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At least 19 records

Data Analysis using Psocake at PAL-XFEL

Psocake is a software program designed for high throughput data reduction and analysis of free-electron laser experiments. Its serial crystallography graphical user interface allows browsing of detector images, Bragg peak finding with easy parameter tuning, generate region-of-interest masks, and crystal indexing. It was originally developed for use at the Linac Coherent Light Source, SLAC national accelerator laboratory and has been adopted for use at Pohang accelerator laboratory due to popular demand. Here, we describe the features of psocake available at Pohang and include information about data management that we hope will be useful for users of the facility.

43 PARTICLE ACCELERATORS↗

Quality of Life in Patients With Brain Metastases Using the EORTC QLQ-BN20+2 and QLQ-C15-PAL

Purpose: The 20-item European Organisation for Research and Treatment of Cancer Quality of Life Questionnaire-Brain Neoplasm (QLQ-BN20) is a validated quality-of-life (QOL) questionnaire for patients with primary brain tumors. The European Organisation for Research and Treatment of Cancer Quality of Life Questionnaire-Core 15 Palliative (QLQ-C15-PAL) core palliative questionnaire is a 15-item version of the core 30-item QLQ-C30 and was developed to decrease the burden on patients with advanced cancer. The combination of the QLQ-BN20 and QLQ-C30 to assess QOL may be too burdensome for patients. The primary aim of this study was to assess QOL in patients before and after treatment for brain metastases using the QLQ-BN20+2 and QLQ-C15-PAL, a version of the QLQ-BN20 questionnaire with 2 additional questions assessing cognitive functioning that were not addressed in the QLQ-C15-PAL. Methods and Materials: Patients with brain metastases completed the QLQ-C15-PAL and QLQ-BN20+2 questionnaires to assess QOL before and 1 month after radiation. Linear regression analysis was used to assess changes in QOL scores over time, as well as to explore associations between the QLQ-BN20+2 and QLQ-C15-PAL scales, patient demographics, and clinical variables. Spearman correlation assessed associations between the QLQ-BN20+2 and QLQ-C15-PAL scales. Results: Among 108 patients, the majority (55%) received whole-brain radiotherapy only, with 65% of patients completing follow-up at 1 month after treatment. The most prominent symptoms at baseline were future uncertainty (QLQ-BN20+2) and fatigue (QLQ-C15-PAL). After treatment, significant improvement was seen for the QLQ-C15-PAL insomnia scale, as well as the QLQ-BN20+2 scales of future uncertainty, visual disorder, and concentration difficulty. Baseline Karnofsky Performance Status was negatively correlated to QLQ-BN20+2 motor dysfunction but positively related to QLQ-C15-PAL physical functioning and QLQ-BN20+2 cognitive functioning at baseline and follow-up. QLQ-BN20+2 scales of future uncertainty and motor dysfunction correlated with the most QLQ-C15-PAL scales, including overall QOL (negative association) at baseline and follow-up. Conclusion: After radiation, the questionnaires showed maintenance of QOL and improvement of QOL scores such as future uncertainty, which featured prominently in this patient population. It is proposed that the 37-item QLQ-BN20+2 and QLQ-C15-PAL, as opposed to the 50-item QLQ-BN20 and QLQ-C30, may be used together as a universal QOL assessment tool in this setting.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Effects of PHENYLALANINE AMMONIA LYASE ( PAL ) knockdown on cell wall composition, biomass digestibility, and biotic and abiotic stress responses in Brachypodium

The phenylpropanoid pathway in plants synthesizes a variety of structural and defence compounds, and is an important target in efforts to reduce cell wall lignin for improved biomass conversion to biofuels. Little is known concerning the trade-offs in grasses when perturbing the function of the first gene family in the pathway, PHENYLALANINE AMMONIA LYASE ( PAL ). Therefore, PAL isoforms in the model grass Brachypodium distachyon were targeted, by RNA interference (RNAi), and large reductions (up to 85%) in stem tissue transcript abundance for two of the eight putative BdPAL genes were identified. The cell walls of stems of BdPAL -knockdown plants had reductions of 43% in lignin and 57% in cell wall-bound ferulate, and a nearly 2-fold increase in the amounts of polysaccharide-derived carbohydrates released by thermochemical and hydrolytic enzymic partial digestion. PAL -knockdown plants exhibited delayed development and reduced root growth, along with increased susceptibilities to the fungal pathogens Fusarium culmorum and Magnaporthe oryzae . Surprisingly, these plants generally had wild-type (WT) resistances to caterpillar herbivory, drought, and ultraviolet light. RNA sequencing analyses revealed that the expression of genes associated with stress responses including ethylene biosynthesis and signalling were significantly altered in PAL knocked-down plants under non-challenging conditions. These data reveal that, although an attenuation of the phenylpropanoid pathway increases carbohydrate availability for biofuel, it can adversely affect plant growth and disease resistance to fungal pathogens. Lastly, the data identify notable differences between the stress responses of these monocot pal mutants versus Arabidopsis (a dicot) pal mutants and provide insights into the challenges that may arise when deploying phenylpropanoid pathway-altered bioenergy crops.

60 APPLIED LIFE SCIENCES↗

Design of Monolithic Bi-Layer High-Z PAL-Si Hard X-ray CMOS Image Sensors for Quantum Efficiency Enhancement

This article experimentally investigates the inception of an innovative hard X-ray photon energy attenuation layer (PAL) to advance high-energy X-ray detection (20–50 keV). A bi-layer design with a thin film high-Z PAL on the top and Si image sensor on the bottom has previously demon-strated quantum yield enhancement via computational methods by the principle of photon energy down conversion (PEDC), where high-energy X-ray photon energies are attenuated via inelastic scattering down to ≤10 keV, which is suitable for efficient photoelectric absorption by Si. Quantum yield enhancement has been experimentally confirmed via a preliminary demonstration using PAL-integrated Si-based CMOS image sensors (Si CIS). Furthermore, substituting the high-Z PAL with a lower-Z material—Sn—and alternatively coupling it with a conventional scintillator ma-terial—Lutetium-yttrium oxyorthosilicate (LYSO)—have been compared to demonstrate the most prominent efficacy of monolithic integration of high-Z PAL on Si CIS to detect hard X-rays, paving the way for next-generation high-energy X-ray detection methods.

47 OTHER INSTRUMENTATION↗

Candidate members of the Pal 5, GD-1, Cetus Polar and Orphan tidal stellar halo streams from SDSS DR9, LAMOST DR3 and APOGEE catalogs

We present candidate members of the Pal 5, GD-1, Cetus Polar, and Orphan tidal stellar streams found in LAMOST DR3, SDSS DR9 and APOGEE catalogs. In LAMOST DR3, we find 20, 4, 24 high confidence candidates of tidal streams GD-1, Cetus Polar and Orphan respectively. We also list from the SDSS DR9 spectroscopic catalog 59, 118, 10 high confidence candidates of tidal streams Cetus Polar, Orphan and Pal 5, respectively. Furthermore, we find 7 high confidence candidates of the Pal 5 tidal stream in APOGEE data. Compared with SDSS, the new candidates from LAMOST DR3 are brighter, so that together, more of the color-magnitude diagram, including the giant branch can be explored. Analysis of SDSS data shows that there are 3 metallicity peaks of the Orphan stream and also shows some spatial separation. LAMOST data confirms multiple metallicities in this stream. The metallicity, given by the higher resolution APOGEE instrument, of the Pal 5 tidal stream is [Fe/H] $\sim -1.2$, higher than that given earlier by SDSS spectra. Here, many previously unidentified stream members are tabulated here for the first time, along with existing members, allowing future researchers to further constrain the orbits of these objects as they move within the Galaxy's dark matter potential.

79 ASTRONOMY AND ASTROPHYSICS↗

Investigation of the damping wiggler effect and application on the PAL fourth-generation storage ring

An investigation of the damping wiggler effect to reduce the emittance in the Pohang Accelerator Laboratory (PAL), a fourth-generation storage ring (4GSR) that uses a multi-bend achromat, is presented. Furthermore, a 4GSR lattice which has reduced emittance and increased dynamic aperture to amplify the synergy with two existing light sources (PLS-II and PAL-XFEL) at PAL is described.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

PALS Python v0.1.0

This is a Python implementation for the Particle Accelerator Lattice Standard (PALS). To define the PALS schema, Pydantic is used to map to Python objects, perform automatic validation, and serialize/deserialize data classes to/from many modern file formats. Various modern file formats (e.g., YAML, JSON, TOML, XML, etc.) are supported, which makes the implementation of the schema-following files in any modern programming language easy (e.g., Python, Julia, C++, LUA, Javascript, etc.). Here, we do Python.

Huebl, Axel [Lawrence Berkeley National Laboratory↗

Progress in the development of the community Particle Accelerator Lattice Standard (PALS)

The Particle Accelerator Lattice Standard (PALS) is a community effort to create an open standard to promote lattice information exchange for particle accelerators. PALS development is a community-wide international effort involving accelerator physicists from multiple institutions. While it started as a lattice standard for beam dynamics simulations, it is now being extended to support other particle accelerator activities, in particular accelerator operation. With new accelerators that are becoming more complex, larger collaborations and the increasing imprint of artificial intelligence in all accelerator activities (from design to operation to workforce development), the imperative for a common, standardized accelerator ontology has been transitioning from “nice-to-have” to “must-have”. We will present the status of the project, its relations to other projects, including to two of the particle accelerator projects of the newly announced US DOE Genesis Mission: the Multi-Office Accelerator Team (MOAT) project and the Nuclear physics AI-Ready Accelerator Data (NARAD) project.

Brynes, A. [Science and Technology Facilities Coun↗

The shape of the inner Milky Way halo from observations of the Pal 5 and GD-1 stellar streams

We constrain the shape of the Milky Way’s halo by dynamical modeling of the observed phase-space tracks of the Pal 5 and GD–1 tidal streams. We find that the only information about the potential gleaned from the tracks of these streams are precise measurements of the shape of the gravitational potential—the ratio of vertical to radial acceleration—at the location of the streams, with weaker constraints on the radial and vertical accelerations separately. The latter will improve significantly with precise proper-motion measurements from Gaia. We measure that the overall potential flattening is 0.95 ± 0.04 at the location of GD–1 ([R,Z]≈[12.5,6.7] kpc) and 0.94 ± 0.05 at the position of Pal 5 ([R,Z]≈[8.4,16.8] kpc). Combined with constraints on the force field near the Galactic disk, we determine that the axis ratio of the dark-matter halo’s density distribution is 1.05 ± 0.14 within the inner 20 kpc, with a hint that the halo becomes more flattened near the edge of this volume. The halo mass within 20 kpc is (1.1±0.1)×10{sup 11} M{sub ⊙}. A dark-matter halo this close to spherical is in tension with the predictions from numerical simulations of the formation of dark-matter halos.

79 ASTRONOMY AND ASTROPHYSICS↗

Glucosinolate and phenylpropanoid biosynthesis are linked by proteasome-dependent degradation of PAL

Plants produce several hundreds of thousands of secondary metabolites that are important for adaptation to various environmental conditions. Although different groups of secondary metabolites are synthesized through unique biosynthetic pathways, plants must orchestrate their production simultaneously. Phenylpropanoids and glucosinolates are two classes of secondary metabolites that are synthesized through apparently independent biosynthetic pathways. Genetic evidence has revealed that the accumulation of glucosinolate intermediates limits phenylpropanoid production in a Mediator Subunit 5 (MED5)-dependent manner. To elucidate the molecular mechanism underlying this process, here we analyzed the transcriptomes of a suite of Arabidopsis thaliana glucosinolate-deficient mutants using RNAseq and identified misregulated genes that are rescued by the disruption of MED5. The expression of a group of Kelch Domain F-Box genes (KFBs) that function in PAL degradation is affected in glucosinolate biosynthesis mutants and the disruption of these KFBs restores phenylpropanoid deficiency in the mutants. Our study suggests that glucosinolate/phenylpropanoid metabolic crosstalk involves the transcriptional regulation of KFB genes that initiate the degradation of the enzyme phenylalanine ammonia-lyase, which catalyzes the first step of the phenylpropanoid biosynthesis pathway. Nevertheless, KFB mutant plants remain partially sensitive to glucosinolate pathway mutations, suggesting that other mechanisms that link the two pathways also exist.

59 BASIC BIOLOGICAL SCIENCES↗

THE PAL 5 STAR STREAM GAPS

Pal 5 is a low-mass, low-velocity-dispersion, globular cluster with spectacular tidal tails. We use the Sloan Digital Sky Survey Data Release 8 data to extend the density measurements of the trailing star stream to 23 deg distance from the cluster, at which point the stream runs off the edge of the available sky coverage. The size and the number of gaps in the stream are measured using a filter which approximates the structure of the gaps found in stream simulations. We find 5 gaps that are at least 99% confidence detections with about a dozen gaps at 90% confidence. The statistical significance of a gap is estimated using bootstrap resampling of the control regions on either side of the stream. The density minimum closest to the cluster is likely the result of the epicyclic orbits of the tidal outflow and has been discounted. To create the number of 99% confidence gaps per unit length at the mean age of the stream requires a halo population of nearly a thousand dark matter sub-halos with peak circular velocities above 1 km s{sup -1} within 30 kpc of the galactic center. These numbers are a factor of about three below cold stream simulation at this sub-halo mass or velocity but, given the uncertainties in both measurement and more realistic warm stream modeling, are in substantial agreement with the LCDM prediction.

79 ASTRONOMY AND ASTROPHYSICS↗

AI-Ready Semantic Infrastructure for CEBAF: From CED to PALS Knowledge Graphs

JLab and PNNL are jointly developing an AI-ready data ecosystem that exposes the Continuous Electron Beam Acceleration Facility’s (CEBAF’s) operational configuration, lattice description, and control-system channels to agentic optimization frameworks through a standards-based semantic layer. The effort integrates the existing facility-specific CEBAF Element Database (CED) with extensions of the emerging facility-agnostic Particle Accelerator Lattice Standard (PALS) to produce a knowledge graph (KG) containing coherent, machine-interpretable views of devices, signals, and regions. With this KG, CEBAF’s setpoints, readbacks, and device hierarchies become queryable using a uniform declarative graph query language (e.g., Neo4j Cypher), providing intents and inspectable semantics suitable for agentic control. The resulting graph-backed interfaces will allow autonomous agents to retrieve authoritative machine configurations, reason over device- and signal-level relationships, and execute tuning and diagnostic workflows without bespoke CEBAF-specific logic, thereby delivering a scalable pathway from operational data to trustworthy agentic accelerator tuning frameworks.

Zhang, He [Thomas Jefferson National Accelerator F↗

Measurement of the target current by inductive probe during laser interaction on terawatt laser system PALS

Measurements of the return-current flowing through a solid target irradiated with the sub-nanosecond kJ-class Prague Asterix Laser System is reported. A new inductive target probe was developed which allows us measuring the target current derivative in a kA/ns range. The dependences of the target current on the laser pulse energy for cooper, graphite, and polyethylene targets are reported. The experiment shows that the target current is proportional to the deposited laser energy and is strongly affected by the shot-to-shot fluctuations. The corresponding maximum target charge exceeded a value of 10 μC. A return-current dependence of the electromagnetic pulse produced by the laser-target interaction is presented.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗