute efficiency of 72% for Cs 27+ and a total efficiency of 93%. The Cs 27+ efficiency result represents a factor of 3 improvement over the previous best charge breeding result of 23% for Cs 27+ .

Vondrasek, R. [Argonne National Laboratory (ANL), ↗
DOE OSTI2021

Silicon strip defects and their impact on electrical performance of readout electronics

Abstract In preparation for the High Luminosity LHC (HL-LHC) runs, the ATLAS inner detector will be completely replaced with an all silicon Inner Tracker (ITk). Hybrid silicon pixel modules will be used for the innermost tracking layers, and silicon micro-strip detectors will be used the outer layers of the tracker. During the production of the detector, the sensors, readout electronics, and other components will undergo a series of quality control (QC) and quality assurance tests. Defects in the fabrication of the sensors will be flagged early in the manufacturer's and ATLAS QC tests. A study of the influence of sensor defects was performed to assess the characteristics of these defects in completed modules, and whether any defect posed a risk to the operation of the front-end readout electronics. All defects were found to have no impact on the performance of the front-end readout electronics for healthy amplifier channels, and defects that short the coupling between the strip implant and the metal readout electrode were only noticeable for strip leakage currents in excess of 250 nA, beyond the end-of-life currents expected for most sensors at the HL-LHC.

Instruments & Instrumentation↗
DOE OSTI2021

Magnetic triggering — time-resolved characterisation of silicon strip modules in the presence of switching DC-DC converters

Modules for the ATLAS Inner Tracker (ITk) strip tracker include a DC-DC converter circuit glued directly to the silicon sensor which converts the 11 V supplied to the module to the 1.5 V required for the operation of the readout chips. The DC-DC converter unit, consisting of a copper solenoid and custom ASIC, is located directly above the silicon strip sensor and therefore needs to be shielded to protect the sensor from EMI noise created during the operation of the circuit. Despite dedicated shielding, consisting of an aluminium shield box with continuous solder seams encompassing the surface components and a copper layer in the PCB beneath it, module channels connected to sensor strips located beneath the converter circuit were found to show a noise increase. While the DC-DC converter unit causing the underlying EMI noise operates at a frequency of 2 MHz, module characterisation measurements for ITk strip tracker modules are typically performed asynchronously to the DC-DC switching and are therefore averaged over the full range of time bins with respect to the converter frequency. In order to investigate the time dependence of the noise injection relative to the DC-DC switching frequency, a dedicated setup to understand the time-resolved performance change in modules was developed. By using a magnetic field probe to measure the field leaking through the shield box and triggering on its rising edge, data taking could be synchronised with the DC-DC switching. This paper illustrates the concept and setup of such time-resolved performance measurements using magnetic triggering and presents results for the observed effects on signal and noise for ATLAS ITk strip modules from both laboratory and beam tests.

47 OTHER INSTRUMENTATION↗
DOE OSTI2024

Quantifying the compound hazard of freezing rain and wind gusts across CONUS

Abstract The co-occurrence of freezing rain, ice accumulation and wind gusts (FZG) poses a significant hazard to infrastructure and transportation. However, quantification of the frequency and intensity of FZG is challenged by the lack of direct icing measurements. In this work, we evaluate and then apply an energy balance model to high-frequency data collected during 2005–2022 to derive hourly ice accumulation at 883 stations across the contiguous USA. These estimates are combined with wind gust observations to compute time series of hourly FZG hazard magnitude using the Sperry–Piltz Ice Accumulation (SPIA) index. Results are evaluated using Storm Reports of damage and economic disruption. The hourly SPIA estimates are also used to (i) derive a geospatial atlas of the hazard including the 50 yr return period event intensities for each US state derived using superstations, and (ii) describe storylines of significant events in terms of meteorological drivers and socioeconomic impacts. The highest values of SPIA during the 18 yr study period occur in a region extending from the Southern Great Plains over the Midwest into the densely populated Northeast. States in these regions also have high 50 yr return period maximum radial ice accumulation of 3–5 cm and co-occurring wind gusts >30 ms −1 . These values are comparable to past estimates for the 500 yr event which may imply this hazard has been previously underestimated. This atlas can be used to inform optimal FZG hazard mitigation strategies for each state/region.

58 GEOSCIENCES↗
DOE OSTI2020

Comprehensive analyses of 723 transcriptomes enhance genetic and biological interpretations for complex traits in cattle

By uniformly analyzing 723 RNA-seq data from 91 tissues and cell types, we built a comprehensive gene atlas and studied tissue specificity of genes in cattle. We demonstrated that tissue-specific genes significantly reflected the tissue-relevant biology, showing distinct promoter methylation and evolution patterns (e.g., brain-specific genes evolve slowest, whereas testisspecific genes evolve fastest). Through integrative analyses of those tissue-specific genes with large-scale genome-wide association studies, we detected relevant tissues/cell types and candidate genes for 45 economically important traits in cattle, including blood/immune system (e.g., CCDC88C) for male fertility, brain (e.g., TRIM46 and RAB6A) for milk production, and multiple growth-related tissues (e.g., FGF6 and CCND2) for body conformation. We validated these findings by using epigenomic data across major somatic tissues and sperm. Collectively, our findings provided novel insights into the genetic and biological mechanisms underlying complex traits in cattle, and our transcriptome atlas can serve as a primary source for biological interpretation, functional validation, studies of adaptive evolution, and genomic improvement in livestock.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Measurement of the Mo 100 ( α , x n ) cross section at weak r -process energies

Here, the weak r process in neutrino-driven winds following a core-collapse supernova is thought to contribute to the cosmic abundances of the first r-process peak elements between Se and Ag. Sensitivity studies have found that the early nucleosynthesis in the weak r process is primarily driven by (α, xn) reactions due to the high temperatures, and that current nuclear physics uncertainties in the (α, xn) rates result in significant uncertainties of the calculated abundances. The weak r-process path proceeds several nuclei away from stability where (α, xn) reaction cross sections have not yet been measured. In this paper we report the 100 Mo (α, xn) cross section (between 8.9 and 13.2 MeV in the center of mass, corresponding to 3.5–6.8 GK) in inverse kinematics using the Multi-Sampling Ionization Chamber (MUSIC) detector at the Argonne Tandem Linac Accelerator System (ATLAS) facility. With this first measurement of the 100 Mo (α, xn) cross section, we have demonstrated the ability of MUSIC to measure (α, xn) cross sections for A up to 100, therefore paving the way for further measurements with radioactive beams at ATLAS or the Facility for Rare Isotope Beams.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

Simple model to investigate jet quenching and correlated errors for centrality-dependent nuclear modification factors in relativistic heavy-ion collisions

Here, we apply Bayesian techniques to compare a simple, empirical model for jet quenching in heavy-ion collisions to centrality-dependent jet R AA measured by ATLAS for Pb + Pb collisions at $\sqrt{s_{NN}}$ = 5.02 TeV. We find that the R AA values for central collisions are adequately described with a model for the mean p T -dependent jet energy loss using only two parameters. This model is extended by incorporating two-dimensional initial geometry information from TRENTo and compared to centrality-dependent R AA values. We find that the results are sensitive to the value of the jet-quenching formation time, τ ƒ , and that the optimal value of τ ƒ varies with the assumed path-length dependence of the energy loss. We construct a covariance error matrix for the data from the p T -dependent contributions to the ATLAS systematic errors and perform Bayesian calibrations for several different assumptions for the systematic error correlations. We show that the most-probable functions and $χ^2_d$ values are sensitive to assumptions made when fitting to correlated errors. This work demonstrates the utility of a simple model that can quickly demonstrate the constraining power of jet-quenching observables with corresponding uncertainties and guide future studies using more sophisticated models.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2025

Hard-photon-triggered jets in 𝑝−𝑝 and 𝐴−𝐴 collisions

An investigation of high-transverse-momentum (high-𝑝 𝑇 ) photon-triggered jets in proton-proton (𝑝−𝑝) and ion-ion (𝐴−𝐴) collisions at $\sqrt{s_{NN}}$=0.2 and 5.02TeV is carried out, using the multistage description of in-medium jet evolution. Monte Carlo simulations of hard scattering and energy loss in heavy-ion collisions are performed using parameters tuned in a previous study of the nuclear modification factor (𝑅 𝐴⁢𝐴 ) for inclusive jets and high-𝑝𝑇 hadrons. We obtain a good reproduction of the experimental data for photon-triggered jet 𝑅 𝐴⁢𝐴 , as measured by the ATLAS detector, the distribution of the ratio of jet to photon 𝑝 𝑇 (𝑋 𝐽⁢𝛾 ), measured by both CMS and ATLAS, and the photon-jet azimuthal correlation as measured by CMS. We obtain a moderate description of the photon-triggered jet 𝐼 𝐴⁢𝐴 , as measured by STAR. A noticeable improvement in the comparison is observed when one goes beyond prompt photons and includes bremsstrahlung and decay photons, revealing their significance in certain kinematic regions, particularly at 𝑋 𝐽⁢𝛾 >1. Moreover, azimuthal angle correlations demonstrate a notable impact of bremsstrahlung photons on the distribution, emphasizing their role in accurately describing experimental results. This work highlights the success of the multistage model of jet modification to straightforwardly predict (this set of) photon-triggered jet observables. This comparison, along with the role played by bremsstrahlung photons, has important consequences on the inclusion of such observables in a future Bayesian analysis.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗