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At least 379 records · Page 21

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DOE OSTI2024

A Corrected Score Function Framework for Modelling Circadian Gene Expression

Many biological processes display oscillatory behaviour based on an approximately 24 h internal timing system specific to each individual. One process of particular interest is gene expression, for which several circadian transcriptomic studies have identified associations between gene expression during a 24 h period and an individual's health. A challenge with analysing data from these studies is that each individual's internal timing system is offset relative to the 24 h day-night cycle, where day–night cycle time is recorded for each collected sample. Laboratory procedures can accurately determine each individual's offset and determine the internal time of sample collection. However, these laboratory procedures are labour-intensive and expensive. Here, in this paper, we propose a corrected score function framework to obtain a regression model of gene expression given internal time when the offset of each individual is too burdensome to determine. A feature of this framework is that it does not require the probability distribution generating offsets to be symmetric with a mean of zero. Simulation studies validate the use of this corrected score function framework for cosinor regression, which is prevalent in circadian transcriptomic studies. Illustrations with data from three circadian transcriptomic studies further demonstrate that the proposed framework consistently mitigates bias relative to using a score function that does not account for this offset.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS1984

A model function for ocean radar cross sections at 14.6 GHz

The relationship between the ocean's normalized radar cross section (NRCS) at 14.6 GHz and the surface wind vector is derived using the 3 months of Seasat microwave scatterometer (SASS) measurements. The derivation is based on the statistics of the SASS observations, and no in situ measurements are required, other than a mean global wind speed, which comes from climatology. The frequency distribution of the global wind vectors observed by SASS is assumed to be a bivariate normal probability function. A NRCS model function is found that maps the assumed wind vector statistics into the observed SASS NRCS statistics. This function is compared with a NRCS model coming from the Joint Air Sea Interaction Experiment (JASIN) and with aircraft scatterometer measurements. The results indicate that the statistically derived NRCS model is an improvement over the JASIN model, which was based on a limited number of in situ anemometer measurements.

Wentz, F. J.↗

NASA NTRS1973

Path-length distributions of photons diffusely reflected from a semi-infinite atmosphere.

Knowledge of the probability distribution of photon path lengths for diffuse reflection in the continuum from a planetary atmosphere greatly simplifies computation of the shape and strength of absorption lines formed under conditions of multiple scattering. Graphs of this probability distribution are presented for diffuse reflection from a semiinfinite conservative atmosphere for both isotropic and forward-directed scattering, and for several angles of incidence and reflection. Graphs showing distributions for the case of absorption in the continuum are also discussed. The distributions are obtained from an analytic expression for the path-length distribution for nth-order scattering and a tabulation of nth-order intensities. It is found that te shape of the probability distribution depends markedly on the degree of forward scattering due to the phase function. The results are compared with those obtained by a Monte Carlo computation of the sort which might be used if tabulated nth-order intensities were not available.

Appleby, J. F.↗

NASA NTRS1975

Wave theory of turbulence in compressible media

An acoustical theory of turbulence was developed to aid in the study of the generation of sound in turbulent flows. The statistical framework adopted is a quantum-like wave dynamical formulation in terms of complex distribution functions. This formulation results in nonlinear diffusion-type transport equations for the probability densities of the five modes of wave propagation: two vorticity modes, one entropy mode, and two acoustic modes. This system of nonlinear equations is closed and complete. The technique of analysis was chosen such that direct applications to practical problems can be obtained with relative ease.

Kentzer, C. P.↗

NASA NTRS1981

The reliability of multistate, multioutput systems

A system which can generate multiple signals such that each signal can have different quality states is modeled. A measure of the effectiveness of the system as a function of the status of its components is developed. Assuming only that the probability distribution of the status of each component is known, bounds on the probability distribution of the system's measure of effectiveness are developed.

Subelman, E. J.↗

NASA NTRS1973

Airborne Laser Polar Nephelometer

A polar nephelometer has been developed at NCAR to measure the angular variation of the intensity of light scattered by air molecules and particles. The system has been designed for airborne measurements using outside air ducted through a 5-cm diameter airflow tube; the sample volume is that which is common to the intersection of a collimated source beam and the detector field of view within the airflow tube. The source is a linearly polarized helium-neon laser beam. The optical system defines a collimated field-of-view (0.5deg half-angle) through a series of diaphragms located behind a I72-mm focal length objective lens. A photomultiplier tube is located immediately behind an aperture in the focal plane of the objective lens. The laser beam is mechanically chopped (on-off) at a rate of 5 Hz; a two-channel pulse counter, synchronized to the laser output, measures the photomultiplier pulse rate with the light beam both on and off. The difference in these measured pulse rates is directly proportional to the intensity of the scattered light from the volume common to the intersection of the laser beam and the detector field-of-view. Measurements can be made at scattering angles from 15deg to 165deg with reference to the direction of propagation of the light beam. Intermediate angles are obtained by selecting the angular increments desired between these extreme angles (any multiple of 0.1deg can be selected for the angular increment; 5deg is used in normal operation). Pulses provided by digital circuits control a stepping motor which sequentially rotates the detector by pre-selected angular increments. The synchronous photon-counting system automatically begins measurement of the scattered-light intensity immediately after the rotation to a new angle has been completed. The instrument has been flown on the NASA Convair 990 airborne laboratory to obtain data on the complex index of refraction of atmospheric aerosols. A particle impaction device is operated simultaneously to collect particles from the same airflow tube used to make the scattered-light measurements. A size distribution function is obtained by analysis of the particles collected by the impaction device. Calculated values of the angular variation of the scattered-light intensity are obtained by applying Mie scattering theory to the observed size distribution function and assuming different values of the complex index of refraction of the particles. The calculated values are then compared with data on the actual variation of the scattered-light intensity obtained with the polar nephelometer. The most probable value of the complex refractive index is that which provides the best fit between the experimental light scattering data and the parameters calculated from the observed size distribution function.

Grams, Gerald W.↗

NASA NTRS2016

Characterization of Operational Performance of Ka-Band Links in Deep Space Network

This paper presents a characterization of performance of 32-GHz Ka-band link in an operational environment. The data come from tracking of Kepler spacecraft by the NASA Deep Space Network (DSN) in the past few years. Ka-band link offers a significant signal-to-noise advantage compared to the more common X- or S-band; however, it is subject to more signal fluctuation caused by the weather. Kepler is the first mission supported by the DSN that solely rely on the higher deep space Ka-band communications link to return its high-rate science data. A well characterization of the operational performance of Kepler would benefit future Ka-band missions, especially for those operating with smaller link margin. The study examines how weather conditions at the DSN facilities (e.g., winds, clouds, rains) affect the received signal, particularly on telemetry data. It addresses questions such as how often the weather affects the link and how much degradation the link could suffer. Among the 22 Ka-band passes in 2012, heavy clouds affected one pass and two passes were impacted by high winds. The adverse weather caused at time as much as 3-dB instantaneous change in the signal to noise ratio (SNR). Estimates of degradation to the SNR as a function of wind speeds are captured based on observations. This study also quantifies the probability distribution of the variation of received signal power. With such information, future missions can better plan their link design. An optimal link design aims for just having enough margin to realize the data return with a targeted probability, with neither having too much margin that it reduces the downlink data rate nor insufficient reserve that causes frequent data outages. The study tries to provide some answers to the questions such as how much does SNR vary from one tracking pass to the next, and what is the cumulative distribution of signal fluctuation. Regarding the signal variation over many tracking passes, we found that the averaged symbol SNR (SSNR) for each pass changed by as much as 4 dB. Some variations were due to geometry such as the changing distance between spacecraft and Earth and different antenna pointing elevations. Other variations seem to be random in nature, reflecting the randomness of operational environments. Some passes were found to be quite stable, with a standard deviation of symbol SNR around 0.25 dB while others had greater variation, up to 1.4 dB. Overall, the cumulative distribution of the symbol SNR reflects that 50% of the fluctuations was less than 0.6 dB, 90% of fluctuation was within 1.6 dB and 95% within 2.2 dB. Some of the challenges in data processing, validation and modeling were captured in this paper. We observed some inconsistent measurements where operational data significantly deviate from a normal expectation. These inconsistent measurements made it hard to develop an accurate and consistent performance model, such as the degradation of signal SNR as a function of high wind. The difficulty was compounded by the fact that there were only a few Ka-band passes observed in high winds.

Pham, Timothy↗

NASA NTRS1991

Void probability as a function of the void's shape and scale-invariant models

The dependence of counts in cells on the shape of the cell for the large scale galaxy distribution is studied. A very concrete prediction can be done concerning the void distribution for scale invariant models. The prediction is tested on a sample of the CfA catalog, and good agreement is found. It is observed that the probability of a cell to be occupied is bigger for some elongated cells. A phenomenological scale invariant model for the observed distribution of the counts in cells, an extension of the negative binomial distribution, is presented in order to illustrate how this dependence can be quantitatively determined. An original, intuitive derivation of this model is presented.

Elizalde, E.↗

NASA NTRS1992

Void probability as a function of the void's shape and scale-invariant models

Elizalde, E.↗

NASA NTRS2017

Proton Straggling in Thick Silicon Detectors

Straggling functions for protons in thick silicon radiation detectors are computed by Monte Carlo simulation. Mean energy loss is constrained by the silicon stopping power, providing higher straggling at low energy and probabilities for stopping within the detector volume. By matching the first four moments of simulated energy-loss distributions, straggling functions are approximated by a log-normal distribution that is accurate for Vavilov k is greater than or equal to 0:3. They are verified by comparison to experimental proton data from a charged particle telescope.

Selesnick, R. S.↗

DOE OSTI2025

Supersaturation, Nucleation, and Phase Separation of Mesoscopic Systems

Supersaturation, nucleation, and phase separation are ubiquitous phenomena of great interest in both science and industry. However, a unified, quantitative understanding of these phenomena has yet to be achieved for mesoscopic systems. Here, we present a set of general equations that determine the monomer saturation degree, the size distribution, and the free energy of mesoscopic systems, as well as their phase-transition conditions. These equations reveal that, under supersaturation, the largest cluster size (LCS) is an important state variable; the supersaturation degree decreases with the LCS, approaching unity in the macroscopic limit. We identify the critical supersaturation, at which the nuclei undergo the phase transition to form large crystals. Below this critical supersaturation, the nucleus size distribution is either a unimodal function or a monotonically decreasing function of size, depending on the system and temperature. We also predict the most probable nucleus size and the direction of spontaneous changes of the LCS. Our theory provides a unified, quantitative explanation of the nucleus-size-distribution across six different systems, including nanoparticles and biological condensates. This work serves as a general theoretical framework useful for understanding and designing nucleation and phase transitions of mesoscopic systems.

Kang, Jingyu↗

NASA NTRS2013

Unit-Sphere Anisotropic Multiaxial Stochastic-Strength Model Probability Density Distribution for the Orientation of Critical Flaws

Models that predict the failure probability of monolithic glass and ceramic components under multiaxial loading have been developed by authors such as Batdorf, Evans, and Matsuo. These "unit-sphere" failure models assume that the strength-controlling flaws are randomly oriented, noninteracting planar microcracks of specified geometry but of variable size. This report develops a formulation to describe the probability density distribution of the orientation of critical strength-controlling flaws that results from an applied load. This distribution is a function of the multiaxial stress state, the shear sensitivity of the flaws, the Weibull modulus, and the strength anisotropy. Examples are provided showing the predicted response on the unit sphere for various stress states for isotropic and transversely isotropic (anisotropic) materials--including the most probable orientation of critical flaws for offset uniaxial loads with strength anisotropy. The author anticipates that this information could be used to determine anisotropic stiffness degradation or anisotropic damage evolution for individual brittle (or quasi-brittle) composite material constituents within finite element or micromechanics-based software

Nemeth, Noel↗

DOE OSTI2024

Multilabel proportion prediction and out-of-distribution detection on gamma spectra of short-lived fission products

In the machine learning problem of multilabel classification, the objective is to determine for each test instance which classes the instance belongs to. In this work, we consider an extension of multilabel classification, called multilabel proportion prediction, in the context of radioisotope identification (RIID) using gamma spectra data. We aim to not only predict radioisotope proportions, but also identify out-of-distribution (OOD) spectra. We achieve this goal by viewing gamma spectra as discrete probability distributions, and based on this perspective, we develop a custom semi-supervised loss function that combines a traditional supervised loss with an unsupervised reconstruction error function. Our approach was motivated by its application to the analysis of short-lived fission products from spent nuclear fuel. In particular, we demonstrate that a neural network model trained with our loss function can successfully predict the relative proportions of 37 radioisotopes simultaneously. The model trained with synthetic data was then applied to measurements taken by Pacific Northwest National Laboratory (PNNL) to conduct analysis typically done by subject-matter experts. Here, we also extend our approach to successfully identify when measurements are OOD, and thus should not be trusted, whether due to the presence of a novel source or novel proportions.

Anomaly detection↗

NASA NTRS1973

Statistical properties of two sine waves in Gaussian noise.

A detailed study is presented of some statistical properties of a stochastic process that consists of the sum of two sine waves of unknown relative phase and a normal process. Since none of the statistics investigated seem to yield a closed-form expression, all the derivations are cast in a form that is particularly suitable for machine computation. Specifically, results are presented for the probability density function (pdf) of the envelope and the instantaneous value, the moments of these distributions, and the relative cumulative density function (cdf).

Esposito, R.↗

NASA NTRS1982

Computer program for solving laminar, transitional, or turbulent compressible boundary-layer equations for two-dimensional and axisymmetric flow

A numerical algorithm and computer program are presented for solving the laminar, transitional, or turbulent two dimensional or axisymmetric compressible boundary-layer equations for perfect-gas flows. The governing equations are solved by an iterative three-point implicit finite-difference procedure. The software, program VGBLP, is a modification of the approach presented in NASA TR R-368 and NASA TM X-2458, respectively. The major modifications are: (1) replacement of the fourth-order Runge-Kutta integration technique with a finite-difference procedure for numerically solving the equations required to initiate the parabolic marching procedure; (2) introduction of the Blottner variable-grid scheme; (3) implementation of an iteration scheme allowing the coupled system of equations to be converged to a specified accuracy level; and (4) inclusion of an iteration scheme for variable-entropy calculations. These modifications to the approach presented in NASA TR R-368 and NASA TM X-2458 yield a software package with high computational efficiency and flexibility. Turbulence-closure options include either two-layer eddy-viscosity or mixing-length models. Eddy conductivity is modeled as a function of eddy viscosity through a static turbulent Prandtl number formulation. Several options are provided for specifying the static turbulent Prandtl number. The transitional boundary layer is treated through a streamwise intermittency function which modifies the turbulence-closure model. This model is based on the probability distribution of turbulent spots and ranges from zero to unity for laminar and turbulent flow, respectively. Several test cases are presented as guides for potential users of the software.

Harris, J. E.↗

NASA NTRS1985

The atmospheric effect on the separability of field classes measured from satellites

The atmospheric effect on the upward radiance emerging from the atmosphere above a nonuniform surface results in a reduction of the separability between the surface classes by broadening the radiance probability distribution of each class, while narrowing the total radiance range. The atmospheric modulation transfer function (MTF) is used in Fourier transform analyses to simulate the atmospheric effect on the imagery of a nonuniform surface and to demonstrate the atmospheric effect on separability of field classes.

Kaufman, Y. J.↗

NASA NTRS2022

Analyzing Recharge Dynamics and Storage in a Thick, Karstic Vadose Zone

Karst vadose zone heterogeneity creates complex transmission and storage dynamics that affect the timing and magnitude of aquifer recharge. Young, high-matrix permeability eogenetic karst aquifers may have significantly higher matrix storage than older, lower matrix permeability counterparts. In vulnerable and water-limited karst regions, the timescales of storage may be important for seasonal and sub-seasonal water resource management. We create a framework to quantify storage dynamics in karst aquifers using high-resolution precipitation and groundwater levels from the Northern Guam Lens Aquifer in the US territory of Guam. We estimate recharge using the Water Table Fluctuation method, and then develop transfer functions between precipitation and recharge to quantify storage and release of water from the vadose zone. The transfer functions are partitioned into different flow pathways including conduit, conduit/matrix, and slowly draining matrix. Probability distributions are fit to each pathway to determine the average travel times of infiltrated waters. The results show that aquifer recharge through secondary porosity features typically occurs within a few hours of a rainfall event, but this rapid recharge accounts for only 12%–28% of total recharge. The majority of aquifer recharge (>70%) occurs within a month of a contributing storm event. An additional 10% of recharge, on average, took longer than a month to reach the water table. The framework established can help improve the hydrological modeling and freshwater management for karst aquifers.

Patricia Spellman↗

NASA NTRS2004

Visualizing Time-Varying Distribution Data in EOS Application

In this research, we have developed several novel visualization methods for spatial probability density function data. Our focus has been on 2D spatial datasets, where each pixel is a random variable, and has multiple samples which are the results of experiments on that random variable. We developed novel clustering algorithms as a means to reduce the information contained in these datasets; and investigated different ways of interpreting and clustering the data.

Shen, Han-Wei↗