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All sourcesNASA NTRSDOE OSTI
DOE OSTI2015

Measurement of the E Polarization Observable for yd --> pi^-p(p_s), yd-->K^0Lambda(p_s), and yd-->pi^+pi^-d(0) using CLAS g14 data at Jefferson Lab

Photoproduction of mesons from the nucleon has a long and ongoing tradition for exploring nucleon excitations and the baryon-baryon interaction. Polarization observables which play a role in the photoproduction mechanism are, therefore, essential in addition to the differential cross section. The CLAS collaboration at Jefferson Lab, has been active in measuring these observables, but until now only on a proton targets. However, a comprehensive picture of the pseudoscalar meson photoproduction requires neutron data as well. That is, paired measurements of observables in p and n reactions are necessary to disentangle the photoproduction mechanism on the basis of isospin I = 0, and I = 1 photo-coupling transition amplitudes. The g14 experiment with 'HDIce,' a longitudinally polarized solid target of molecular hydrogen-deuteride with low background contamination from other nuclear species, provided an unique opportunity to measure several polarization observables|for the first time|on the neutron for different channels. In particular, we present our measurements of the E beam-target polarization observable, which requires circularly polarized beam and a longitudinally polarized target, for p pi^-, K^0Lambda, and K^0Sigma^0 channels in the energy range of 1.5 lte W lte 2.3 GeV. In addition, we also utilized the g14 dataset to investigate the intrinsic spin of a possible dibaryonic ND bound state by measuring the E (beam-target) observable on the d-pi^+/-d channel of the reaction yd --> pi^+pi^-d(0). Finally, this thesis also discusses a highly efficient multivariate analysis method called Boosted Decision Trees, which we employed extensively for this work and which has not been used before in CLAS data analysis.

Ho, Dao↗
DOE OSTI2014

Delayed HIV diagnosis common in Sweden, 2003–2010

Background: Early diagnosis of HIV is important for the prognosis of individual patients, because antiretroviral treatment can be started at the appropriate time, and for public health, because transmission can be prevented. Methods: Data were collected from 767 HIV patients who were diagnosed in Sweden during 2003–2010 and were infected in Sweden or born in Sweden and infected abroad. A recent infection testing algorithm (RITA) was applied to BED-EIA test results (OD-n < 0.8), CD4 counts (≥ 200 cells/μl), and clinical information. A recent infection classification was used as indicator for early diagnosis. Time trends in early diagnosis were investigated to detect population changes in HIV testing behavior. Patients with early diagnosis were compared to patients with delayed diagnosis with respect to age, gender, transmission route, and country of infection (Sweden or abroad). Results: Early diagnosis was observed in 271 patients (35%). There was no statistically significant time trend in the yearly percentage of patients with early diagnosis in the entire study group (p = 0.836) or in subgroups. Early diagnosis was significantly more common in men who have sex men (MSM) (45%) than in heterosexuals (21%) and injecting drug users (27%) (p < 0.001 and p = 0.001, respectively) in both univariate and multivariable analyses. The only other factor that remained associated with early diagnosis in multivariable analysis was young age group. Conclusion: Approximately one-third of the study patients were diagnosed early with no significant change over time. Delayed HIV diagnosis is a considerable problem in Sweden, which does not appear to diminish.

delayed diagnosis↗
DOE OSTI2015

Evaluating lignocellulosic biomass, its derivatives, and downstream products with Raman spectroscopy

The creation of fuels, chemicals, and materials from plants can aid in replacing products fabricated from non-renewable energy sources. Before using biomass in downstream applications, it must be characterized to assess chemical traits, such as cellulose, lignin, or lignin monomer content, or the sugars released following an acid or enzymatic hydrolysis. The measurement of these traits allows researchers to gage the recalcitrance of the plants and develop efficient deconstruction strategies to maximize yields. Standard methods for assessing biomass phenotypes often have experimental protocols that limit their use for screening sizeable numbers of plant species. Raman spectroscopy, a non-destructive, non-invasive vibrational spectroscopy technique, is capable of providing qualitative, structural information and quantitative measurements. Applications of Raman spectroscopy have aided in alleviating the constraints of standard methods by coupling spectral data with multivariate analysis to construct models capable of predicting analytes. Hydrolysis and fermentation products, such as glucose and ethanol, can be quantified off-, at-, or on-line. Raman imaging has enabled researchers to develop a visual understanding of reactions, such as different pretreatment strategies, in real-time, while also providing integral chemical information. Finally, this review provides an overview of what Raman spectroscopy is, and how it has been applied to the analysis of whole lignocellulosic biomass, its derivatives, and downstream process monitoring.

09 BIOMASS FUELS↗
DOE OSTI2016

Editorial: Biomass Modification, Characterization, and Process Monitoring Analytics to Support Biofuel and Biomaterial Production

This Frontiers Research Topic journeys through various challenges facing researchers seeking to develop fuels and products derived from lignocellulosic biomass. These challenges include: the rapid quantification of plant cell wall chemistry, enabling yields of potential monomeric sugars to be assessed, identification of plants possessing ideal trait that can be brought to the forefront of research efforts; once the native plant chemistry is known, how can yields be improved by chemically or genetically altering plant cell walls to reduce recalcitrance; does genetic modification of plants to increase accessibility to saccharification enzymes hinder the plant’s growth and/or function; are the innovative methods identified by researchers cost-effective and scalable to a commercial level? These topics are a sampling of the obstacles researchers combat when nominating a specific plant for downstream applications or implementing new deconstruction, genetic, or measurement strategies. How well can different plants can be broken down into useful, downstream precursor molecules? Efforts to develop a lucid picture of the chemical composition of abundant, diverse plants being explored as potential starting feedstocks has resulted in the evolution of high-throughput techniques that permit many more samples to be screened in much shorter periods of time. Advances in thermochemical and spectroscopic techniques have enabled the screening of thousands of plants for different phenotypes, such as cell-wall composition and monomeric sugar release. Some instrumental methods have been coupled with multivariate analysis, providing elegant chemometric predictive models enabling the accelerated identification of potential feedstocks. Rapid instrumental techniques have been developed for real-time monitoring of diverse processes, such as the efficacy of specific pretreatment strategies, or downstream products, such as biofuels and biomaterials. Real-time process monitoring techniques are needed for all stages of the feedstocks-to-biofuels conversion process to maximize efficiency and lower costs by monitoring and optimizing performance. These approaches allow researchers to adjust experimental conditions during, rather than at the conclusion, of processes, thereby decreasing overhead expenses.

09 BIOMASS FUELS↗
DOE OSTI2020

Within and Among Fish Species Differences in Simulated Turbine Blade Strike Mortality: Limits on the Use of Surrogacy for Untested Species

Use of surrogacy remains a useful method for prioritizing research on representatives of at-risk groups of fishes, yet quantifiable evidence in support of its use is generally not available. Blade strike impact represents one of the most traumatic stressors experienced by fish during non-volitional movements through hydropower turbines. Here, we use data generated from laboratory trials on blade strike impact experiments to directly test use of surrogacy for salmonid and clupeid fishes. Results of logistic regression indicated that a -taxonomic (genus) variable was not a significant predictor of mortality among large rainbow trout and brook trout. Similar results were found for young-of-the-year shad species, but genus-level taxonomy was a significant predictor of mortality while species was not. Multivariate analysis of morphometric data showed that shad clustered together based on similarities in fish shape which was also closely associated with genus. Logistic regression including size as a major covariate suggested total fish length was not a significant predictor of mortality, yet dose–response data suggest differential susceptibility to lower strike velocities. We suggest that use of surrogacy among species is justifiable but should be avoided within a species since the effects of size remain unclear.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

An evaluation of prognostic factors, oncologic outcomes, and management for primary and recurrent squamous cell carcinoma of the vulva

Objective: To evaluate prognostic factors, outcomes, and management patterns of patients treated for squamous cell carcinoma of the vulva. Methods: One hundred sixty-four women were retrospectively identified with primary squamous cell carcinoma of the vulva treated at our institution between 1/1996–12/2018. Descriptive statistics were performed on patient, tumor, and treatment characteristics. The χ 2 tests and t-tests were used to compare categorical variables and continuous variables, respectively. Recurrence free survival (RFS), overall survival (OS), and disease-specific survival (DSS) were analyzed with Kaplan-Meier estimates, the log-rank test, and Cox proportional hazards. Results: Median follow-up was 52.5 months. Five-year RFS was 67.9%, 60.0%, 42.1%, and 20.0% for stage I–IV, respectively. Five-year DSS was 86.2%, 81.6%, 65.0%, and 42.9% for stage I–IV, respectively. On multivariate analysis, positive margins predicted overall RFS (hazard ratio [HR]=3.55; 95% confidence interval [CI]=1.18–10.73; p=0.025), while presence of lichen sclerosus on pathology (HR=2.78; 95% CI=1.30–5.91; p=0.008) predicted local RFS. OS was predicted by nodal involvement (HR=2.51; 95% CI=1.02–6.13; p=0.043) and positive margins (HR=5.19; 95% CI=2.03–13.26; p=0.001). Adjuvant radiotherapy significantly improved RFS (p=0.016) and DSS (p=0.012) in node-positive patients. Median survival after treatment of local, groin, and pelvic/distant recurrence was 52, 8, and 5 months, respectively. Conclusion: For primary treatment, more conservative surgical approaches can be considered with escalation of treatment in patients with concurrent precursor lesions, positive margins, and/or nodal involvement. Further studies are warranted to improve risk stratification in order to optimize treatment paradigms for vulvar cancer patients.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2012

Monitoring, Controlling and Safeguarding Radiochemical Streams at Spent Fuel Reprocessing Facilities, Part 2: Gamma-Ray Spectroscopic Methods

The International Atomic Energy Agency (IAEA) has established international safeguards standards for fissionable material at spent fuel reprocessing plants to ensure that significant quantities of weapons-useable nuclear material are not diverted from these facilities. For large throughput nuclear facilities, it is difficult to satisfy the IAEA safeguards accountancy goal for detection of abrupt diversion. Currently, methods to verify material control and accountancy (MC&A) at these facilities require time-consuming and resource-intensive destructive assay (DA). Leveraging new on-line non-destructive assay (NDA) process monitoring techniques in conjunction with the traditional and highly precise DA methods may provide an additional measure to nuclear material accountancy which would potentially result in a more timely, cost-effective and resource efficient means for safeguards verification at such facilities. By monitoring process control measurements (e.g. flowrates, temperatures, or concentrations of reagents, products or wastes), abnormal plant operations can be detected. Pacific Northwest National Laboratory (PNNL) is developing on-line NDA process monitoring technologies based upon gamma-ray and optical spectroscopic measurements to potentially reduce the time and resource burden associated with current techniques. The Multi-Isotope Process (MIP) Monitor uses gamma spectroscopy and multivariate analysis to identify off-normal conditions in process streams. The spectroscopic monitor continuously measures chemical compositions of the process streams including actinide metal ions (U, Pu, Np), selected fission products, and major stable flowsheet reagents using UV-Vis, Near IR and Raman spectroscopy. Multi-variate analysis is also applied to the optical measurements in order to quantify concentrations of analytes of interest within a complex array of radiochemical streams. This paper will provide an overview of these methods and reports on-going efforts to develop and demonstrate the technologies. This paper is Part 2 of a two part series, and focuses on the gamma spectroscopy based, Multi-Isotope Process (MIP) Monitor method.

Schwantes, Jon M↗
DOE OSTI2012

Monitoring, Controlling and Safeguarding Radiochemical Streams at Spent Fuel Reprocessing Facilities with Optical and Gamma-Ray Spectroscopic Methods

The International Atomic Energy Agency (IAEA) has established international safeguards standards for fissionable material at spent fuel reprocessing plants to ensure that significant quantities of weapons-useable nuclear material are not diverted from these facilities. For large throughput nuclear facilities, it is difficult to satisfy the IAEA safeguards accountancy goal for detection of abrupt diversion. Currently, methods to verify material control and accountancy (MC&A) at these facilities require time-consuming and resourceintensive destructive assay (DA). Leveraging new on-line non-destructive assay (NDA) process monitoring techniques in conjunction with the traditional and highly precise DA methods may provide an additional measure to nuclear material accountancy which would potentially result in a more timely, cost-effective and resource efficient means for safeguards verification at such facilities. By monitoring process control measurements (e.g. flowrates, temperatures, or concentrations of reagents, products or wastes), abnormal plant operations can be detected. Pacific Northwest National Laboratory (PNNL) is developing on-line NDA process monitoring technologies based upon gamma-ray and optical spectroscopic measurements to potentially reduce the time and resource burden associated with current techniques. The Multi-Isotope Process (MIP) Monitor uses gamma spectroscopy and multivariate analysis to identify offnormal conditions in process streams. The spectroscopic monitor continuously measures chemical compositions of the process streams including actinide metal ions (U, Pu, Np), selected fission products, and major stable flowsheet reagents using UV-Vis, Near IR and Raman spectroscopy. Multi-variate analysis is also applied to the optical measurements in order to quantify concentrations of analytes of interest within a complex array of radiochemical streams. This paper will provide an overview of these methods and reports on-going efforts to develop and demonstrate the technologies.

controlling↗
DOE OSTI2015

New NIR Calibration Models Speed Biomass Composition and Reactivity Characterization

Obtaining accurate chemical composition and reactivity (measures of carbohydrate release and yield) information for biomass feedstocks in a timely manner is necessary for the commercialization of biofuels. This highlight describes NREL's work to use near-infrared (NIR) spectroscopy and partial least squares multivariate analysis to develop calibration models to predict the feedstock composition and the release and yield of soluble carbohydrates generated by a bench-scale dilute acid pretreatment and enzymatic hydrolysis assay. This highlight is being developed for the September 2015 Alliance S&T Board meeting.

09 BIOMASS FUELS↗
DOE OSTI2016

pyCroscopy

Suite of Python Libraries that implement structure data format processing, multivariate analysis, and interactive visualization of microscopy data and other spectral imaging modalities, including scanning probe microscopy, electron microscopy, Bragg diffraction microscopy, and chemical imaging.

Jesse, Stephen↗
DOE OSTI2017

Full information acquisition in scanning probe microscopy and spectroscopy

Apparatus and methods are described for scanning probe microscopy and spectroscopy based on acquisition of full probe response. The full probe response contains valuable information about the probe-sample interaction that is lost in traditional scanning probe microscopy and spectroscopy methods. The full probe response is analyzed post data acquisition using fast Fourier transform and adaptive filtering, as well as multivariate analysis. The full response data is further compressed to retain only statistically significant components before being permanently stored.

36 MATERIALS SCIENCE↗
DOE OSTI2022

MSW Variability Mapping and Conversion to Biofuel

MSW (Municipal Solid Waste) is a form of biomass which consists of categorized components of waste/trash. The general categories are paper, yard trash, construction & debris, appliances, tires, glass, metals, aluminum & steel cans, plastics, organics, inorganics, and HHW (Household Hazardous Waste). This project focuses on the factors within a region or population that contribute to variability in the composition of MSW and in turn MSW’s convertibility to biofuel. A list of contributors was determined (Social Vulnerability Index, Access to Public Transportation, Racial Distribution, GDP, Personal Income) and then JMP was used to perform a Multivariate analysis to determine correlations and a Partial Least-Squares regression to determine Variable Importance Plots for each MSW category. In addition to data analysis, the convertibility of MSW to biofuel was studied via microwave pyrolysis system in order to separate and characterize the various gaseous and bio-oil products.

09 BIOMASS FUELS↗
DOE OSTI2024

Carbon fiber classification using raman spectroscopy

Carbon fiber characterization processes are described that include multi-condition Raman spectroscopy-based examination combined with multivariate data analyses. Methods are a nondestructive material characterization approach that can provide predictions as to carbon fiber bulk physical properties, as well as identification of unknown carbon fiber materials for quality control purposes. The framework of the multivariate analysis methods includes a principal component-based identification protocol including comparison of Raman spectral data from an unknown carbon fiber with a data library of multiple principal component spaces.

Houk, Amanda L.↗
DOE OSTI2025

Using Boosted Decision Trees to Select High Quality Measurements in the Mu2e Experiment at Fermilab

This thesis presents the implementation and evaluation of a Boosted Decision Tree (BDT) model to improve the selection of high-quality track measurements in the Mu2e experiment at Fermilab. The Mu2e experiment is a high-energy physics experiments seeking to observe a rare theoretical physics process known as Charged Lepton Flavor Violation. A significant challenge faced by the Mu2e experiment are so-called background events, which are events whose data mimics that of the rare physics process the experiment seeks to observe. Without a mechanism to reduce background, it would be impossible to know whether Charged Lepton Flavor Violation occurred or not. To this end, high-quality track measurements must be distinguished from low-quality track measurements. A track can be conceived of as the reconstructed path of a particle that traveled through the Mu2e detector. In addition to other data, data about such tracks is stored using a C++-based framework, specific to the domain of high-energy physics, known as ROOT. A boosted decision tree model was trained using ROOT’s Toolkit For Multivariate Analysis by leveraging variables ancillary to track quality. In evaluation, the BDT achieves a ROC-AUC of 0.927 in discriminating good-quality tracks from poor-quality tracks. Such a score is indicative of both strong discrimination and strong generalization. Subsequently, it is shown that applying a BDT-based quality cut to the distribution of particle momenta significantly enhances the signal-to-background distinction for signal electrons, paving the way for improved sensitivity to Charged Lepton Flavor Violation.

Mullany, Brendan T. [Drew U.] (ORCID:0009000818888↗
DOE OSTI2014

Metastatic Melanoma Induced Metabolic Changes in C57BL/6J Mouse Stomach Measured by 1H NMR Spectroscopy

Melanoma is a malignant tumor of melanocytes with high capability of invasion and rapid metastasis to other organs. Malignant melanoma is the most common metastatic malignancy found in gastrointestinal tract (GI). To the best of our knowledge, previous studies of melanoma in gastrointestinal tract are all clinical case reports. In this work, 1H NMR-based metabolomics approach is used to investigate the metabolite profiles differences of stomach tissue extracts of metastatic B16-F10 melanoma in C57BL/6J mouse and search for specific metabolite biomarker candidates. Principal Component Analysis (PCA), an unsupervised multivariate data analysis method, is used to detect possible outliers, while Orthogonal Projection to Latent Structure (OPLS), a supervised multivariate data analysis method, is employed to evaluate important metabolites responsible for discriminating the control and the melanoma groups. Both PCA and OPLS results reveal that the melanoma group can be well separated from its control group. Among the 50 identified metabolites, it is found that the concentrations of 19 metabolites are statistically and significantly changed with the levels of O-phosphocholine and hypoxanthine down-regulated while the levels of isoleucine, leucine, valine, isobutyrate, threonine, cadaverine, alanine, glutamate, glutamine, methionine, citrate, asparagine, tryptophan, glycine, serine, uracil, and formate up-regulated in the melanoma group. These significantly changed metabolites are associated with multiple biological pathways and may be potential biomarkers for metastatic melanoma in stomach.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

Fractionation of Palliative Radiation Therapy for Bone Metastases in Ontario: Do Practice Guidelines Guide Practice?

Purpose: To evaluate the effect of a provincial practice guideline on the fractionation of palliative radiation therapy for bone metastases (PRT.B) in Ontario. Methods and Materials: The present retrospective study used electronic treatment records linked to Ontario's population-based cancer registry. Hierarchical multivariable regression analysis was used to evaluate temporal trends in the use of single fractions (SFs), controlling for patient-related factors associated with the use of SFs. Results: From 1984 to 2012, 43.9% of 161,835 courses of PRT.B were administered as SFs. The percentage of SF courses was greater for older patients (age <50 years, 39.8% vs age >80 years, 52.5%), those with a shorter life expectancy (survival >12 months, 36.9% vs < 1 month, 53.6%), and those who lived farther from a radiation therapy center (<10 km, 42.1% vs > 50 km, 47.3%). The percentage of SFs to spinal fields was lower than that to other skeletal sites (31.5% vs 57.1%). The percentage of SFs varied among the cancer centers (range, 26.0%-67.8%). These differences were all highly significant in the multivariable analysis (P<.0001). In 2004, Cancer Care Ontario released a practice guideline endorsing the use of SFs for uncomplicated bone metastases. The rate of use of SFs increased from 42.3% in the pre-guideline period (1999-2003) to 52.6% in the immediate post-guideline period (2004-2007). However, it subsequently decreased again to 44.0% (2009-2012). These temporal trends were significant after controlling for patient-related factors in the multivariable analysis (P<.0001). Large intercenter variations in the use of SFs persisted after publication of the guideline. Conclusions: The publication of an Ontario practice guideline endorsing the use of SF PRT.B was associated with only a transient increase in the use of SFs in Ontario and did little to reduce intercenter variations in fractionation.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2012

Dynamic piezoresponse force microscopy: Spatially resolved probing of polarization dynamics in time and voltage domains

An approach for probing dynamic phenomena during hysteresis loop measurements in piezoresponse force microscopy (PFM) is developed. Dynamic PFM (D-PFM) necessitates development of 5-dimensional (5D) data acquisition protocols and associated methods for analysis and visualization of multidimensional data. Using a combination of multivariate statistical analysis and phenomenological fitting, we explore dynamic behavior during polarization switching in model ferroelectric films with dense ferroelastic domain structures and in ferroelectric capacitors. In polydomain films, multivariate analysis of the switching data suggests that ferroelectric and ferroelastic components can be decoupled and time dynamics can be explored. In capacitors, a strong correlation between polarization dynamics and microstructure is observed. The future potential of D-PFM for probing time-dependent hysteretic phenomena in ferroelectrics and ionic systems is discussed.

Dynamic piezoresponse force microscopy↗
DOE OSTI2014

Breast Cancer Laterality Does Not Influence Survival in a Large Modern Cohort: Implications for Radiation-Related Cardiac Mortality

Objectives: Radiation therapy for left-sided breast cancer has been associated with an elevated risk of cardiac mortality, based on studies predating treatment planning based on computed tomography. This study assessed the impact of tumor laterality on overall survival (OS) in a large cohort treated with modern techniques, to indirectly determine whether left-sided treatment remains associated with increased cardiac mortality. Methods and Materials: Patients treated for breast cancer with breast conserving surgery and adjuvant external beam radiation therapy were identified in the National Cancer Database, and OS was compared based on tumor laterality using Kaplan-Meier analysis. Separate analyses were performed for noninvasive and invasive carcinoma and for breast-only and breast plus regional nodal radiation therapy. Multivariate regression analysis of OS was performed with demographic, pathologic, and treatment variables as covariates to adjust for factors associated with breast cancer–specific survival. Results: We identified 344,831 patients whose cancer was diagnosed from 1998 to 2006 with a median follow-up time of 6.04 years (range, 0-14.17 years). Clinical, tumor, and treatment characteristics were similar between laterality groups. Regional nodal radiation was used in 14.2% of invasive cancers. No OS difference was noted based on tumor laterality for patients treated with breast-only (hazard ratio [HR] 0.984, P=.132) and breast plus regional nodal radiation therapy (HR 1.001, P=.957). In multivariate analysis including potential confounders, OS was identical between left and right sided cancers (HR 1.002, P=.874). No significant OS difference by laterality was observed when analyses were restricted to patients with at least 10 years of follow-up (n=27,725), both in patients treated with breast-only (HR 0.955, P=.368) and breast plus regional nodal radiation therapy (HR 0.859, P=.155). Conclusions: Radiation therapy for left-sided breast cancer does not appear to increase the risk of death in this national database relative to right-sided tumors. Consequently, radiation therapy–induced cardiac disease may be less prominent than previously demonstrated.

62 RADIOLOGY AND NUCLEAR MEDICINE↗