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At least 433 records · Page 24

Deep-Learning-Derived Evaluation Metrics Enable Effective Benchmarking of Computational Tools for Phosphopeptide Identification

Tandem mass spectrometry (MS/MS)-based phosphoproteomics is a powerful technology for global phosphorylation analysis. However, applying four computational pipelines to a typical mass spectrometry (MS)-based phosphoproteomic dataset from a human cancer study, we observed a large discrepancy among the reported phosphopeptide identification and phosphosite localization results, underscoring a critical need for benchmarking. While efforts have been made to compare performance of computational pipelines using data from synthetic phosphopeptides, evaluations involving real application data have been largely limited to comparing the numbers of phosphopeptide identifications due to the lack of appropriate evaluation metrics. We investigated three deep learning-derived features as potential evaluation metrics: phosphosite probability, Delta RT and spectral similarity. Predicted phosphosite probability is computed by MusiteDeep, which provides high accuracy as previously reported; Delta RT is defined as the absolute retention time (RT) difference between RTs observed and predicted by AutoRT; and spectral similarity is defined as the Pearson’s correlation coefficient between spectra observed and predicted by pDeep2. Using a synthetic peptide dataset, we found that both Delta RT and spectral similarity provided excellent discrimination between correct and incorrect peptide-spectrum matches (PSMs) both when incorrect PSMs involved wrong peptide sequences and even when incorrect PSMs were caused by only incorrect phosphosite localization. Based on these results, we used all the three deep learning-derived features as evaluation metrics to compare different computational pipelines on diverse set of phosphoproteomic datasets and showed their utility in benchmarking performance of the pipelines. The benchmark metrics demonstrated in this study will enable users to select computational pipelines and parameters for routine analysis of phosphoproteomics data and will offer guidance for developers to improve computational methods.

59 BASIC BIOLOGICAL SCIENCES↗

Particle identification studies with a full-size 4-GEM prototype for the ALICE TPC upgrade

We present that a large Time Projection Chamber is the main device for tracking and charged-particle identification in the ALICE experiment at the CERN LHC. After the second long shutdown in 2019/20, the LHC will deliver Pb beams colliding at an interaction rate of about 50 kHz, which is about a factor of 50 above the present readout rate of the TPC. This will result in a significant improvement on the sensitivity to rare probes that are considered key observables to characterize the QCD matter created in such collisions. In order to make full use of this luminosity, the currently used gated Multi-Wire Proportional Chambers will be replaced. The upgrade relies on continuously operated readout detectors employing Gas Electron Multiplier technology to retain the performance in terms of particle identification via the measurement of the specific energy loss by ionization d/d. A full-size readout chamber prototype was assembled in 2014 featuring a stack of four GEM foils as an amplification stage. The performance of the prototype was evaluated in a test beam campaign at the CERN PS. Finally, the d/d resolution complies with both the performance of the currently operated MWPC-based readout chambers and the challenging requirements of the ALICE TPC upgrade program. Detailed simulations of the readout system are able to reproduce the data.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Augmentation of MS/MS Libraries with Spectral Interpolation for Improved Identification

Tandem mass spectrometry (MS/MS) is a primary tool for identification of small molecules and metabolites where resultant spectra are most commonly identified by matching them with spectra in MS/MS reference libraries. The high degree of variability in MS/MS spectrum acquisition techniques and parameters creates a significant challenge for building standardized reference libraries. Here we present a method to improve the usefulness of existing MS/MS libraries by augmenting available experimental spectra datasets with statistically interpolated spectra at unreported collision energies. We find that highly accurate spectral approximations can be interpolated from as few as three experimental spectra and that the interpolated spectra will be consistent with true spectra gathered from the same instrument as the experimental spectra. Supplementing existing spectral databases with interpolated spectra yields consistent improvements to identification accuracy on a range of instruments and precursor types. Applying this method yields significant improvements (~10% more spectra correctly identified) on large datasets (2,000 - 10,000 spectra), indicating this is a quick yet adept tool for improving spectral matching in situations where available reference libraries are not yet sufficient. We also find improvements of matching spectra across instrument types (between an Agilent Q-TOF and an Orbitrap Elite), at high collision energies (50 - 90 eV), and with smaller datasets available through MassBank.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

MCP-PMT development at Argonne for particle identification

The proposed high-energy high-luminosity polarized Electron-Ion Collider (EIC) demands excellent particle identification over a wide range of particles momenta to achieve the best separation between signal and background particles. Various Cherenkov imaging detector sub-systems are being considered in EIC detector concepts for hadron identification for particles momenta up to 50 GeV/c. One important challenge in this case is to provide a reliable highly pixelated photosensor working in the high radiation and high magnetic field environment. The recently commercialized Large Area Picosecond Photo-Detector (LAPPD) provides a promising low-cost photosensor solution for the various EIC Cherenkov imaging sub-systems. Optimization of the phtosensor design for high magnetic field tolerance, precision timing resolution, and pixelated readout was performed at Argonne National Laboratory with 6 x 6 cm(2) microchannel plate photomultipliers. The techniques and optimized design parameters would be transferrable to industrial partners for low-cost LAPPD production to achieve the demonstrated performance.

atomic layer deposition↗

Muon identification using multivariate techniques in the CMS experiment in proton-proton collisions at sqrt(s) = 13 TeV

The identification of prompt and isolated muons, as well asmuons from heavy-flavour hadron decays, is an important task. Wedeveloped two multivariate techniques to provide highly efficientidentification for muons with transverse momentum greater than10 GeV. One provides a continuous variable as an alternative to acut-based identification selection and offers a betterdiscrimination power against misidentified muons. The other oneselects prompt and isolated muons by using isolation requirements toreduce the contamination from nonprompt muons arising inheavy-flavour hadron decays. Both algorithms are developed using59.7 fb$^{-1}$ of proton-proton collisions data at a centre-of-massenergy of √(s)=13 TeV collected in 2018 with the CMSexperiment at the CERN LHC.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Nanoscale Phase Identification Using Two-Dimensional Pair Correlation Functions: A Case Study on Hafnium Oxide

Accurate identification of local phases in nanocrystalline materials is essential for understanding their functional properties, but it remains a significant challenge for polymorphic materials to locally differentiate them at nanoscale. This challenge is further compounded in polycrystalline materials with randomly oriented grains and the coexistence of multiple phases. In this report, we present a methodology for phase and orientation identification at the nanoscale by leveraging vector pair correlation functions extracted from atomically resolved scanning transmission electron microscopy (STEM) images. We demonstrate the accuracy of the methodology on both simulated and experimental data from HfO 2 -based films, a material that exhibits multiple coexisting phases in films with thicknesses ranging from 5 to 20 nm. While demonstrated on HfO 2 films, the methodology can be extended to other polymorphic nanocrystalline systems with complex phase coexistence.

36 MATERIALS SCIENCE↗

A Privacy Preserving Distributed Model Identification Algorithm for Power Distribution Systems

Distributed control/optimization is a promising approach for network systems due to its advantages over centralized schemes, such as robustness, cost-effectiveness, and improved privacy. However, distributed methods can have drawbacks, such as slower convergence rates due to limited knowledge of the overall network model. Additionally, ensuring privacy in the communication of sensitive information can pose implementation challenges. To address this issue, we propose a distributed model identification algorithm that enables each agent to identify the sub-model that characterizes the relationship between its local control and the overall system outputs. The proposed algorithm maintains the privacy of local agents by only communicating through dummy variables. We demonstrate the efficacy of our algorithm in the context of power distribution systems by applying it to the voltage regulation of a modified IEEE distribution system. The proposed algorithm is well-suited to the needs of power distribution controls and offers an effective solution to the challenges of distributed model identification in network systems.

data-driven modeling↗

Power System Event Identification with Transfer Learning Using Large-scale Real-world Synchrophasor Data in the United States

The lack of sufficient labeled events and long training time limit the applicability of deep neural network-based power system event identification using synchrophasor data. In this paper, we propose to leverage transfer learning technique to boost the reliability and reduce the required training time of neural classifier for power system event identification. We use the weights of a neural classifier trained on one transmission system as the initial parameters of another neural classifier for a different transmission system. Numerical tests with real-world synchrophasor data from the Eastern and Western Interconnections of the United States show that the proposed transfer learning approach is very effective in not only improving the training reliability but also reducing the training time.

24 POWER TRANSMISSION AND DISTRIBUTION↗

SVM-Based Parameter Identification for Composite ZIP and Electronic Load Modeling

This paper proposes a parameter identification technique for composite ZIP and electronic loads by leveraging the support vector machine (SVM) approach. Since the active power and the reactive power of electronic loads are piecewise functions of the voltage magnitude, the operating modes of electronic loads are determined by the voltage magnitude. To improve the accuracy of parameter identification, two filters (Hampel and Savitzky–Golay) are employed to preprocess measurements to reduce noise. The data after noise reduction serve as training data for the regression model that is solved by the SVM approach. Numerical results show that the SVM approach with filters can identify the parameters of the composite ZIP and electronic load model with high accuracy

Electronic load↗

Power System Event Identification Based on Deep Neural Network With Information Loading

Online power system event identification and classification are crucial to enhancing the reliability of transmission systems. In this study, we develop a deep neural network (DNN) based approach to identify and classify power system events by leveraging real-world measurements from hundreds of phasor measurement units (PMUs) and labels from thousands of events. Two innovative designs are embedded into the baseline model built on convolutional neural networks (CNNs) to improve the event classification accuracy. First, we propose a graph signal processing based PMU sorting algorithm to improve the learning efficiency of CNNs. Second, we deploy information loading based regularization to strike the right balance between memorization and generalization for the DNN. Numerical results based on real-world dataset from the Eastern Interconnection of the U.S power transmission grid show that the combination of PMU based sorting and the information loading based regularization techniques help the proposed DNN approach achieve highly accurate event identification and classification results.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Learning-Based Real-Time Event Identification Using Rich Real PMU Data

A large-scale deployment of phasor measurement units (PMUs) that reveal the inherent physical laws of power systems from a data perspective enables an enhanced awareness of power system operation. However, the high-granularity and non-stationary nature of PMU data and imperfect data quality could bring great technical challenges for real-time system event identification. To address these challenges, this paper proposes a two-stage learning-based framework. In the first stage, a Markov transition field (MTF) algorithm is exploited to extract the latent data features by encoding temporal dependency and transition statistics of PMU data in graphs. Then, a spatial pyramid pooling (SPP)-aided convolutional neural network (CNN) is established to efficiently and accurately identify power events. The proposed method fully builds on and is also tested on a large real-world dataset from several tens of PMU sources (and the corresponding event logs), located across the U.S., with a time span of two consecutive years. We report the numerical results validate that our method has high identification accuracy while showing good robustness against poor data quality.

24 POWER TRANSMISSION AND DISTRIBUTION↗

A Data-Driven Framework for Power System Event Type Identification via Safe Semi-Supervised Techniques

Herein this paper investigates the use of phasor measurement unit (PMU) data with deep learning techniques to construct real-time event identification models for transmission networks. Increasing penetration of distributed energy resources represents a great opportunity to achieve decarbonization, as well as challenges in systematic situational awareness. When high-resolution PMU data and sufficient manually recorded event labels are available, the power event identification problem is defined as a statistical classification problem that can be solved by numerous cutting-edge classifiers. However, in real grids, collecting tremendous high-quality event labels is quite expensive. Utilities frequently have a large number of event records without in-depth details (i.e., unlabeled events). To bridge this gap, we propose a novel semi-supervised learning-based method to improve the performance of event classifiers trained with a limited number of labeled events by exploiting the information from massive unlabeled events. In other words, compared to existing data-driven methods, our method requires only a small portion of labeled data to achieve a similar level of accuracy. Meanwhile, this work discusses and addresses the performance degradation caused by class distribution mismatch between the training set and the real applications. Based on the proposed safe learning mechanism, our model does not directly use all unlabeled events during model training, but selectively uses them through a comprehensive evaluation procedure. Numerical studies on a sizable PMU dataset have been used to validate the performance of the proposed method.

42 ENGINEERING↗

Robust Time-Varying Parameter Identification for Composite Load Modeling

With the increasing integration of uncertain resources, e.g., renewables, electric vehicles, and demand responses, it is imperative to understand the characteristics of loads for power system analysis and control. Challenges of load modeling come from a variety of load components and time-varying compositions. In addition, the existence of outliers in measurements further complicates the problem. This paper proposes a robust time-varying parameter identification technique for composite ZIP and induction motor load models. A batch-model regression form, including time-varying parameters, is established based on state transition models and observation models with current observations and previous predictions to guarantee data redundancy. To deal with outliers, down-weighting coefficients of measurements are calculated with a projection statistics approach. Based on the batch-model regression and the down-weighting coefficients, parameter identification at each sample time is formulated as a weighted least squares optimization, which is solved by the Newton-Raphson approach with the previous estimated parameters as the initial iteration values. In addition, parameters' sensitivities to different outliers in measurements are analyzed. Results on the IEEE 57-bus system and IEEE 118-bus system show that the proposed algorithm can robustly identify time-varying parameters for the composite load models.

Composite load model↗

Simplex‐based model for nanoparticle grain identification in four‐dimensional scanning transmission electron microscopy data

Grain identification in polycrystalline nanoparticles, for example, determining which crystal phases are present at each spatial location, is fundamental to materials characterisation. This is particularly challenging when grains overlap extensively, as commonly occurs in four-dimensional scanning transmission electron microscopy (4D-STEM) datasets. We propose a simplex-based model (SBM) in which each simplex vertex represents the diffraction pattern (DP) of a pure grain, and the simplex edges and interior represent overlapping grains. Our SBM grain identification algorithm operates on the Bragg disk (BD) data matrix distilled from the 4D-STEM data to identify the grain membership at each scan position, together with a BD feature matrix whose columns represent the DPs for each constituent grain, which is important for identifying the crystal structure of each grain. We solve the model using a two-stage algorithm. In Stage 1, we adapt a linear mixing algorithm to estimate an initial BD feature matrix whose columns represent DPs of potentially overlapping grains. Our Stage 2 algorithm incorporates sparsity considerations to transform the initial BD feature matrix so that its columns represent DPs of pure grains. Using simulated datasets with various grain configurations, we demonstrate that SBM recovers both the BD feature matrix and membership maps more accurately than existing methods, even when a grain lacks any pure region and completely overlaps with other grains.

4D-STEM segmentation↗

Development of Real-Time System Identification to Detect Abnormal Operations in a Gas Turbine Cycle

Here, we present a novel online system identification methodology for monitoring the performance of power systems. This methodology was demonstrated in a gas turbine recuperated power plant designed for a hybrid configuration. A 120-kW Garrett microturbine modified to test dynamic control strategies for hybrid power systems designed at the National Energy Technology Laboratory (NETL) was used to implement and validate this online system identification methodology. The main component of this methodology consists of an empirical transfer function model implemented in parallel to the turbine speed operation and the fuel control valve, which can monitor the process response of the gas turbine system while it is operating. During fully closed-loop operations or automated control, the output of the controller, fuel valve position, and the turbine speed measurements were fed for a given period of time to a recursive algorithm that determined the transfer function parameters during the nominal condition. After the new parameters were calculated, they were fed into the transfer function model for online prediction. The turbine speed measurement was compared against the transfer function prediction, and a control logic was implemented to capture when the system operated at nominal or abnormal conditions. To validate the ability to detect abnormal conditions during dynamic operations, drifting in the performance of the gas turbine system was evaluated. A leak in the turbomachinery working fluid was emulated by bleeding 10% of the airflow from the compressor discharge to the atmosphere, and electrical load steps were performed before and after the leak. This tool could detect the leak 7 s after it had occurred, which accounted for a fuel flow increase of approximately 15.8% to maintain the same load and constant turbine speed operations.

algorithms↗

Material Identification Using Dual Energy X-ray Absorptiometry

Two implementations of dual energy X-ray absorptiometry were studied to identify materials using X-ray attenuation data taken with the Digital Radiography and Computed Tomography (DRCT) systems that were developed for the Recovered Chemical Materiel Directorate (RCMD). Maitrejean et al.’s approach utilizes eigen effects through Principal Component Analysis, while Osipov et al.’s approach proposed a physics-based method. Both approaches approximate mass attenuation coefficients of materials as a linear combination of basis functions (eigen effects) or physics-based equations. A set of coefficients {a 1 , a 2 , a 3 } or {B, D} were found by parameter optimization in EXCEL Solver. The identification parameters, {$\frac{a_{2}}{a_{1}}$, $\frac{a_{3}}{a_{1}}$} or estimated effective atomic number $\hat{Z}$ from {B, D}, were calculated to identify material of an aluminum 8 step wedge and a steel 8 step wedge in X-ray radiography images taken by a DRCT system. Maitrejean et al.’s approach was unable to provide reliable $\frac{a_{3}}{a_{1}}$ ratio values for identification of materials. Osipov et al.’s approach was found to be more robust in identify materials with a semi-empirical formula derived from test results in this study.

36 MATERIALS SCIENCE↗

Neural Ordinary Differential Equations for Nonlinear System Identification

Neural ordinary differential equations (NODE) have been recently proposed as a promising approach for nonlinear system identification tasks. In this work, we systematically compare their predictive performance with current state-of-the-art nonlinear and classical linear methods. In particular, we present a quantitative study comparing NODE's performance against neural state-space models and classical linear system identification methods and evaluate their inference speed and prediction performance on open-loop errors across eight different dynamical systems. The experiments show that NODEs can consistently improve the prediction accuracy by order of magnitude compared to benchmark methods. Besides improved accuracy, we also observed that NODEs are less sensitive to hyperparameters compared to neural state-space models by paying the cost of increased computation at the inference time.

machine leaning, system identification, physics in↗

The Evaluation of Machine Learning Techniques for Isotope Identification Contextualized by Training and Testing Spectral Similarity

Precise gamma-ray spectral analysis is crucial in high-stakes applications, such as nuclear security. Research efforts toward implementing machine learning (ML) approaches for accurate analysis are limited by the resemblance of the training data to the testing scenarios. The underlying spectral shape of synthetic data may not perfectly reflect measured configurations, and measurement campaigns may be limited by resource constraints. Consequently, ML algorithms for isotope identification must maintain accurate classification performance under domain shifts between the training and testing data. To this end, four different classifiers (Ridge, Random Forest, Extreme Gradient Boosting, and Multilayer Perceptron) were trained on the same dataset and evaluated on twelve other datasets with varying standoff distances, shielding, and background configurations. A tailored statistical approach was introduced to quantify the similarity between the training and testing configurations, which was then related to the predictive performance. Wilcoxon signed-rank tests revealed that the OVR-wrapped XGB significantly outperformed the other algorithms, with confidence levels of 99.0% or above for the 133Ba, 60Co, 137Cs, and 152Eu sources. The findings from this work are significant as they outline techniques to promote the development of robust ML-based approaches for isotope identification.

domain adaptation↗