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At least 901 records · Page 50

Persistent Acoustic Sensing for Monitoring A Reactor Facility

Measurements over the past few years, taking place within the Multi-Informatics for Nuclear Operations Scenarios project, show that infrasound and low-frequency acoustic monitoring can detect, and often quantify, activities that occur on-site at the High Flux Isotope Reactor. Observable activities include: crane translation, lifting, and lowering; differentiation between loaded and unloaded crane operations; access door opening and closing; vehicle operations; and cooling tower fan operations. Advanced data analytic and spectral feature extraction methods can be used to interpret selected signatures to reach a deeper understanding of different reactor activities. These measurements are being conducted using a network of smartphones that continuously operate in conjunction with cloud-based architectures. A recent addition to the system is the development and deployment of a real-time, cloud-based analytic framework that supports near-real-time alarming which can facilitate tip-and-cue protocols. This paper presents recent research in this area including the use of low-frequency acoustics to tip-off transfer operations and cue a more comprehensive analysis by other sensor networks.

42 ENGINEERING↗

Filter-Banks for Ultra-Wideband Communications, Sensing, and Localization

Recently, filterbank multi-carrier spread spectrum (FBMC-SS) has been proposed as a candidate waveform for ultrawideband (UWB) communications. It has been noted that FBMCSS is a perfect match to this application, leading to a trivial method of matching to the required spectral mask at different regions of the world. FBMC-SS also allows easy rejection of high-power interfering signals that may appear over different parts of the UWB spectral band. In this paper, we concentrate on the use of staggered multitone spread spectrum (SMT-SS) for UWB communications. SMT makes use of offset QAM modulation to transmit data symbols over narrowband, overlapping subcarrier bands. This form of FBMC-SS is well-suited to UWB communications because it has good spectral efficiency and a flat power spectral density (PSD), resulting in good utilization of the UWB spectral mask. Additionally, we explore new methods for multi-coding that result in higher bit rates than previous FBMCSS systems. Moreover, we study methods for equalizing the UWB multipath channel and cancelling narrowband interference. Excellent performance of the proposed methods are substantiated by presenting simulation results.

99 - GENERAL AND MISCELLANEOUS↗

A framework for quantitative analysis of spectral data in two channels

Simultaneous acquisition of emission intensity from two channels in dual-color fluorescence measurements can be used to determine the spectral properties of an emitter. We detail a method to extract quantitative information from dual-color measurements by considering two models: a single spectral component model for peak wavelength determination and a dual spectral component model for relative strength determination. The former model is useful for spectral characterization and establishing heterogeneity within an emitter species, while the latter model is useful for analyzing energy transfer efficiency. Both models are formalized to yield probability distributions that reflect uncertainties due to shot noise. We applied these analysis tools to single-particle measurements of CdSe/CdS quantum dots. Isolated emitters had narrow spectral-intensity distributions that reflected their static emission profiles and fluorescence stability. Small assemblies of mixed donor/acceptor particles exhibited dynamic behavior where emission configuration changes reveal different spectral characteristics due to energy transfer.

36 MATERIALS SCIENCE↗

Aircraft Engine Noise Scattering - A Discontinuous Spectral Element Approach

The paper presents a time-domain method for computation of sound radiation from aircraft engine sources to the far-field. The effects of nonuniform flow around the aircraft and scattering of sound by fuselage and wings are accounted for in the formulation. Our approach is based on the discretization of the inviscid flow equations through a collocation form of the Discontinuous Galerkin spectral element method. An isoparametric representation of the underlying geometry is used in order to take full advantage of the spectral accuracy of the method. Largescale computations are made possible by a parallel implementation based on message passing. Results obtained for radiation from an axisymmetric nacelle alone are compared with those obtained when the same nacelle is installed in a generic con.guration, with and without a wing.

Stanescu, D.↗

CLARREO Pathfinder Mission Overview and its Intercalibration Capabilities

NASA's Climate Absolute Radiance and Refractivity Observatory (CLARREO) Pathfinder (CPF) mission will deploy an Earth-observing reflected solar (RS) spectrometer, designed to measure Earth-reflected solar radiation from the International Space Station with a remarkable SI-traceable radiometric uncertainty of 0.3% (k=1). This spectrometer, known as the Hyperspectral Imager for Climate Science (HySICS), will provide measurements within a spectral range of 350-2300 nm with 3-nm spectral intervals. Covering a nadir swath of 70 km, HySICS captures 480 discrete measurement pixels that provide spectrally-resolved Earth-reflected radiances. The CPF mission encompasses two principal objectives. The first objective is to demonstrate on-orbit calibration methodologies that achieve and uphold an unprecedented level of accuracy while maintaining traceability to SI standards. The second objective is to showcase an innovative on-orbit intercalibration approach, which involves the intercalibration of two other RS sensors—namely, the shortwave (SW) channel of the Clouds and the Earth’s Radiant Energy System (CERES) and the Reflective Solar (RS) bands of the Visible Infrared Imager Radiometer Suite (VIIRS)—against CPF benchmark measurements. The targeted intercalibration methodology uncertainty for these target instruments is 0.3% (k=1). Empowered by the CPF payload's two-axis pointing capability, moderate spatial sampling of 0.5 km, and wide spectral coverage, the CPF instrument will capture near-simultaneous temporal, spatial, angular, and spectrally matched observations with intercalibration targets. The CPF intercalibration science development team has devised novel methods to address spatial, spectral, polarization, and angular differences between CPF and the target instruments' intercalibration footprints to achieve the stringent 0.3% intercalibration methodology uncertainty. Comprehensive details of these methods and their validation will be elaborated upon during the conference presentation.

Hyperspectral↗

The Transmission of ULF Waves From the Solar Wind to the Magnetosphere: An Analysis of Some Critical Aspects

Several critical aspects may influence the analysis of the relationship between the solar wind (SW) and magnetospheric fluctuations, for example, the characteristics and frequency of SW fluctuations that are expected to impinge the magnetosphere may not be the same when they are observed by spacecraft located at different places in front of the magnetosphere; similarly, the choice of analytical methods adopted for the spectral analysis might influence the frequency estimate (as well as the wave identification itself) both in the SW and magnetosphere. Focusing our attention on these aspects, we present an analysis of SW compressional fluctuations (f ≈ 1–5 mHz), following two interplanetary shocks observed by two interplanetary spacecraft, regarded as two different situations in terms of spacecraft separation and distance from the magnetosphere. Our results show that some differences in the characteristics of SW fluctuations emerge when the same stream is observed at different places and confirm the critical role of analytical methods in determining fluctuation characteristics. We compared aspects of SW fluctuations with those of magnetospheric fluctuations following the sudden impulses due to the impact of interplanetary shocks. For this scope, we examined observations by two satellites at geostationary orbit and at several ground-based stations. We found that the magnetospheric fluctuations were related to compressional SW fluctuations approximately at the same frequencies, with no evidence for wave activity of internal origin or directly driven by the shock impact.

ULF waves↗

Spectral line shapes in spherically symmetric radially moving clouds

We present a method for the analysis of spectral line shapes arising in homogeneous, moving gas clouds in which velocity and molecular line excitation have power-law dependences on radial distance from the center. Analytical expressions are obtained for radial flows, for both optically thick and optically thin lines. The additional case of an optically thick line from a differentially rotating cloud is considered qualitatively. The method is applied to the interpretation of the C(12)O line observed in the direction of the Kleinmann-Low infrared nebula in Orion. While gravitational collapse and accelerated outflows would produce lines qualitatively similar to the observed profile, it does not appear to be possible to fit either model to the observations in detail.

Kuiper, T. B. H.↗

HostSub_GP: Precise Galaxy Background Subtraction in Transient Long-slit Spectroscopy with Gaussian Processes

We present a novel host galaxy subtraction technique in long-slit spectroscopy for extragalactic transients. Unlike classic methods which generally estimate the background using simple interpolation of local galaxy flux in the 2D spectrum, our approach leverages multi-band archival images of the host galaxies to model the background emission from the galaxy in the 2D spectrum. Such imaging encodes the wavelength-dependent galaxy profile along the slit, and is readily accessible through wide-field imaging surveys. We construct a smooth prior for the 2D galaxy profile with a Gaussian process (GP) based on these reference images, and use another GP to model the correlated deviations from the prior in the observed spectrum. This enables accurate inference of the galaxy flux blended with the transient. On synthetic long-slit data of a spiral galaxy extracted from a Multi Unit Spectroscopic Explorer hyper-spectral cube, the GP method remains robust as long as the host galaxy is spatially resolved and consistently outperforms classic methods. We apply the method to archival Keck spectra of two real transients, SN 2019eix and AT 2019qiz, to further demonstrate how the method uniquely recovers weak spectral features amid strong galaxy contamination, enabling refined constraints on the properties of both transients. We have released the software implementation, HostSub_GP, a scalable toolkit that leverages JAX, with an MIT license.

79 ASTRONOMY AND ASTROPHYSICS↗

On the application of pseudo-spectral FFT technique to non-periodic problems

The reduction-to-periodicity method using the pseudo-spectral Fast Fourier Transform (FFT) technique is applied to the solution of nonperiodic problems including the two-dimensional Navier-Stokes equations. The accuracy of the method is demonstrated by calculating derivatives of given functions, one- and two-dimensional convective-diffusive problems, and by comparing the relative errors due to the FFT method with seocnd order Finite Difference Methods (FDM). Finally, the two-dimensional Navier-Stokes equations are solved by a fractional step procedure using both the FFT and the FDM methods for the driven cavity flow and the backward facing step problems. Comparisons of these solutions provide a realistic assessment of the FFT method indicating its range of applicability.

Biringen, S.↗

Intercomparison of Field Methods for Acquiring Ground Reflectance at Railroad Valley Playa for Spectral Calibration of Satellite Data

Ground reflectance was acquired at the Railroad Valley Playa calibration site in Nevada USA using different methods of collection. The data was collected near the time and date of Landsat 8 OLI and Sentinel-2 satellite overpasses so an inter-comparison could be made with the reflectance products to determine which method was more suitable for vicarious calibration. The field spectrometers and reference panels were characterized before the field campaign. A continuous acquisition method was compared to stop and measure collections. Both acquisition methods were collected along an 80 m east-west transect as well as for a series of north-south transects over an 80 x 320 m area, with the stop and measure method being performed at random sampling locations. The measurements were performed using two field spectrometers by three teams of two people to compare the repeatability. The aim of the field campaign was to determine the variability due to the operator and the method of collection.

Lau, Ian C.↗

Intercomparison of Field Methods for Acquiring Ground Reflectance at Railroad Valley Playa for Spectral Calibration of Satellite Data

Ground reflectance was acquired at the Railroad Valley Playa calibration site in Nevada USA using different methods of collection. The data was collected near the time and date of Landsat 8 OLI and Sentinel-2 satellite overpasses so an inter-comparison could be made with the reflectance products to determine which method was more suitable for vicarious calibration. The field spectrometers and reference panels were characterized before the field campaign. A continuous acquisition method was compared to stop and measure collections. Both acquisition methods were collected along an 80 m east-west transect as well as for a series of north-south transects over an 80 x 320 m area, with the stop and measure method being performed at random sampling locations. The measurements were performed using two field spectrometers by three teams of two people to compare the repeatability. The aim of the field campaign was to determine the variability due to the operator and the method of collection.

Lau, Ian C.↗

Cloud altitude determination from infrared spectral radiances

The CO2 slicing method is generally recognized as the most accurate means of inferring cloud altitude from passive infrared radiance observations. The method is applicable to semi-transparent and broken clouds. During the cirrus FIRE and COHMEX field experiments, CO2 channel radiance data suitable for cloud altitude specification were achieved from moderate spectral resolution satellite sounders (NOAA-TOVS and GOES-VAS) and from a High spectral resolution Interferometer Spectrometer (HIS) flown on the NASA U2/ER2 aircraft. Also aboard the ER2 was a down-looking active lidar unit capable of providing cloud top pressure verifications with high accuracy. A third instrument, the Multispectral Atmospheric Mapping Sensor (MAMS) provided 50 meter resolution infrared window data which is used wtih radiosonde data to verify the heights of middle and low level clouds. Comparisons of lidar and MAMS/radiosonde ground truth cloud heights are made with those determined from: high resolution (0.5/cm) HIS spectra, HIS spectra degraded to the moderate resolution (15/cm) of the VAS/TOVS instruments, and spectrally averaged HIS radiances for individual pairs of VAS spectral channels. The results show that the best results are achieved from high resolution spectra; the RMS difference with the ground truth is 23 mb. The RMS differences between the infrared radiance determination and ground truth increase by 35 percent when the spectral resolution is degraded to the moderate spectral resolution of the VAS/TOVS instruments and by 52 to 183 percent, depending upon channel combinations, when only two spectral channels at VAS/TOVS spectral resolution are used.

Smith, William L.↗

Spectral induced polarization monitoring of induced calcite precipitation in subsurface sediments

Co-precipitation of contaminants within the crystalline structure of calcite is a promising natural attenuation or remedial technology being considered at contaminated sites. We explore the sensitivity of the spectral induced polarization (SIP) method to induced calcite precipitation in natural sediments as a path forward to non-invasively monitor these sites. We performed time-lapse column experiments using phased (I-IV) injections over 40 days on natural sediments from the Hanford Site (Washington State, USA). In the phased injections, abiotic calcite precipitation was induced and confirmed to have occurred. Previous work in glass beads and homogeneous sand was limited to high frequency detection of calcite, however in this work we observed the development of two polarization mechanisms, one at high frequency (>100 Hz) and one at low frequency (< 100 Hz). Based on the characteristic frequencies from the SIP high and low frequency regimes, characteristic length scales (L) were computed where the adsorption mode of Na+ versus Ca2+ was compared by using diffusion coefficients corresponding to Na+ versus an arithmetically averaged value for Na+ and Ca2+. Using the diffusion coefficient of Na+, the high frequency L was found to correlate well with the size of the calcite crystals. The low frequency L correlated well with the individual natural sediment grain sizes within the columns. During late experimental times (day 36 and 40), the characteristic low frequency in two of the experimental columns shifted to lower frequencies (<0.001 Hz) which may signify SIP sensitivity of the formed calcite with the sediment grains. In field applications, the development of a low frequency polarization length scale to monitor calcite precipitation is promising for field monitoring applications, however further laboratory work needs to be performed to examine the SIP sensitivity of calcite formation in the presence of to natural sediments

calcium carbonate, calcite, precipitation, spectra↗

Changes in SSL Device Efficiency and Optical Performance Under Accelerated Aging Conditions

Lighting application efficiency (LAE) describes the efficient delivery of light from the light source to the lighted task and is viewed as a new frontier—increasing energy savings with solid-state lighting (SSL) technologies. The framework for LAE that is proposed by the U.S. Department of Energy (DOE) consists of four major elements: light source efficiency, optical delivery efficiency, spectral efficiency, and intensity effectiveness. This report focuses on a sampling of the available SSL products that can be broadly defined as having modified spectral output because the method of spectra modification has a significant impact on light source efficiency and long-term optical delivery and spectral efficiencies. This report focused on the changes in light source, optical delivery, and spectral efficiencies that occur during aging of SSL devices. An accelerated stress test (AST) regiment was developed for the devices under test (DUTs) examined in this report to provide insights into how the performance of SSL devices change with aging. The AST protocols demonstrate that the SSL products discussed in this report often reduce light source efficiency to achieve different spectral characteristics. In addition, aging of the optical components (e.g., lenses, solder masks) in SSL devices can produce increased light absorption, which negatively impacts optical delivery efficiency and light source efficiency. The modified spectral outputs of the selected SSL products discussed in this report come in a variety of form factors and achieve enhanced optical performance by using a variety of methods. All of the products examined in this study use mid-power light-emitting diodes (MP-LEDs), although the number, configuration, phosphor content, and light-emitting diode (LED) pump of the MP-LEDs differ. Product MS-1 is a 60-watt (W) replacement A19 lamp with a hermetically sealed glass globe, which contains an embedded optical filter to absorb green and yellow emissions, thereby creating a “sunlike” modified spectrum. Product MS-2 is a 60-W replacement A19 lamp with 30 MP-LEDs, and it uses a violet LED pump, along with green and red phosphor emissions, to produce a “healthy” spectrum. This spectrum omits blue emissions in an effort to reduce melanopic lux. Product MS-3 is an LED module consisting of 21 MP-LEDs that use a violet LED pump, along with blue, green, and red phosphors, to produce a “sunlike” spectrum. Products MS-4 and MS-5 are both 6-inch (in) downlights that use a manual switching mechanism so that users can select application-specific correlated color temperatures before installation. Products MS-4 and MS-5 both contain two LED primaries (2,700 Kelvin [K] and 5,000 K) for spectral tuning. Product MS-4 contains 12 MP-LEDs for each LED primary, and Product MS-5 contains 10 MP-LEDs for each LED primary. This report summarizes the overall findings from up to 8,000 hours (hrs) of AST on the lamp DUTs (Products MS-1 and MS-2); up to 5,000 hrs of AST on the LED light engine DUTs (Product MS-3); and up to 7,000 hrs of AST on the downlight DUTs (Products MS-4 and MS-5). The AST procedures used in this study included a room temperature operational life (RTOL) test, an operational life test conducted at 45 degrees Celsius (°C; 45OL) test, an operational life test conducted at 75°C (75OL), a wet high-temperature operational life test performed at 65°C and 90% relative humidity (6590), and a wet high-temperature operational life test performed at 75°C and 75% relative humidity (7575). The AST procedures used for Products MS-1 and MS-2 were RTOL, 45OL, and 6590. The AST procedures used for Products MS-3, MS-4, and MS-5 were RTOL, 75OL, and 7575. During the ASTs described herein, separate populations of each product (three DUTs in each population for Products MS-1, MS-2, MS-4, and MS-5; four DUTs in each population for Product MS-3) were subjected to power cycling of 1 hr on and 1 hr off. The key findings from this study include the following. Enhanced optical performance came at the cost of reduced light source efficiency for the lamps and light engines examined in this study. The optical filter used to produce a “sunlike” spectrum for Product MS-1 reduced light source efficiency by 26%, from 113 lumens per watt (lm/W) to 85 lm/W. Products MS-2 and MS-3 that used a violet-pumped LED to achieve “healthy” and “sunlike” enhanced optical performance, respectively, suffered the largest reduction in initial light source efficiency (49 lm/W for Product MS-2 and 68 lm/W for Products MS-3) perhaps because of the use of violet LED as the optical pump. Product MS-2 also had the poorest color fidelity because of undersaturation of blues and oversaturation of greens and yellows. Chromaticity maintenance of the products in this study was generally good, with parametric failure only occurring for one product at one AST condition (i.e., Product MS-3 at 7575). The chromaticity shift for Product MS-3 in 7575 test conditions resulted from reduced emissions of the broad green and red phosphors used to mimic sunlight in the 500–750 nanometer (nm) range. As a result of these phosphor emission losses, chromaticity shifted toward the more stable violet-pumped LED and blue phosphor. Although chromaticity maintenance was acceptable for most products tested, different chromaticity shift mechanisms were observed for temperature and humidity tests compared with temperature alone for Products MS-1, MS-2, and MS-3. For Product MS-1, a relative increase in green emissions was observed with humidity, which may indicate humidity-accelerated degradation of the optical filter at green wavelengths (optical delivery efficiency reduction) or degradation of the emitters in the red region (spectral efficiency reduction). The violet-pumped products (i.e., MS-2 and MS-3) exhibited different chromaticity shift behavior in the temperature-humidity environments, with Product MS-2 shifting generally yellow because of photo-induced oxidation of the plastic globe (i.e., a reduction of optical delivery efficiency) and Product MS-3 shifting toward violet and blue emitters because of faster loss of emission from green and red phosphors (i.e., a reduction in spectral efficiency). Because of an initial drop in power consumption, the light source efficiency of downlights (Products MS-4 and MS-5) increased at RTOL throughout the test duration. The light source efficiency initially increased during 75OL until a decay in luminous flux maintenance (LFM) dominated light source efficiency, whereas the light source efficiency decreased for the entire 7575 test duration. It was found that increasing the ambient environment of an SSL device from 25°C to 75°C decreases the LFM by 2.7 to 5.5, depending on design of the SSL device. Adding humidity to the system (75OL to 7575) was found to decrease LFM by another factor of approximately 3.0. A common location of failure was identified for the downlights (Products MS-4 and MS-5) operated in the 7575 environment. This failure abruptly occurred between 3,000 to 5,000 hrs of testing on the film capacitor of the electromagnetic interference (EMI) filter near the diode bridge for 11 of the 12 downlights. It is likely that this failure was caused by a combination of the high electrical voltage across the capacitor, the location of the capacitor near the heat sources (e.g., transformers, diode bridges, power resistors), and the high stress environment of 7575. Longer test times are needed to fully understand the LFM, luminous efficacy changes, and chromaticity shifts for some of the products. Because of the high reliability, light source efficiency, and spectral tuning capabilities of LEDs, the expectations of LAE for SSL products are greatly increased over traditional lighting products. The data gathered in this report begin to provide an understanding of the tradeoffs that current SSL products undergo when optimizing the different efficiency elements of LAE. As discussed in this report, the findings from the tests conducted show that the optimization of spectral efficiency can come at the cost of initial light source efficiency. Furthermore, the introduction of violet LEDs can promote long-term optical delivery efficiency degradation, and the introduction of optical filters or new phosphors can lead to unwanted spectral efficiency changes because the ratio of phosphor emitters changes with aging. The data presented in this report also identified a common failure location in 6-in downlights. The results regarding long-term behavior of the modified spectra devices studied provide valuable information about changes to the light source, spectral, and optical delivery efficiencies as the devices age. This information can be used to improve future SSL designs.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Faster spectral density calculation using energy moments

Abstract Accurate predictions of inclusive scattering cross sections in the linear response regime require efficient and controllable methods to calculate the spectral density in a strongly-correlated many-body system. In this work we reformulate the recently proposed Gaussian Integral Transform technique in terms of Fourier moments of the system Hamiltonian which can be computed efficiently on a quantum computer. One of the main advantages of this framework is that it allows for an important reduction of the computational cost by exploiting previous knowledge about the energy moments of the spectral density. For a simple model of medium mass nucleus like $$^{40}$$ 40 Ca and target energy resolution of 1 MeV we find an expected speed-up of $$\approx 125$$ ≈ 125 times for the calculation of the giant dipole response and of $$\approx 50$$ ≈ 50 times for the simulation of quasi-elastic electron scattering at typical momentum transfers.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Analysis and Validation of Spectral Irradiance Simulations for 75 kW Bifacial Solar Test Field

This work investigates how the spectrum of irradiance incident on the rear of bifacial modules impacts their performance. Light incident on the rear of bifacial modules can be reflected from the ground, mounting structures, and other nearby objects, causing both the intensity and spectrum to be modified. As a result, PV cells and sensors with different spectral responses report different values for the rear irradiance, leading to increased uncertainty when modeling performance. Here, we calculate the spectral irradiance incident on the rear of modules through raytrace simulations and validate with measured field data collected from a 75kW single-axis-tracked bifacial test site. Spectral responses for different sensors and PV cells are applied and compared with field measurements for four days. Based on these results, a method for improving non-spectral simulations is proposed. In addition, a linear regression is applied to the modeled spectral results as a method to gain insight into the contributions of ground reflected light to total rear irradiance.

bifacial photovoltaics↗

A survey of unsupervised learning methods for high-dimensional uncertainty quantification in black-box-type problems

Constructing surrogate models for uncertainty quantification (UQ) on complex partial differential equations (PDEs) having inherently high-dimensional O(10 n ), n ≥ 2, stochastic inputs (e.g., forcing terms, boundary conditions, initial conditions) poses tremendous challenges. The “curse of dimensionality” can be addressed with suitable unsupervised learning techniques used as a pre-processing tool to encode inputs onto lower-dimensional subspaces while retaining its structural information and meaningful properties. In this work, we review and investigate thirteen dimension reduction methods including linear and nonlinear, spectral, blind source separation, convex and non-convex methods and utilize the resulting embeddings to construct a mapping to quantities of interest via polynomial chaos expansions (PCE). Here, we refer to the general proposed approach as manifold PCE (m-PCE), where manifold corresponds to the latent space resulting from any of the studied dimension reduction methods. To investigate the capabilities and limitations of these methods we conduct numerical tests for three physics-based systems (treated as black-boxes) having high-dimensional stochastic inputs of varying complexity modeled as both Gaussian and non-Gaussian random fields to investigate the effect of the intrinsic dimensionality of input data. We demonstrate both the advantages and limitations of the unsupervised learning methods and we conclude that a suitable m-PCE model provides a cost-effective approach compared to alternative algorithms proposed in the literature, including recently proposed expensive deep neural network-based surrogates and can be readily applied for high-dimensional UQ in stochastic PDEs.

42 ENGINEERING↗

Comparing Top-Down Proteoform Identification: Deconvolution, PrSM Overlap, and PTM Detection

Generating top-down tandem mass spectra (MS/MS) for complex mixtures of proteoforms has become possible through improvements in fractionation, on-line separation, dissociation, and mass analysis. The algorithms to match tandem mass spectra to sequences have undergone a parallel evolution, with both spectral alignment and peak matching being paired with diverse methods for scoring proteoform-spectral matches (PrSMs). This study assesses state-of-the-art algorithms for top-down identification through three distinct challenges. The first is identifying a large yield of PrSMs while controlling false discovery rate (FDR) in identifying thousands of proteoforms from complex cell lysates via four software workflows: ProSight Proteome Discoverer, TopPIC, Informed Proteomics, and pTop. The second is the deconvolution of data from both Thermo Orbitrap-class and Bruker maXis Q-TOF instruments to produce consistent precursor charge and mass determinations while generating fragment mass lists to optimize identification. The third attempts to detect diverse post-translational modifications (PTMs) in proteoforms from cow milk and human ovarian tissue. The data demonstrate that existing software suites produce admirable sensitivity, in some cases identifying a third of collected tandem mass spectra with FDR controlled below 2%; the overlap in these PrSMs, however, illustrates real value in searching data with multiple search engines. Differences among identification workflows seem to result from each search algorithm incorporating its own deconvolution algorithm. By transmitting deconvolution data from multiple deconvolution routes (Thermo Xtract, Bruker Auto MSn, Mascot Distiller, TopFD, and FLASHDeconv) to the downstream TopPIC search algorithm, we were able to detect common causes of deconvolution disagreement. The detection of PTMs was very inconsistent among search algorithms, with some workflows suggesting as little as 1% of PrSMs from cow’s milk were singly-phosphorylated while other workflows found that 18% of PrSMs were singly-phosphorylated. Taken together, these results make a strong argument for top-down researchers to adopt a standard practice of analyzing each MS/MS experiment with at least two different search engines.

59 BASIC BIOLOGICAL SCIENCES↗