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At least 739 records · Page 41

Design, execution, and interpretation of plant RNA-seq analyses

Genomics has transformed our understanding of the genetic architecture of traits and the genetic variation present in plants. Here, we present a review of how RNA-seq can be performed to tackle research challenges addressed by plant sciences. We discuss the importance of experimental design in RNA-seq, including considerations for sampling and replication, to avoid pitfalls and wasted resources. Approaches for processing RNA-seq data include quality control and counting features, and we describe common approaches and variations. Though differential gene expression analysis is the most common analysis of RNA-seq data, we review multiple methods for assessing gene expression, including detecting allele-specific gene expression and building co-expression networks. With the production of more RNA-seq data, strategies for integrating these data into genetic mapping pipelines is of increased interest. Finally, special considerations for RNA-seq analysis and interpretation in plants are needed, due to the high genome complexity common across plants. By incorporating informed decisions throughout an RNA-seq experiment, we can increase the knowledge gained.

59 BASIC BIOLOGICAL SCIENCES↗

On the use of external burning to reduce aerospace vehicle transonic drag

The external combustion of hydrogen to reduce the transonic drag of aerospace vehicles is currently being investigated. A preliminary analysis based on a constant pressure control volume is discussed. Results indicate that the specific impulse of the external burning process rivals that of a turbojet and depends on the severity of the initial base drag as well as on the Mach flight number and the equivalence ratio. A test program was conducted to investigate hydrogen-air flame stability at the conditions of interest and to demonstrate drag reduction on a simple expansion ramp. Initial test results are presented and compared with the control-volume analysis. The expansion ramp surface pressure coefficient showed little variation with fuel pressure and altitude, in disagreement with the analysis. Flame stability results were encouraging and indicate that stable combustion is possible over an adequate range of conditions. Facility interference and chemical kinetics phenomena that make interpretation of subscale ground test data difficult are discussed.

Trefny, Charles J.↗

On the use of external burning to reduce aerospace vehicle transonic drag

The external combustion of hydrogen to reduce the transonic drag of aerospace vehicles is currently being investigated. A preliminary analysis based on a constant pressure control volume is discussed. Results indicate that the specific impulse of the external burning process rivals that of a turbojet and depends on the severity of the initial base drag as well as on the Mach flight number and the equivalence ratio. A test program was conducted to investigate hydrogen-air flame stability at the conditions of interest and to demonstrate drag reduction on a simple expansion ramp. Initial test results are presented and compared with the control-volume analysis. The expansion ramp surface pressure coefficient showed little variation with fuel pressure and altitude, in disagreement with the analysis. Flame stability results were encouraging and indicate that stable combustion is possible over an adequate range of conditions. Facility interference and chemical kinetics phenomena that make interpretation of subscale ground test data difficult are discussed.

Trefny, Charles J.↗

Hyperspectral Biofilm Classification Analysis for Carrying Capacity of Migratory Birds in the South Bay Salt Ponds

Tidal marshes are highly productive ecosystems that support migratory birds as roosting and over-wintering habitats on the Pacific Flyway. Microphytobenthos, or more commonly 'biofilms' contribute significantly to the primary productivity of wetland ecosystems, and provide a substantial food source for macroinvertebrates and avian communities. In this study, biofilms were characterized based on taxonomic classification, density differences, and spectral signatures. These techniques were then applied to remotely sensed images to map biofilm densities and distributions in the South Bay Salt Ponds and predict the carrying capacity of these newly restored ponds for migratory birds. The GER-1500 spectroradiometer was used to obtain in situ spectral signatures for each density-class of biofilm. The spectral variation and taxonomic classification between high, medium, and low density biofilm cover types was mapped using in-situ spectral measurements and classification of EO-1 Hyperion and Landsat TM 5 images. Biofilm samples were also collected in the field to perform laboratory analyses including chlorophyll-a, taxonomic classification, and energy content. Comparison of the spectral signatures between the three density groups shows distinct variations useful for classification. Also, analysis of chlorophyll-a concentrations show statistically significant differences between each density group, using the Tukey-Kramer test at an alpha level of 0.05. The potential carrying capacity in South Bay Salt Ponds is estimated to be 250,000 birds.

Hsu, Wei-Chen↗

Comparison of Life Theories for Rolling-Element Bearings

Nearly five decades have passed since G. Lundberg and A. Palmgren published their life theory in 1947 and 1952 and it was adopted as an ANSI/ABMA and ISO standard in 1950 and 1953. Subsequently, many variations and deviations from their life theory have been proposed, the most recent being that of E. Ioannides and T.A. Harris in 1985. This paper presents a critical analysis comparing the results of different life theories and discussing their implications in the design and analysis of rolling-element bearings. Variations in the stress-life relation and in the critical stress related to bearing life are discussed using stress fields obtained from three-dimensional, finite-element analysis of a ball in a nonconforming race under varying load. The results showed that for a ninth power stress-life exponent the Lundberg-Palmgren theory best predicts life as exhibited by most air-melted bearing steels. For a 12th power relation reflected by modern bearing steels, a Zaretsky-modified Weibull equation is superior. The assumption of a fatigue-limiting stress distorts the stress-life exponent and overpredicts life.

Zaretsky, Erwin V.↗

Improving Vertical Velocity Retrievals from Doppler Radar Observations of Convection Field Campaign Report

Our National Science Foundation (NSF)-supported project was designed to address two longstanding challenges in radar-, meso-scale-, and hydro-meteorology: (1) mitigating the effects of non-simultaneous data collection on radar data-based analysis products, and (2) improving estimates of the vertical velocity (w) field in dual-Doppler wind analyses. Errors associated with the non-simultaneous data collection introduce errors in all Doppler analyses, and impose a lower limit on the time and space scales that can be studied. For many investigations the w field is of prime meteorological importance, but it is the velocity component most difficult to accurately synthesize from dual-Doppler wind observations. Our original plan proposed for short field campaigns at the Atmospheric Radiation Measurement (ARM) user facility Southern Great Plains (SGP) Central Facility (CF) was to use multiple-Doppler radial wind data from the scanning ARM X-band radars to test and refine our multiple-Doppler wind analysis algorithms. An important part of our plan was the use of high-temporal-resolution w observations to verify the analyses. In our original plan, these data would be obtained from Doppler lidars, 915 MhZ profilers and Ka-band ARM Zenith Radar (KAZR) zenith-pointing radars at the CF and nearby ARM facilities in north-central Oklahoma. Using the data, we planned to test the utility of new spatially variable advection-correction/analysis procedures, the utility of the anelastic vertical vorticity equation as a constraint in variational multiple-Doppler wind analysis, and other Doppler wind analysis procedures. Idealized tests with numerically-simulated supercell data had suggested the vorticity constraint could help improve the vertical velocity field if the data were gathered with sufficiently high temporal resolution (e.g., volume scans completed in 30-60 sec), so we were interested in exploring the use of rapid-scan data from the X-band Scanning ARM Precipitation Radars (XSAPRs).

Southern Great Plains, convection, KAZR, XSAPR, ve↗

A variational method for finite element stress recovery: Applications in one-dimension

It is well-known that stresses (and strains) calculated by a displacement-based finite element analysis are generally not as accurate as the displacements. In addition, the calculated stress field is typically discontinuous at element interfaces. Because the stresses are typically of more interest than the displacements, several procedures have been proposed to obtain a smooth stress field, given the finite element stresses, and to improve the accuracy. Hinton and Irons introduced global least squares smoothing of discrete data defined on a plane using a finite element formulation. Tessler and co-workers recently developed a conceptually similar formulation for smoothing of two-dimensional data based on a discrete least square approximation with a penalty constraint. The penalty constraint results in a stress field which is C(exp 1)-continuous, a result not previously obtained. The approach requires additional, 'smoothing' finite element analysis and for their two-dimensional application, they used a conforming C(exp 0)-continuous triangular finite element based on a conforming plate element. This paper presents the results of a detailed investigation into the application of Tessler's smoothing procedure to the smoothing of finite element stresses from one-dimensional problems. Although the one-dimensional formulation has some practical applicability, such as in truss, beam, axisymmetric mechanics, and one-dimensional heat conduction, the primary motivation for developing the one-dimensional smoothing case is to explore the characteristics of the general smoothing strategy. In particular, it is used to describe the behavior of the method and to explore the suitability of criteria proposed for the smoothing analysis. Prior to presenting numerical results, the variational formulation of the smoothing strategy is presented and a criterion for the smoothing analysis is described.

Riggs, H. Ronald↗

Characterization and Analysis of the Energy-Reporting Accuracy of Connected Devices

Emerging energy-efficient building systems increasingly exhibit greater functionality, often requiring multiple operating modes (e.g. white-tunability for lighting products and data traffic for devices with networked, integrated sensors). This increased functionality makes energy consumption estimates more complex. Given that these functions consume energy, the energy performance of such building systems is dependent on what operating modes they use and how much time they spend in each mode. Devices and systems that can report their own energy consumption mitigate this energy-performance uncertainty. This study explores the energy-reporting accuracy of market-available connected electrical outlets. The study considers two residential-market products (five units each, one outlet per unit) and three commercial-market products (two units each, 18 to 24 outlets per unit) with the ability to report power drawn and/or energy consumed by devices connected to their receptacles. The products were purchased through typical market channels. Pacific Northwest National Laboratory (PNNL) conducted testing in December 2018 at its Connected Lighting Test Bed (CLTB), using a custom-developed test setup and method adapted from industry standards. The setup collected energy-consumption data reported by the outlet devices under test (DUTs) at one-minute intervals and compared that data with measurements taken by a reference meter over a range of test conditions. The residential products reported power draw but not interval or cumulative energy consumption. The commercial products reported both power draw and cumulative energy consumption. Relative reporting error (RRE) was calculated for all measurements, and analysis of the results revealed variations across devices and test conditions. The total number of measurements (50 for each residential product, 60 for each commercial product) offers an appreciable comparison of performance at the make/model level. The average RRE of the residential products derived from reported power draw was -0.02% and -1.20%. The average RRE for two of the three the commercial products derived from reported power draw was worse than those of the residential products (-2.40%, -2.72%, -0.36%). The internal integration of power over time, used to calculate cumulative energy consumption, typically occurs at current and voltage sampling rates much higher than once per minute. This suggests that the average commercial-product RRE derived from reported energy consumption should be very consistent and better than performance based on reported power draw. However, the RRE derived from reported energy consumption varied significantly across the three makes of commercial-market products and was uniformly less accurate than performance based on reported power draw. Subsequent analysis identified a number of root causes for this decrease in performance, most of which were related to reporting resolution. The goals of this study are to generate awareness of building systems capable of reporting their own energy consumption, further interest in the value of energy data for a variety of uses, draw attention to how the accuracy of reported metrics can be characterized, and quantify the performance variation found in marketavailable products. The results of this study and subsequent related work may be relevant to stakeholders in industry-specification and standards-development organizations. The methods this study employs could inform test and measurement procedures and performance classifications for connected outlets, lighting products, and other building systems capable of reporting their own energy consumption. The study concludes with stakeholder recommendations, including the following: • Energy-reporting device and system manufacturers developing products that report energy consumption should characterize the accuracy of reported metrics using a reference meter calibrated by an independent laboratory that was accredited by an ILAC MRA signatory (and whose scope of accreditation explicitly covers energy measurement), and should include this information on product data sheets. • Standards and specification development organizations should develop application-specific performance classifications that end users can understand and relate to their energy-data use needs (e.g., 2% accuracy class for utility streetlight energy billing needs, or 10% accuracy class for ESCO performance verification needs). • Current or potential owners, operators, and specifiers of energy-reporting building systems should rigorously analyze the dependency of current and planned energy-data use cases on accuracy, noting in particular the dependence (or lack thereof) on relative vs. absolute accuracy, and on trueness vs. precision (i.e., repeatability), and should communicate use-case needs to industry standards and specification organizations.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Characterization and Analysis of the Energy-Reporting Accuracy of Connected Devices

Emerging energy-efficient building systems increasingly exhibit greater functionality, often requiring multiple operating modes (e.g. white-tunability for lighting products and data traffic for devices with networked, integrated sensors). This increased functionality makes energy consumption estimates more complex. Given that these functions consume energy, the energy performance of such building systems is dependent on what operating modes they use and how much time they spend in each mode. Devices and systems that can report their own energy consumption mitigate this energy-performance uncertainty. This study explores the energy-reporting accuracy of market-available connected electrical outlets. The study considers two residential-market products (five units each, one outlet per unit) and three commercial-market products (two units each, 18 to 24 outlets per unit) with the ability to report power drawn and/or energy consumed by devices connected to their receptacles. The products were purchased through typical market channels. Pacific Northwest National Laboratory (PNNL) conducted testing in December 2018 at its Connected Lighting Test Bed (CLTB), using a custom-developed test setup and method adapted from industry standards. The setup collected energy-consumption data reported by the outlet devices under test (DUTs) at one-minute intervals and compared that data with measurements taken by a reference meter over a range of test conditions. The residential products reported power draw but not interval or cumulative energy consumption. The commercial products reported both power draw and cumulative energy consumption. Relative reporting error (RRE) was calculated for all measurements, and analysis of the results revealed variations across devices and test conditions. The total number of measurements (50 for each residential product, 60 for each commercial product) offers an appreciable comparison of performance at the make/model level. The average RRE of the residential products derived from reported power draw was -0.02% and -1.20%. The average RRE for two of the three the commercial products derived from reported power draw was worse than those of the residential products (-2.40%, -2.72%, -0.36%). The internal integration of power over time, used to calculate cumulative energy consumption, typically occurs at current and voltage sampling rates much higher than once per minute. This suggests that the average commercial-product RRE derived from reported energy consumption should be very consistent and better than performance based on reported power draw. However, the RRE derived from reported energy consumption varied significantly across the three makes of commercial-market products and was uniformly less accurate than performance based on reported power draw. Subsequent analysis identified a number of root causes for this decrease in performance, most of which were related to reporting resolution. The goals of this study are to generate awareness of building systems capable of reporting their own energy consumption, further interest in the value of energy data for a variety of uses, draw attention to how the accuracy of reported metrics can be characterized, and quantify the performance variation found in marketavailable products. The results of this study and subsequent related work may be relevant to stakeholders in industry-specification and standards-development organizations. The methods this study employs could inform test and measurement procedures and performance classifications for connected outlets, lighting products, and other building systems capable of reporting their own energy consumption. The study concludes with stakeholder recommendations, including the following: • Energy-reporting device and system manufacturers developing products that report energy consumption should characterize the accuracy of reported metrics using a reference meter calibrated by an independent laboratory that was accredited by an ILAC MRA signatory (and whose scope of accreditation explicitly covers energy measurement), and should include this information on product data sheets. • Standards and specification development organizations should develop application-specific performance classifications that end users can understand and relate to their energy-data use needs (e.g., 2% accuracy class for utility streetlight energy billing needs, or 10% accuracy class for ESCO performance verification needs). • Current or potential owners, operators, and specifiers of energy-reporting building systems should rigorously analyze the dependency of current and planned energy-data use cases on accuracy, noting in particular the dependence (or lack thereof) on relative vs. absolute accuracy, and on trueness vs. precision (i.e., repeatability), and should communicate use-case needs to industry standards and specification organizations.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Brazilian CBP - Technoeconomic analysis data

This data is related to the paper entitled "Techno-economic analysis of sugarcane bagasse and straw conversion into cellulosic ethanol via consolidated bioprocessing". That features the evaluation of sugarcane bagasse and straw conversion to ethanol at stand-alone facilities generating electricity from residues. The following scenarios were evaluated: Conventional, featuring hydrothermal pretreatment, fungal cellulase, and yeast fermentation (current commercial standard); Mid-term consolidated bioprocessing (CBP), relying on bagasse solubilization without pretreatment or cotreatment; and Mature CBP, incorporating cotreatment but no pretreatment and considering significant technological advance of the CBP. Available here are the spreadsheets used for Material and Energy balance calculation, Capital and Operational costs estimation and Cash flow analysis. Also available are the description and python code used for Monte Carlo analysis of the ethanol and capital investment variations. This data can be used as a source to implement other techno-economic analysis in the biorefinary context.

09 BIOMASS FUELS↗

Analysis of the Vertical Temperature Profile Radiometer (VTPR) radiometric problem

Variations in bias radiation, on the detector as a function of scan mirror position, are reported for the VTPR instruments presently in orbit. Tests in the laboratory show that this bias radiation disappears when optical baffles are added. A detailed analysis explains quantitatively the observed bias variation which is due to the extraneous field-of-view of the detector, and the variation in magnitude of the far field-of-view solid angle as a function of mirror position.

Goldberg, I. L.↗

Systematic Center-To-Limb Variation in Measured Helioseismic Travel Times and Its Effect on Inferences of Solar Interior Meridional Flows

We report on a systematic center-to-limb variation in measured helioseismic travel times, which must be taken into account for an accurate determination of solar interior meridional flows. The systematic variation, found in time-distance helioseismology analysis using SDO/HMI and SDO/AIA observations, is different in both travel-time magnitude and variation trend for different observables. It is not clear what causes this systematic effect. Subtracting the longitude-dependent east-west travel times, obtained along the equatorial area, from the latitude-dependent north-south travel times, obtained along the central meridian area, gives remarkably similar results for different observables. We suggest this as an effective procedure for removing the systematic center-to-limb variation. The subsurface meridional flows obtained from inversion of the corrected travel times are approximately 10 m s−1 slower than those obtained without removing the systematic effect. The detected center-to-limb variation may have important implications in the derivation of meridional flows in the deep interior and needs to be better understood.

Sun: oscillations↗

Theoretical predictions of latitude dependencies in the solar wind

Results are presented which were obtained with the Winge-Coleman model for theoretical predictions of latitudinal dependencies in the solar wind. A first-order expansion is described which allows analysis of first-order latitudinal variations in the coronal boundary conditions and results in a second-order partial differential equation for the perturbation stream function. Latitudinal dependencies are analytically separated out in the form of Legendre polynomials and their derivative, and are reduced to the solution of radial differential equations. This analysis is shown to supply an estimate of how large the coronal variation in latitude must be to produce an 11 km/sec/deg gradient in the radial velocity of the solar wind, assuming steady-state processes.

Winge, C. R., Jr.↗

Analysis of superconducting electromagnetic finite elements based on a magnetic vector potential variational principle

Electromagnetic finite elements are extended based on a variational principle that uses the electromagnetic four potential as primary variable. The variational principle is extended to include the ability to predict a nonlinear current distribution within a conductor. The extension of this theory is first done on a normal conductor and tested on two different problems. In both problems, the geometry remains the same, but the material properties are different. The geometry is that of a 1-D infinite wire. The first problem is merely a linear control case used to validate the new theory. The second problem is made up of linear conductors with varying conductivities. Both problems perform well and predict current densities that are accurate to within a few ten thousandths of a percent of the exact values. The fourth potential is then removed, leaving only the magnetic vector potential, and the variational principle is further extended to predict magnetic potentials, magnetic fields, the number of charge carriers, and the current densities within a superconductor. The new element produces good results for the mean magnetic field, the vector potential, and the number of superconducting charge carriers despite a relatively high system condition number. The element did not perform well in predicting the current density. Numerical problems inherent to this formulation are explored and possible remedies to produce better current predicting finite elements are presented.

Schuler, James J.↗

Left ventricular outflow tract mean systolic acceleration as a surrogate for the slope of the left ventricular end-systolic pressure-volume relationship

OBJECTIVE: The goal of this study was to analyze left ventricular outflow tract systolic acceleration (LVOT(Acc)) during alterations in left ventricular (LV) contractility and LV filling. BACKGROUND: Most indexes described to quantify LV systolic function, such as LV ejection fraction and cardiac output, are dependent on loading conditions. METHODS: In 18 sheep (4 normal, 6 with aortic regurgitation, and 8 with old myocardial infarction), blood flow velocities through the LVOT were recorded using conventional pulsed Doppler. The LVOT(Acc) was calculated as the aortic peak velocity divided by the time to peak flow; LVOT(Acc) was compared with LV maximal elastance (E(m)) acquired by conductance catheter under different loading conditions, including volume and pressure overload during an acute coronary occlusion (n = 10). In addition, a clinically validated lumped-parameter numerical model of the cardiovascular system was used to support our findings. RESULTS: Left ventricular E(m) and LVOT(Acc) decreased during ischemia (1.67 +/- 0.67 mm Hg.ml(-1) before vs. 0.93 +/- 0.41 mm Hg.ml(-1) during acute coronary occlusion [p < 0.05] and 7.9 +/- 3.1 m.s(-2) before vs. 4.4 +/- 1.0 m.s(-2) during coronary occlusion [p < 0.05], respectively). Left ventricular outflow tract systolic acceleration showed a strong linear correlation with LV E(m) (y = 3.84x + 1.87, r = 0.85, p < 0.001). Similar findings were obtained with the numerical modeling, which demonstrated a strong correlation between predicted and actual LV E(m) (predicted = 0.98 [actual] -0.01, r = 0.86). By analysis of variance, there was no statistically significant difference in LVOT(Acc) under different loading conditions. CONCLUSIONS: For a variety of hemodynamic conditions, LVOT(Acc) was linearly related to the LV contractility index LV E(m) and was independent of loading conditions. These findings were consistent with numerical modeling. Thus, this Doppler index may serve as a good noninvasive index of LV contractility.

Non-NASA Center↗

Interlaminar stress analysis of dropped-ply laminated plates and shells by a mixed method

A mixed method of approximation based on Reissner's variational principle is developed for the linear analysis of interlaminar stresses in laminated composites, with special interest in laminates that contain terminated internal plies (dropped-ply laminates). Two models are derived, one for problems of generalized plane deformation and the other for the axisymmetric response of shells of revolution. A layerwise approach is taken in which the stress field is assumed with an explicit dependence on the thickness coordinate in each layer. The dependence of the stress field on the thickness coordinate is determined such that the three-dimensional equilibrium equations are satisfied by the approximation. The solution domain is reduced to one dimension by integration through the thickness. Continuity of tractions and displacements between layers is imposed. The governing two-point boundary value problem is composed of a system of both differential and algebraic equations (DAE's) and their associated boundary conditions. Careful evaluation of the system of DAE's was required to arrive at a form that allowed application of a one-step finite difference approximation. A two-stage Gauss implicit Runge-Kutta finite difference scheme was used for the solution because of its relatively high degree of accuracy. Patch tests of the two models revealed problems with solution accuracy for the axisymmetric model of a cylindrical shell loaded by internal pressure. Parametric studies of dropped-ply laminate characteristics and their influence on the interlaminar stresses were performed using the generalized plane deformation model. Eccentricity of the middle surface of the laminate through the ply drop-off was found to have a minimal effect on the interlaminar stresses under longitudinal compression, transverse tension, and in-plane shear. A second study found the stiffness change across the ply termination to have a much greater influence on the interlaminar stresses.

Harrison, Peter N.↗

Surrogate modelling the Baryonic Universe – I. The colour of star formation

The spectral energy distribution of a galaxy emerges from the complex interplay of many physical ingredients, including its star formation history (SFH), metallicity evolution, and dust properties. Using GALAXPY , a new galaxy spectral prediction tool, and SFHs predicted by the empirical model UNIVERSEMACHINE and the cosmological hydrodynamical simulation IllustrisTNG, we isolate the influence of SFH on optical and near-infrared colours from 320 to 1080 Å at z = 0. By carrying out a principal component analysis, we demonstrate that physically motivated SFH variations modify galaxy colours along a single direction in colour space: the SFH-direction. We find that the projection of a galaxy’s present-day colours on to the SFH-direction is almost completely regulated by the fraction of stellar mass that the galaxy formed over the last billion years. Together with cosmic downsizing, this results in galaxies becoming redder as their host halo mass increases. We additionally study the change in galaxy colours due to variations in metallicity, dust attenuation, and nebular emission lines, finding that these properties vary broad-band colours along distinct directions in colour space relative to the SFH-direction. Finally, we show that the colours of low-redshift Sloan Digital Sky Survey galaxies span an ellipsoid with significant extent along two independent dimensions, and that the SFH-direction is well-aligned with the major axis of this ellipsoid. Our analysis supports the conclusion that variations in SFH are the dominant influence on present-day galaxy colours, and that the nature of this influence is strikingly simple.

79 ASTRONOMY AND ASTROPHYSICS↗