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DOE OSTI2024

Arrayed in vivo barcoding for multiplexed sequence verification of plasmid DNA and demultiplexing of pooled libraries

Sequence verification of plasmid DNA is critical for many cloning and molecular biology workflows. To leverage high-throughput sequencing, several methods have been developed that add a unique DNA barcode to individual samples prior to pooling and sequencing. However, these methods require an individual plasmid extraction and/or in vitro barcoding reaction for each sample processed, limiting throughput and adding cost. Here, we develop an arrayed in vivo plasmid barcoding platform that enables pooled plasmid extraction and library preparation for Oxford Nanopore sequencing. This method has a high accuracy and recovery rate, and greatly increases throughput and reduces cost relative to other plasmid barcoding methods or Sanger sequencing. We use in vivo barcoding to sequence verify >45 000 plasmids and show that the method can be used to transform error-containing dispersed plasmid pools into sequence-perfect arrays or well-balanced pools. In vivo barcoding does not require any specialized equipment beyond a low-overhead Oxford Nanopore sequencer, enabling most labs to flexibly process hundreds to thousands of plasmids in parallel.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Enabling Fairness in Distributed PV Curtailment for Voltage Regulation: A Comparative Analysis

The growing adoption of photovoltaic systems in power distribution networks has yielded numerous advantages, but it has also introduced challenges, particularly in managing overvoltage issues. Uncoordinated photovoltaic integration can lead to voltage rise beyond acceptable levels. Curtailing active power is an effective method for addressing overvoltage issues in power distribution systems. Nevertheless, it is essential to distribute the curtailment fairly among the resources to maintain fairness and achieve a well-balanced utilization of renewable energy. This paper presents a comparative study of different fairness schemes for active power curtailment in photovoltaic integration systems. Three different curtailment methods are selected for demonstration: i) proportional, ii) egalitarian, and iii) financial. The study involves evaluating the curtailment schemes based on their ability to distribute the curtailed power among the photovoltaic systems in a justifiable manner, focusing on their formulation and distributed solution. A detailed performance comparison is carried out to highlight the cost of catering for fairness schemes in photovoltaic curtailment using relevant metrics, where simulations are carried out using a modified IEEE 123-bus test case.

Mukherjee, Monish↗

DOE OSTI2022

A 194nW Energy-Performance-Aware loT SoC Employing a 5.2nW 92.6% Peak Efficiency Power Management Unit for System Performance Scaling, Fast DVFS and Energy Minimization

A self-powered IoT system-on-chip (SoC) reduces power to sub-μw and employs multiple power-management techniques to trade-off ultra-low power (ULP), higher performance, smaller energy harvester footprint, and longer operating lifetime. Minimum Energy Point Tracking (MEPT) [1]–[4] keeps an SoC operating at the minimum energy point (MEP) to enhance system lifetime. Previous sample-and-hold MEPT schemes need frequent voltage comparisons and a high-frequency clock that increases power [2]. Current-ratio-based MEPT relies on specialized CMOS technology for body-bias tuning [3]. A switched-capacitor-based MEPT can achieve energy minimization at a targeted performance [4], but it uses a 30MHz clock witμW power consumption and low power efficiency. For ULP IoT applications, SoCs need to have ultra-low quiescent power, high efficiency for energy delivery, performance scaling based on available energy, and energy minimization to increase system lifetime. In this work, we propose an ULP IoT SoC with a triple-mode power management unit (PMU) that integrates energy-performance scaling, event-driven fast DVFS, and MEPT features to improve the system energy efficiency, as shown in Fig. 13.8.1. This work achieves a minimum 194nW power consumption for the SoC and 5.2nW quiescent power for the PMU with a 92.6% peak efficiency and >10 4 dynamic range. The timing waveform in Fig. 13.8.1 (bottom), demonstrates the transition of the three modes including energy aware (EA), performance aware (PA), and MEPT based on event priority and input voltage level which reflects the energy availability. As such, the system energy consumption and performance could be well-balanced based on both the input and output conditions.

self-powered IoT system-on-chip (SoC)↗

DOE OSTI2022

Higher education responses to COVID-19 in the United States: Evidence for the impacts of university policy

With a dataset of testing and case counts from over 1,400 institutions of higher education (IHEs) in the United States, we analyze the number of infections and deaths from SARS-CoV-2 in the counties surrounding these IHEs during the Fall 2020 semester (August to December, 2020). We find that counties with IHEs that remained primarily online experienced fewer cases and deaths during the Fall 2020 semester; whereas before and after the semester, these two groups had almost identical COVID-19 incidence. Additionally, we see fewer cases and deaths in counties with IHEs that reported conducting any on-campus testing compared to those that reported none. To perform these two comparisons, we used a matching procedure designed to create well-balanced groups of counties that are aligned as much as possible along age, race, income, population, and urban/rural categories—demographic variables that have been shown to be correlated with COVID-19 outcomes. We conclude with a case study of IHEs in Massachusetts—a state with especially high detail in our dataset—which further highlights the importance of IHE-affiliated testing for the broader community. The results in this work suggest that campus testing can itself be thought of as a mitigation policy and that allocating additional resources to IHEs to support efforts to regularly test students and staff would be beneficial to mitigating the spread of COVID-19 in a pre-vaccine environment.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2023

Comparative Study of Variations in Quantum Approximate Optimization Algorithms for the Traveling Salesman Problem

The traveling salesman problem (TSP) is one of the most often-used NP-hard problems in computer science to study the effectiveness of computing models and hardware platforms. In this regard, it is also heavily used as a vehicle to study the feasibility of the quantum computing paradigm for this class of problems. In this paper, we tackle the TSP using the quantum approximate optimization algorithm (QAOA) approach by formulating it as an optimization problem. By adopting an improved qubit encoding strategy and a layer-wise learning optimization protocol, we present numerical results obtained from the gate-based digital quantum simulator, specifically targeting TSP instances with 3, 4, and 5 cities. We focus on the evaluations of three distinctive QAOA mixer designs, considering their performances in terms of numerical accuracy and optimization cost. Notably, we find that a well-balanced QAOA mixer design exhibits more promising potential for gate-based simulators and realistic quantum devices in the long run, an observation further supported by our noise model simulations. Furthermore, we investigate the sensitivity of the simulations to the TSP graph. Overall, our simulation results show that the digital quantum simulation of problem-inspired ansatz is a successful candidate for finding optimal TSP solutions.

97 MATHEMATICS AND COMPUTING↗

NASA NTRS1962

ELASTIC STABILITY CONSIDERATIONS IN AIRCRAFT STRUCTURAL DESIGN

General instability in shell type structures is a relatively infrequent phenomenon. By general instability is meant that a complete section of a structure becomes elastically unstable, as compared with local crippling or buckling. The first step in design is to rough size the structure and determine its compatibility with air vehicle configuration and system instillations. After this step has been completed, it is possible to survey the layouts to determine whether general instability is likely to occur. The general parameters of length, diameter, frame spacing, element stiffness, etc., are than investigated to determine if a general failing stress exists which is less than any local column, beam column, or panel failing stress. In this way, a well-balanced design is determined and general stability failing modes eliminated.

ELASTIC STABILITY↗

NASA NTRS1986

Star-Viewing Scheduler

Strategy and algorithm produce well-balanced timetable that accommodates many constraints. Strategy for scheduling star observations on Space Shuttle astronomy missions ensures best use of three future ultraviolet telescopes. Strategy, described in report, takes into account such diverse factors as maneuvers of Space Shuttle orbiter, interference by Moon, occultation by Earth, reflections, unstaffed periods during crew rotation, encounters with South Atlantic anomaly, and obscuration during dispersal of ejected water.

Guffin, O. T.↗

NASA NTRS1984

Tradeoff methods in multiobjective insensitive design of airplane control systems

The latest results of an ongoing study of computer-aided design of airplane control systems are given. Constrained minimization algorithms are used, with the design objectives in the constraint vector. The concept of Pareto optimiality is briefly reviewed. It is shown how an experienced designer can use it to find designs which are well-balanced in all objectives. Then the problem of finding designs which are insensitive to uncertainty in system parameters are discussed, introducing a probabilistic vector definition of sensitivity which is consistent with the deterministic Pareto optimal problem. Insensitivity is important in any practical design, but it is particularly important in the design of feedback control systems, since it is considered to be the most important distinctive property of feedback control. Methods of tradeoff between deterministic and stochastic-insensitive (SI) design are described, and tradeoff design results are presented for the example of the a Shuttle lateral stability augmentation system. This example is used because careful studies have been made of the uncertainty in Shuttle aerodynamics. Finally, since accurate statistics of uncertain parameters are usually not available, the effects of crude statistical models on SI designs are examined.

Schy, A. A.↗

NASA NTRS1987

Optimal mapping of irregular finite element domains to parallel processors

Mapping the solution domain of n-finite elements into N-subdomains that may be processed in parallel by N-processors is an optimal one if the subdomain decomposition results in a well-balanced workload distribution among the processors. The problem is discussed in the context of irregular finite element domains as an important aspect of the efficient utilization of the capabilities of emerging multiprocessor computers. Finding the optimal mapping is an intractable combinatorial optimization problem, for which a satisfactory approximate solution is obtained here by analogy to a method used in statistical mechanics for simulating the annealing process in solids. The simulated annealing analogy and algorithm are described, and numerical results are given for mapping an irregular two-dimensional finite element domain containing a singularity onto the Hypercube computer.

Flower, J.↗

NASA NTRS1989

Multitasking a three-dimensional Navier-Stokes algorithm on the Cray-2

A three-dimensional computational aerodynamics algorithm has been multitasked for efficient parallel execution on the Cray-2. It provides a means for examining the multitasking performance of a complete CFD application code. An embedded zonal multigrid scheme is used to solve the Reynolds-averaged Navier-Stokes equations for an internal flow model problem. The explicit nature of each component of the method allows a spatial partitioning of the computational domain to achieve a well-balanced task load for MIMD computers with vector-processing capability. Experiments have been conducted with both two- and three-dimensional multitasked cases. The best speedup attained by an individual task group was 3.54 on four processors of the Cray-2, while the entire solver yielded a speedup of 2.67 on four processors for the three-dimensional case. The multiprocessing efficiency of various types of computational tasks is examined, performance on two Cray-2s with different memory access speeds is compared, and extrapolation to larger problems is discussed.

Swisshelm, Julie M.↗

NASA NTRS1991

Closed-loop Habitation Air Revitalization Model for Regenerative Life Support Systems

The primary function of any life support system is to keep the crew alive by providing breathable air, potable water, edible food, and for disposal of waste. In a well-balanced or regenerative life support system, the various components are each using what is available and producing what is needed by other components so that there will always be enough chemicals in the form in which they are needed. Humans are not just users, but also one of the participating parts of the system. If a system could continuously recycle the original chemicals, this would make it virtually a Closed-loop Habitation (CH). Some difficulties in trying to create a miniature version of a CH are briefly discussed. In a miniature CH, a minimal structure must be provided and the difference must be made up by artificial parts such as physicochemical systems that perform the conversions that the Earth can achieve naturally. To study the interactions of these parts, a computer model was designed that simulates a miniature CH with emphasis on the air revitalization part. It is called the Closed-loop Habitation Air Revitalization Model (CHARM).

Hart, Maxwell M.↗

NASA NTRS1991

Assessment of programs in space biology and medicine

Over the past 30 or more years, the National Research Council Space Studies Board and its various committees have published hundreds of recommendations concerning life sciences research. Several particularly noteworthy themes appear consistently: (1) Balance - the need for a well-balanced research program in terms of ground versus flight, basic versus clinical, and internal versus extramural; (2) Excellence - because of the extremely limited number of flight opportunities (as well as their associated relative costs), the need for absolute excellence in the research that is conducted, in terms of topic, protocol, and investigator, and (3) Facilities - the single most important facility for life sciences research in space, an on-board, variable force centrifuge. In this first assessment report, the Committee on Space Biology and Medicine emphasizes that these long-standing themes remain as essential today as when first articulated. On the brink of the twenty-first century, the nation is contemplating the goal of human space exploration; consequently, the themes bear repeating. Each is a critical component of what will be necessary to successfully achieve such a goal.

Source record↗

NASA NTRS1925

Accelerations in Flight

This work on accelerometry was done at McCook Field for the purpose of continuing the work done by other investigators and obtaining the accelerations which occur when a high-speed pursuit airplane is subjected to the more common maneuvers. The accelerations obtained in suddenly pulling out of a dive with well-balanced elevators are shown to be within 3 or 4 per cent of the theoretically possible accelerations. The maximum acceleration which a pilot can withstand depends upon the length of time the acceleration is continued. It is shown that he experiences no difficulty under the instantaneous accelerations as high as 7.8 G., but when under accelerations in excess of 4.5 G., continued for several seconds, he quickly loses his faculties.

Doolittle, J H↗

NASA NTRS1931

The Design of Airplane Wing Ribs

The purpose of this investigation was to obtain information for use in the design of truss and plywood forms, particularly with reference to wing ribs. Tests were made on many designs of wing ribs, comparing different types in various sizes. Many tests were also made on parallel-chord specimens of truss and plywood forms in place of the actual ribs and on parts of wing ribs, such as truss diagonals and sections of cap strips. It was found that for ribs of any size or proportions, when they were designed to obtain a well-balanced construction and were carefully manufactured, distinct types are of various efficiencies; the efficiency is based on the strength per unit of weight. In all types of ribs the heavier are the stronger per unit of weight. Reductions in the weight of wing ribs are accompanied even in efficient designs by a much greater proportional reduction in strength.

Newlin, J A↗

NASA NTRS1994

Europe's space photovoltaics programme

The current space PV (photovoltaic) technology development program of ESA is described. The program is closely coupled to the European space mission scenario for the next 10 year period and has as its main objective to make the most effective use of the limited resources available for technology in the present economical climate. This requires a well-balanced approach between concentration on very few options and keeping the competition alive if more than one promising technology exists. The paper describes ESA's main activities in the areas of solar array technology, solar cell technology, solar cell assembly technology, and special test and verification activities including the in-orbit demonstration of new technologies.

Bogus, Klaus P.↗

NASA NTRS2001

High Power MPD Thruster Development at the NASA Glenn Research Center

Propulsion requirements for large platform orbit raising, cargo and piloted planetary missions, and robotic deep space exploration have rekindled interest in the development and deployment of high power electromagnetic thrusters. Magnetoplasmadynamic (MPD) thrusters can effectively process megawatts of power over a broad range of specific impulse values to meet these diverse in-space propulsion requirements. As NASA's lead center for electric propulsion, the Glenn Research Center has established an MW-class pulsed thruster test facility and is refurbishing a high-power steady-state facility to design, build, and test efficient gas-fed MPD thrusters. A complimentary numerical modeling effort based on the robust MACH2 code provides a well-balanced program of numerical analysis and experimental validation leading to improved high power MPD thruster performance. This paper reviews the current and planned experimental facilities and numerical modeling capabilities at the Glenn Research Center and outlines program plans for the development of new, efficient high power MPD thrusters.

LaPointe, Michael R.↗

NASA NTRS1997

Performance Analysis of the NAS Y-MP Workload

This paper describes the performance characteristics of the computational workloads on the NAS Cray Y-MP machines, a Y-MP 832 and later a Y-MP 8128. Hardware measurements indicated that the Y-MP workload performance matured over time, ultimately sustaining an average throughput of 0.8 GFLOPS and a vector operation fraction of 87%. The measurements also revealed an operation rate exceeding 1 per clock period, a well-balanced architecture featuring a strong utilization of vector functional units, and an efficient memory organization. Introduction of the larger memory 8128 increased throughput by allowing a more efficient utilization of CPUs. Throughput also depended on the metering of the batch queues; low-idle Saturday workloads required a buffer of small jobs to prevent memory starvation of the CPU. UNICOS required about 7% of total CPU time to service the 832 workloads; this overhead decreased to 5% for the 8128 workloads. While most of the system time went to service I/O requests, efficient scheduling prevented excessive idle due to I/O wait. System measurements disclosed no obvious bottlenecks in the response of the machine and UNICOS to the workloads. In most cases, Cray-provided software tools were- quite sufficient for measuring the performance of both the machine and operating, system.

Bergeron, Robert J.↗

NASA NTRS2002

Building Muscles, Keeping Muscles: Protein Turnover During Space Flight

As we age we lose muscle mass and strength. The problem is a matter of use it or lose it and more - a fact to which any active senior can attest. An imbalance in the natural cycle of protein turnover may be a contributing factor to decreased muscle mass. But the answer is not so simple, since aging is associated with changes in hormones, activity levels, nutrition, and often, disease. The human body constantly uses amino acids to build muscle protein, which then breaks down and must be replaced. When protein turnover gets out of balance, so that more protein breaks down than the body can replace, the result is muscle loss. This is not just the bane of aging, however. Severely burned people may have difficulty building new muscle long after the burned skin has been repaired. Answers to why we lose muscle mass and strength - and how doctors can fix it - may come from space. Astronauts usually eat a well-balanced diet and maintain an exercise routine to stay in top health. During long-duration flight, they exercise regularly to reduce the muscle loss that results from being in a near-weightless environment. Despite these precautions, astronauts lose muscle mass and strength during most missions. They quickly recover after returning to Earth - this is a temporary condition in an otherwise healthy population. Members of the STS-107 crew are participating in a study of the effects of space flight, hormone levels, and stress on protein turnover. When we are under stress, the body responds with a change in hormone levels. Researchers hypothesize that this stress-induced change in hormones along with the near-weightlessness might result in the body synthesizing less muscle protein, causing muscles to lose their strength and size. Astronauts, who must perform numerous duties in a confined and unusual environment, experience some stress during their flight, making them excellent candidates for testing the researchers' hypothesis.

Arny Ferrando↗