Performance of a 3 cc Yb+ trap as a microwave clock after 10 years
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Thrasher, Daniel Adam↗
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An expedited screening platform for the discovery of anti-ageing compounds in vitro and in vivo
Background: Restraining or slowing ageing hallmarks at the cellular level have been proposed as a route to increased organismal lifespan and healthspan. Consequently, there is great interest in anti-ageing drug discovery. However, this currently requires laborious and lengthy longevity analysis. Here, we present a novel screening readout for the expedited discovery of compounds that restrain ageing of cell populations in vitro and enable extension of in vivo lifespan. Methods: Using Illumina methylation arrays, we monitored DNA methylation changes accompanying long-term passaging of adult primary human cells in culture. This enabled us to develop, test, and validate the CellPopAge Clock, an epigenetic clock with underlying algorithm, unique among existing epigenetic clocks for its design to detect anti-ageing compounds in vitro. Additionally, we measured markers of senescence and performed longevity experiments in vivo in Drosophila, to further validate our approach to discover novel anti-ageing compounds. Finally, we bench mark our epigenetic clock with other available epigenetic clocks to consolidate its usefulness and specialisation for primary cells in culture. Results: We developed a novel epigenetic clock, the CellPopAge Clock, to accurately monitor the age of a population of adult human primary cells. We find that the CellPopAge Clock can detect decelerated passage-based ageing of human primary cells treated with rapamycin or trametinib, well-established longevity drugs. We then utilise the CellPopAge Clock as a screening tool for the identification of compounds which decelerate ageing of cell populations, uncovering novel anti-ageing drugs, torin2 and dactolisib (BEZ-235). We demonstrate that delayed epigenetic ageing in human primary cells treated with anti-ageing compounds is accompanied by a reduction in senescence and ageing biomarkers. Finally, we extend our screening platform in vivo by taking advantage of a specially formulated holidic medium for increased drug bioavailability in Drosophila. We show that the novel anti-ageing drugs, torin2 and dactolisib (BEZ-235), increase longevity in vivo. Conclusions: Our method expands the scope of CpG methylation profiling to accurately and rapidly detecting anti-ageing potential of drugs using human cells in vitro, and in vivo, providing a novel accelerated discovery platform to test sought after anti-ageing compounds and geroprotectors.
60 APPLIED LIFE SCIENCES↗
Time-Energy Uncertainty Relation for Noisy Quantum Metrology
Detection of very weak forces and precise measurement of time are two of the many applications of quantum metrology to science and technology. To sense an unknown physical parameter, one prepares an initial state of a probe system, allows the probe to evolve as governed by a Hamiltonian 𝐻 for some time 𝑡, and then measures the probe. If 𝐻 is known, we can estimate 𝑡 by this method; if 𝑡 is known, we can estimate classical parameters on which 𝐻 depends. The accuracy of a quantum sensor can be limited by either intrinsic quantum noise or by noise arising from the interactions of the probe with its environment. In this work, we introduce and study a fundamental trade-off, which relates the amount by which noise reduces the accuracy of a quantum clock to the amount of information about the energy of the clock that leaks to the environment. Specifically, we consider an idealized scenario in which a party Alice prepares an initial pure state of the clock, allows the clock to evolve for a time that is not precisely known, and then transmits the clock through a noisy channel to a party Bob. Meanwhile, the environment (Eve) receives any information about the clock that is lost during transmission. We prove that Bob’s loss of quantum Fisher information about the elapsed time is equal to Eve’s gain of quantum Fisher information about a complementary energy parameter. We also prove a similar, but more general, trade-off that applies when Bob and Eve wish to estimate the values of parameters associated with two noncommuting observables. We derive the necessary and sufficient conditions for the accuracy of the clock to be unaffected by the noise, which form a subset of the Knill-Laflamme error-correction conditions. A state and its local time-evolution direction, if they satisfy these conditions, are said to form a metrological code. We provide a scheme to construct metrological codes in the stabilizer formalism. We show that there are metrological codes that cannot be written as a quantum error-correcting code with similar distance in which the Hamiltonian acts as a logical operator, potentially offering new schemes for constructing states that do not lose any sensitivity upon application of a noisy channel. We discuss applications of the trade-off relation to sensing using a quantum many-body probe subject to erasure or amplitude-damping noise.
metrology↗
Dynamic voltage frequency scaling based on active memory barriers
A processing unit includes compute units partitioned into one or islands that are provided with operating voltages and clock signals having clock frequencies independent of providing operating voltages or clock signals to other islands of compute units. The processing unit also includes dynamic voltage and frequency scaling (DVFS) hardware configured to compute one or more numbers of active memory barriers in the one or more islands. The DVFS hardware is also configured to modify the operating voltages or clock frequencies provided to the one or more islands in response to a change in numbers of active memory barriers in the one or more islands. In some cases, the operating voltage or clock frequency provided to an island is increased in response to the number of active memory barriers in the island decreasing. The operating voltage or clock frequency provided to the island is decreased in response to the number of active memory barriers in the island increasing.
Bharadwaj, Vedula Venkata Srikant↗
Performance of 3 cm 3 ion trap vacuum package sealed for 10 years
Miniature atomic clocks based on the interrogation of the ground state hyperfine splitting of buffer gas cooled ions confined in radio frequency Paul traps have shown great promise as high precision prototype clocks. We report on the performance of two miniature ion trap vacuum packages after being sealed for as much as 10 years. We find the lifetime of the ions within the trap has increased over time for both traps and can be as long as 50 days. We form two clocks using the two traps and compare their relative frequency instability one with another to demonstrate a short-term instability of 5×10 -13 $τ$ -1/2 integrating down to 1×10 -14 after 2 ks of integration. The trapped ion lifetime and clock instability demonstrated by these miniature devices despite only being passively pumped for many years represents a critical advance toward their proliferation in the clock community.
74 ATOMIC AND MOLECULAR PHYSICS↗
Discrete time analog front end circuit implemented in a receiver device
A device can comprise a peaked integrator circuit that generates an output signal from a continuous time signal based on a sub rate clock timing cycle. The device can further comprise a track and hold circuit coupled to the output of the peaked integrator that generates a held discrete time signal from the output of the peaked integrator based on a second sub rate clock timing cycle that is offset in time from the sub rate clock timing cycle by a single time unit interval. The device can further comprise an integrator circuit coupled to an output of the track and hold circuit that integrates the held discrete time signal, based on the second sub rate clock timing cycle that is offset in time from the sub rate clock timing cycle by a single time unit interval.
42 ENGINEERING↗
Data exchange and processing synchronization in distributed systems
Systems, methods, techniques and apparatuses of asynchronous communication is distributed systems are disclosed. One exemplary embodiment is a method determining, with a plurality of agent nodes structured to communicate asynchronously in a distributed system, a first set of iterations including an iteration determined by each of the plurality of agent nodes; determining, with a first agent node of the plurality of agent nodes, a local vector clock; receiving, with the first agent node, a first iteration of the first set of iterations and a remote vector clock determined based on the first iteration; updating, with the first agent node, the local vector clock based on the received remote vector clock; and determining a first iteration of a second set of iterations based on the first set of iterations after determining all iterations of the first set of iterations have been received based on the local vector clock.
Cintuglu, Mehmet H.↗
Picosecond Synchronization System for the Distribution of Photon Pairs Through a Fiber Link Between Fermilab and Argonne National Laboratories
Here we demonstrate a three-node quantum network for C-band photon pairs using 2 pairs of 59 km of deployed fiber between Fermi and Argonne National Laboratories. The C-band pairs are directed to nodes using a standard telecommunication switch and the detection system is synchronized to picosecond scale timing resolution using a coexisting O-or L-band optical clock distribution system. We measure a reduction of coincidence to-accidental ratio (CAR) of the C-band pairs from 51 ± 2 to 5.3 ± 0.4 due to Raman scattering of the O-band clock pulses. Despite this reduction, the CAR is nevertheless suitable for quantum networks.
71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
Symmetry breaking in an extended O(2) model
Motivated by attempts to quantum simulate lattice models with continuous Abelian symmetries using discrete approximations, we study an extended-O(2) model in two dimensions that differs from the ordinary O(2) model by the addition of an explicit symmetry breaking term − h q cos ( q φ ) . Its coupling h q allows to smoothly interpolate between the O(2) model ( h q = 0 ) and a q -state clock model ( h q → ∞ ). In the latter case, a q -state clock model can also be defined for noninteger values of q . Thus, such a limit can also be considered as an analytic continuation of an ordinary q -state clock model to noninteger q . In previous work, we established the phase diagram for noninteger q in the infinite coupling limit ( h q → ∞ ). We showed that there is a second-order phase transition at low temperature and a crossover at high temperature. In this work, we seek to establish the phase diagram at finite values of the coupling using Monte Carlo and tensor methods. We show that for noninteger q , the second-order phase transition at low temperature and crossover at high temperature persist to finite coupling. For integer q = 2 , 3, 4, we know there is a second-order phase transition at infinite coupling (i.e. the well-known clock models). At finite coupling, we find that the critical exponents for q = 3 , 4 vary with the coupling, and for q = 4 the transition may turn into a Berezinskii-Kosterlitz-Thouless transition at small coupling. We comment on the similarities and differences of the phase diagrams with those of quantum simulators of the Abelian-Higgs model based on ladder-shaped arrays of Rydberg atoms. Published by the American Physical Society 2024
Astronomy & Astrophysics↗
Theory and Implementation of the Spectacular Nonlinear Viscoelastic Constitutive Model
This report is a comprehensive guide to the nonlinear viscoelastic Spectacular model, which is an isotropic, thermo-rheologically simple constitutive model for glass-forming materials, such as amorphous polymers. Spectacular is intermediate in complexity to the previous PEC and SPEC models (Potential Energy Clock and Simplified Potential Energy Clock models, respectively). The model form consists of two parts: a Helmholtz free energy functional and a nonlinear material clock that controls the rate of viscoelastic relaxation. The Helmholtz free energy is derived from a series expansion about a reference state. Expressions for the stress and entropy functionals are derived from the Helmholtz free energy following the Rational Mechanics approach. The material clock depends on a simplified expression for the potential energy, which itself is a functional of the temperature and strain histories. This report describes the thermo-mechanical theory of Spectacular, the numerical methods for time-integrating the model, model verification for its implementation in LAMÉ, a user guide for its implementation in LAMÉ, and ideas for future work. A number of appendices provide supplementary mathematical details and a description of the procedure used to derive the simplified potential energy from the full expression for the potential energy. The goal of this report is create a convenient point-of-entry for engineers who wish to learn more about Spectacular, but also to serve as a reference manual for advanced users of the model.
36 MATERIALS SCIENCE↗
NLR HPC Eagle GPU Node Metrics
Ganglia node metrics and iLO (Integrated Lights Out) power data captured from six representative Eagle GPU nodes The Eagle HPC operated at NLR from 2019 through 2024. Eagle was a 2,000-node, 8-petaflop system. This dataset is a representative sample of metrics for 6 of the GPU nodes. Each GPU node contained 2 CPUs and 2 GPUs. Data provided in compressed CSV format. Ganglia and iLO Power Time Series Fields ts: Timestamp dv: Device / Node - Rack and Unit - r103u17 == r(ack)103u(nit)17 mt: Metric (only present for Ganglia) vl: Value - Value in watts for iLO power (instantaneous value at sampling time) or specified Ganglia metric below Ganglia Metrics Metric name -- Metric description -- Unit cpu_aidle -- Percent of time since boot idle CPU -- Percent cpu_idle -- Percent CPU idle -- Percent cpu_nice -- Percent CPU nice -- Percent cpu_speed -- Speed in MHz of CPU -- MHz cpu_user -- Percent CPU user -- Percent cpu_wio -- The percentage of CPU Wait I/O -- Percent gpu0_bar1_memory -- Used GPU bar1 memory -- MB gpu0_decoder_util -- GPU decoder utilization -- Percent gpu0_ecc_db_error -- Total ECC error counts for the GPU -- Number gpu0_encoder_util -- GPU encoder utilization -- Percent gpu0_fan -- Fan speed -- RPM gpu0_fb_memory -- Used GPU framebuffer memory -- MB gpu0_graphics_clock_report -- Current clock speeds for the device -- MHz gpu0_mem_total -- Memory total -- MB gpu0_mem_util -- Memory utilization -- Percent gpu0_power_usage_report -- Power usage report -- Watts gpu0_temp -- GPU 1 temperature -- Celsius gpu1_bar1_memory -- Used GPU bar1 memory -- MB gpu1_decoder_util -- GPU decoder utilization -- Percent gpu1_ecc_db_error -- Total ECC error counts for the GPU -- Number gpu1_encoder_util -- GPU encoder utilization -- Percent gpu1_fan -- Fan speed -- RPM gpu1_fb_memory -- Used GPU framebuffer memory -- MB gpu1_graphics_clock_report -- Current clock speeds for the GPU -- MHz gpu1_mem_total -- Memory total -- MB gpu1_mem_util -- Memory utilization -- MB gpu1_power_usage_report -- Power usage report -- Watts gpu1_temp -- GPU 1 temperature -- Celsius ipmi_cpu1_temp -- CPU 1 temperature -- Celsius ipmi_cpu2_temp -- CPU 2 temperature -- Celsius ipmi_inlet_ambient_temp -- Temperature measured at intake -- Celsius ipmi_vr_p1_temp -- CPU 1 voltage regulator temperature -- Celsius ipmi_vr_p2_temp -- CPU 2 voltage regulator temperature -- Celsius mem_buffers -- Amount of buffered memory -- Bytes mem_cached -- Amount of cached memory -- Bytes mem_free -- Amount of available memory -- Bytes mem_shared -- Amount of shared memory -- Bytes mem_total -- Amount of available memory -- Bytes
97 MATHEMATICS AND COMPUTING↗
Soft error-mitigating semiconductor design system and associated methods
A soft error-mitigating semiconductor design system and associated methods that tailor circuit design steps to mitigate corruption of data in storage elements (e.g., flip flops) due to Single Events Effects (SEEs). Required storage elements are automatically mapped to triplicated redundant nodes controlled by a voting element that enforces majority-voting logic for fault-free output (i.e., Triple Modular Redundancy (TMR)). Storage elements are also optimally positioned for placement in keeping with SEE-tolerant spacing constraints. Additionally, clock delay insertion (employing either a single global clock or clock triplication) in the TMR specification may introduce useful skew that protects against glitch propagation through the designed device. The resultant layout generated from the TMR configuration may relax constraints imposed on register transfer level (RTL) engineers to make rad-hard designs, as automation introduces TMR storage registers, memory element spacing, and clock delay/triplication with minimal designer input.
Miryala, Sandeep↗
Soft error-mitigating semiconductor design system and associated methods
A soft error-mitigating semiconductor design system and associated methods that tailor circuit design steps to mitigate corruption of data in storage elements (e.g., flip flops) due to Single Events Effects (SEEs). Required storage elements are automatically mapped to triplicated redundant nodes controlled by a voting element that enforces majority-voting logic for fault-free output (i.e., Triple Modular Redundancy (TMR)). Storage elements are also optimally positioned for placement in keeping with SEE-tolerant spacing constraints. Additionally, clock delay insertion (employing either a single global clock or clock triplication) in the TMR specification may introduce useful skew that protects against glitch propagation through the designed device. The resultant layout generated from the TMR configuration may relax constraints imposed on register transfer level (RTL) engineers to make rad-hard designs, as automation introduces TMR storage registers, memory element spacing, and clock delay/triplication with minimal designer input.
Miryala, Sandeep↗
Register-Like Storage Block Used as Histograms, Cluster Buffers, and Hough Transform Accumulators for HEP Trigger Systems
In high energy physics experiment trigger systems, block memories are utilized for various purposes, especially in binned searching algorithms. In these algorithms, the storages are demanded to perform like a large set of registers. The writing and reading operation must be performed in single clock cycle and once an event is processed, the memory must be globally reset. These demands can be fulfilled with registers but the cost of using registers for large memory is unaffordable. Another common requirement is the boundary coverage feature during reading process. Additionally, when a memory bin is addressed, the stored contents in the addressed bin and its neighboring bin must be output simultaneously. In this paper, a register-like block storage design scheme is described, which allows updating memory locations in single clock cycle, reading two adjacent bins, and effectively refreshing entire memory within a single clock. The implementation and test results are presented.
46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
Development of DNA methylation‐based epigenetic age predictors in loblolly pine ( Pinus taeda )
Abstract Biological ageing is connected to life history variation across ecological scales and informs a basic understanding of age‐related declines in organismal function. Altered DNA methylation dynamics are a conserved aspect of biological ageing and have recently been modelled to predict chronological age among vertebrate species. In addition to their utility in estimating individual age, differences between chronological and predicted ages arise due to acceleration or deceleration of epigenetic ageing, and these discrepancies are linked to disease risk and multiple life history traits. Although evidence suggests that patterns of DNA methylation can describe ageing in plants, predictions with epigenetic clocks have yet to be performed. Here, we resolve the DNA methylome across CpG, CHG, and CHH‐methylation contexts in the loblolly pine tree ( Pinus taeda ) and construct epigenetic clocks capable of predicting ages in this species within 6% of its maximum lifespan. Although patterns of CHH‐methylation showed little association with age, both CpG and CHG‐methylation contexts were strongly associated with ageing, largely becoming hypomethylated with age. Among age‐associated loci were those in close proximity to malate dehydrogenase, NADH dehydrogenase, and 18S and 26S ribosomal RNA genes. This study reports one of the first epigenetic clocks in plants and demonstrates the universality of age‐associated DNA methylation dynamics which can inform conservation and management practices, as well as our ecological and evolutionary understanding of biological ageing in plants.
60 APPLIED LIFE SCIENCES↗
Rhythmic Mechanisms Governing CAM Photosynthesis in Kalanchoe fedtschenkoi : High-Resolution Temporal Transcriptomics
Crassulacean acid metabolism (CAM) is a specialized photosynthetic pathway that enhances water-use efficiency by temporally separating nocturnal CO 2 uptake from daytime decarboxylation and carbon fixation. To uncover the regulatory mechanisms coordinating these temporal dynamics, we generated high-resolution, 48 h time-course transcriptomes for the CAM model Kalanchoe fedtschenkoi under both 12 h/12 h light/dark (LD) cycles and continuous light (LL). A rhythmicity analysis revealed that diel light cues are the dominant driver of transcript oscillations: 16,810 genes (54.3% of annotated genes) exhibited rhythmic expression only under LD, whereas just 399 genes (1.3%) remained rhythmic under LL. A smaller set of 3009 genes (9.7%) oscillated in both conditions, indicating that the intrinsic circadian clock sustains rhythmicity for a limited subset of the transcriptome. A gene co-expression network analysis revealed extensive integration between circadian clock components, core CAM pathway enzymes, and stomatal regulators, defining regulatory modules that coordinate metabolic and physiological timing. Notably, key hub genes associated with post-translational and post-transcriptional regulation, including the E3 ubiquitin ligase HUB2 and several pentatricopeptide repeat (PPR) proteins, act as central nodes in CAM-associated networks. This discovery implicates epigenetic and organellar regulation as previously unrecognized critical tiers of control in CAM. Together, our results support a regulatory model in which CAM rhythmicity is governed by both external light/dark cues and the endogenous circadian clock through multi-level control spanning transcriptional and protein-level regulation. To support community exploration, we also provide an interactive eFP (electronic Fluorescent Pictograph) browser for visualizing time-resolved gene expression profiles.
09 BIOMASS FUELS↗
Parallel-in-time quantum simulation via Page and Wootters quantum time
In the past few decades, researchers have created a veritable zoo of quantum algorithms by drawing inspiration from classical computing, information theory, and even from physical phenomena. Here, we present quantum algorithms for parallel-in-time simulations that are inspired by the Page and Wootters formalism. In this framework, and thus in our algorithms, the classical time variable of quantum mechanics is promoted to the quantum realm by introducing a Hilbert space of “clock” qubits that are then entangled with the “system” qubits. We show that our algorithms can compute temporal properties over 𝑁 different times of many-body systems by only using log(𝑁) clock qubits. As such, we achieve an exponential trade-off between time and spatial complexities. In addition, we rigorously prove that the entanglement created between the system qubits and the clock qubits has operational meaning, as it encodes valuable information about the system’s dynamics. We also provide a circuit depth estimation of all the protocols, showing a running time advantage in computation times over traditional sequential-in-time algorithms. In particular, for the case when the dynamics are determined by the Aubry-Andre model, we present a hybrid method for which our algorithms have a depth that only scales as 𝒪(log(𝑁)𝑛). As a by-product, we can relate the previous schemes to the problem of equilibration of an isolated quantum system, thus indicating that our framework enables a new dimension for studying dynamical properties of many-body systems.
71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
OpenSAMPL: An Open Source Library for Timing and Synchronization Measurements and Analytics
Today's power grid operators are implementing timing and synchronization solutions that provide resilience to Global Navigation Satellite System (GNSS) vulnerabilities. These vendor-specific solutions often come with additional software applications that are designed to monitor that vendor's synchronization performance data. However, resilient timing architectures often resulting in multi-vendor solutions, including approaches that blend terrestrial clocks with space-based subscription services. In such an environment, collecting, analyzing, and visualizing data from a variety of sources within a single platform was heretofore not possible. To address this need, the US Department of Energy's Center for Alternative Synchronization and Timing (CAST) developed OpenSAMPL, the Open Synchronized Analytics and Monitoring Platform, an open-source Python framework for processing, loading, and observing clock measurement data from distributed devices. OpenSAMPL enables the ingestion of diverse clock-probe sources into a scalable time-series database and applies robust analytics. OpenSAMPL currently supports two vendor data pipelines, and will be extended to more in the near future, enabling seamless monitoring of a variety of timing and synchronization devices in a common environment.
Grant, Josh [ORNL] (ORCID:0000000163475060)↗