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At least 19 records

Preface for the special collection commemorating the career of Pat Thiel

This Special Collection in the Journal of Vacuum Science and Technology A (JVST A) has been compiled to commemorate the career of Professor Patricia (Pat) Thiel as a scientific leader in the international surface science community. Pat passed away in September 2020 due to breast cancer. This Collection includes 26 articles from colleagues, collaborators, and former Thiel group members. The topics overlap Pat’s scientific interests and advances in areas that include chemisorption, reconstruction, and complex formation on metal surfaces; submonolayer nucleation and growth and kinetic roughening of epitaxial thin films; coarsening of surface nanostructures; intercalation; surface phenomena for intermetallics including quasicrystals; and atomic-scale friction. We wish to thank the authors for their contributions towards producing this impressive Special Collection.

99 GENERAL AND MISCELLANEOUS↗

Procurement Analysis Tool (PAT) Informational Webinar

This is a slide deck for the public PAT Informational Webinar scheduled for July 22, 2025. This the first webinar for PAT after the new tool was launched on nrel.gov on June 16, 2025.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Procurement Analysis Tool (PAT) Informational Webinar for Clean Energy States Alliance

This is a slide deck for the Procurement Analysis Tool and the deck published in August 2025. This webinar is a part of the PAT roadshow and we are presenting it in different forums and to different audience. https://research-hub.nrel.gov/en/publications/procurement-analysis-tool-pat-informational-webinar

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Procurement Analysis Tool (PAT)

This a poster on PAT for the CESA National Energy Summit for States: Navigating Energy Trends and Federal Programs Conference.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Pressure-assisted thermal sterilization of avocado puree in high barrier polymeric packaging

The aim of this study was to examine the influence of pressure-assisted thermal sterilization (PATS) on properties of polymeric packaging and packaged avocado puree. High pressure of 600 MPa and initial vessel temperature of 90 °C were used over 5 min processing time. We used two high barrier film pouches: Film A-(PE/PA6//EVOH//PA6/PE) and film B-(AlO x -coated PET//AlO x -coated PET//PA//CPP). Oxygen transmission rates (OTR) changed from 0.16 ± 0.07 to 3.24 ± 0.52 cm 3 /m 2 .day for film A after processing while OTRs were not detected for film B. Water vapor transmission rates (WVTR) changed from 3.72 ± 0.06 to 4.97 ± 0.14 g/m 2 .day for film A and 0.11 ± 0.02 to 0.62 ± 0.0.6 g/m 2 .day for film B. The dissolved oxygen in packaged avocado puree reduced from 21% to 3% after PATS for both films. Reduced oxygen level in packaged avocado may help extend its shelf life. Dielectric properties and X-ray diffraction helped explain PATS induced changes in film barrier properties. The total chlorophyll, greenness, and lightness decreased significantly (p < 0.05) after PATS. The thiobarbituric acid activity reduced after PATS. PATS showed potential to produced shelf-stable avocado puree; however, shelf-life studies are needed to further develop PATS process.

42 ENGINEERING↗

Automated instant labeling chemistry workflow for real-time monitoring of monoclonal antibody N -glycosylation

With the transition toward continuous bioprocessing, process analytical technology (PAT) is becoming necessary for rapid and reliable in-process monitoring during biotherapeutics manufacturing. Bioprocess 4.0 is looking to build end-to-end bioprocesses that include PAT-enabled real-time process control. This is especially important for drug product quality attributes that can change during bioprocessing, such as protein N-glycosylation, a critical quality attribute for most monoclonal antibody (mAb) therapeutics. Glycosylation of mAbs is known to influence their efficacy as therapeutics and is regulated for a majority of mAb products on the market today. Currently, there is no method to truly measure N-glycosylation using on-line PAT, hence making it impractical to design upstream process control strategies. We recently described the N-GLYcanyzer workflow: an integrated PAT unit that measures mAb N-glycosylation within 3 hours of automated sampling from a bioreactor. Here, we integrated Agilent's Instant Procainamide (InstantPC) based chemistry workflow into the N-GLYcanyzer PAT unit to allow for nearly 10× faster near real-time analysis of mAb glycoforms. Furthermore, our methodology is explained in detail to allow for replication of the PAT workflow as well as present a case study demonstrating the use of this PAT to autonomously monitor a mammalian cell perfusion process at the bench scale to gain increased knowledge of mAb glycosylation dynamics during continuous biologics manufacturing using Chinese hamster ovary (CHO) cells.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

URBANopt™ District Energy Systems HVAC Measures (DES_HVAC) [SWR-21-30]

DES_HVAC is a repository of a Parametric Analysis Tool (PAT) project and for scripts related to modeling of different HVAC systems for buildings in a district served by a district thermal energy system. The Measures directory contains the new measures developed to extract data from the simulations. Update these measures and not the measures in the Test Suite measures directory. PAT should be used to update the measures in the Test Suite project. The Test directory contains a PAT project for testing the functionality of the measures. The PAT project is named HVAC_Test and can be opened in PAT > 3.x.

Allen, Amy↗

Modeling Sepsis: Establishment and Validation of a 72-Hour Swine Model of Penetrating Abdominal Trauma

Background/Objectives: Fecal peritonitis following penetrating abdominal trauma is a serious condition that often results in sepsis and organ failure. The aim of our study was to develop a novel conscious porcine model of sepsis and organ dysfunction caused by multiple penetrating injuries to the small and large intestines. Methods: Twelve female Yorkshire pigs (average weight 50.6 ± 6.5 kg) were divided into two groups: Penetrating Abdominal Trauma (PAT) (n = 8) and Control (n = 4). All surgical procedures were performed under anesthesia with adequate analgesia. In the PAT group, the small and large intestines were punctured, and feces mixed with saline were introduced into the abdominal cavity to induce peritonitis. The Control group received sham surgery with only saline solution. The animals were observed in a conscious state over a period of 72 h, vital parameters were recorded, and blood samples were taken regularly. We adapted a pig-specific SOFA score and developed pig-specific SIRS criteria and NEWS2 score to assess organ function. The model was validated by independent investigators. Results: The survival rate in the PAT group was 75%, with an average survival time of 58.5 h, while all animals in the Control group survived to euthanasia. Monitoring showed pathophysiological changes, such as tachycardia, leucopenia, and thrombocytopenia, indicative of sepsis and organ dysfunction. Blinded investigators independently confirmed the model’s validity. Conclusions: A new swine model of penetrating abdominal trauma and sepsis has been successfully developed that demonstrates significant physiological and immunologic changes comparable to human sepsis. This new model provides a realistic platform for future research into sepsis, its diagnostics, and the evaluation of therapeutic strategies.

General & Internal Medicine↗

ResStock™ v3.2.0 [SWR-19-15 and SWR-20-07]

The ResStock™ analysis tool was built on NREL's OpenStudio® platform, and is a project geared at modeling existing residential building stocks at national, regional, or local scales with a high-degree of granularity (e.g., one physics-based simulation model for every 200 dwelling units), using the EnergyPlus® simulation engine. Information about ComStock™, a sister tool for modeling the commercial building stock, can be found here: https://www.nrel.gov/buildings/comstock.html This repository contains: Housing characteristics of the U.S. residential building stock, in the form of conditional probability distributions stored as tab-separated value (.tsv) files. Comments at the bottom of each file document data sources and assumptions for each. A library of housing characteristic "options" that translate high-level characteristic parameters into arguments for OpenStudio measures, and which are referenced by the housing characteristic .tsv files and building energy upgrades defined in project definition files Project definition files: v2.3.0 and later: buildstockbatch YML files openable in any text editor v2.2.5 and prior: Project folder openable in PAT Unit-level OpenStudio Measures for automatically constructing OpenStudio Models of each representative dwelling unit model: v3.0.0 and later: OpenStudio-HPXML Measures v2.5.0 and prior: OpenStudio Measures Higher-level OpenStudio Measures for controlling simulation inputs and outputs This repository does not contain software for running ResStock simulations, which can be found as follows: Versions 2.3.0 and later only support the use of buildstockbatch for deploying simulations on high-performance or cloud computing. Version 2.3.0 also removed separate projects for single-family detached and multifamily buildings, in lieu of a combined project_national representing the U.S. residential building stock. See the changelog for more details. Versions 2.2.5 and prior support the use of the publicly available OpenStudio-PAT software as an interface for deploying simulations on cloud computing. Read the documentation for v2.2.5.

Horowitz, Scott↗

Evaluating Utility Costs Savings and Resilience: A Case Study in Port Arthur, Texas

This study evaluates the techno-economic feasibility of integrating solar photovoltaics (PV), battery energy storage systems (BESS), and generators to enhance both cost savings and resilience in critical community facilities in Port Arthur, Texas. Using NREL's REopt model, we analyze four facilities: the Golden Triangle Empowerment Center (GTEC), Lamar State College (LSC), Port Arthur Independent School District (PAISD), and Port Arthur Transit (PAT). A key aspect of the analysis is the incorporation of the Value of Lost Load (VoLL) and microgrid upgrade costs to assess the hidden value of resilience during grid outages. While standalone PV scenarios show moderate cost reductions and a 10-15% decrease in CO2 emissions, the inclusion of resilience measures with BESS and generators significantly increases system costs. However, the hidden value of resilience - quantified through avoided outage costs - leads to a substantial improvement in financial outcomes, resulting in positive Net Present Value (NPV) at many sites. The study demonstrates that resilient solar and storage systems offer both economic and resilience benefits, particularly for underserved communities, by balancing energy savings and enhanced operational continuity during outages.

14 SOLAR ENERGY↗

Temporal Galactose‐Manganese Feeding in Fed‐Batch and Perfusion Bioreactors Modulates UDP‐Galactose Pools for Enhanced mAb Glycosylation Homogeneity

ABSTRACT Monoclonal antibodies (mAbs) represent a majority of biotherapeutics in the market today. These glycoproteins undergo posttranslational modifications, such as N‐linked glycosylation, that influence the structural & functional characteristics of the antibody. Glycosylation is a heterogenous posttranslational modification that may influence therapeutic glycoprotein stability and clinical efficacy, which is why it is often considered a critical quality attribute (CQA) of the mAb product. While much is known about the glycosylation pathways of Chinese Hamster Ovary (CHO) cells and how cell culture chemical modifiers may influence the N‐glycosylation profile of the final product, this knowledge is often based on the final cumulative glycan profile at the end of the batch process. Building a temporal understanding of N‐glycosylation and how mAb glycoform composition responds to real‐time changes in the biomanufacturing process will help build integrated process models that may allow for glycosylation control to produce a more homogenous product. Here, we look at the effect of specific nutrient feed media additives (e.g., galactose, manganese) and feeding times on the N‐glycosylation pathway to modulate N‐glycosylation of a Herceptin biosimilar mAb (i.e., Trastuzumab). We deploy the N‐GLYcanyzer process analytical technology (PAT) to monitor glycoforms in near real‐time for bench‐scale bioprocesses operated in both fed‐batch and perfusion modes to build an understanding of how temporal changes in mAb N‐glycosylation are dependent on specific media additives. We find that Trastuzumab terminal galactosylation is sensitive to media feeding times and intracellular nucleotide sugar pools. Temporal analysis reveals an increased desirable production of single and double galactose‐occupied glycoforms over time under glucose‐starved fed‐batch cultures. Comparable galactosylation profiles were also observed between fed‐batch (nutrient‐limited) and perfusion (non‐nutrient‐limited) bioprocess conditions. In summary, our results demonstrate the utility of real‐time monitoring of mAb glycoforms and feeding critical cell culture nutrients under fed‐batch and perfusion bioprocessing conditions to produce higher‐quality biologics.

Biotechnology & Applied Microbiology↗

Selective Enrichment Coupled with Proteomics to Identify S-Acylated Plasma Membrane Proteins in Arabidopsis

Protein S-acylation, predominately in the form of palmitoylation, is a reversible lipid post-translational modification (PTM) on cysteines that plays important roles in protein localization, trafficking, activity, and complex assembly. The functions and regulatory mechanisms of Sacylation have been extensively studied in mammals, owing to remarkable development of the high-resolution proteomics and the discovery of the S-acylation-related enzymes. However, the advance of S-acylation studies in plants lags farther behind than that in mammals, mainly due to the lack of knowledge about proteins responsible for this process, such as protein acyltransferases (PATs) and their substrates. In this article, a systematic protocol to study global S-acylation in Arabidopsis seedlings is described. The procedures are presented in detail, including preparation of Arabidopsis seedlings, enrichment of plasma membrane (PM) proteins, followed by enrichment of S-acylated proteins/peptides based on the acyl-biotin exchange (ABE) method, and large-scale identification of S-acylated proteins/peptides via mass spectrometry. This approach enables researchers to study S-acylation of PM proteins in plants in a systematic and straightforward way. Basic protocol 1: Preparation of Arabidopsis seedling materials Basic protocol 2: Isolation and enrichment of plasma membrane proteins Support protocol 1: Determination of protein concentration using BCA assay Basic Protocol 3: Enrichment of S-acylated proteins by ABE method Support protocol 2: Protein precipitation by methanol/chloroform method Basic Protocol 4: Trypsin digestion and proteomic analysis Alternate protocol 1: Pre-resin digestion and peptide level enrichment.

S-acylation, palmitoylation, plasma membrane prote↗

A streamlined approach to characterize microalgae strains for biomass productivity under dynamic climate simulation conditions

Screening microalgae strains under static light and temperature flask conditions cannot directly quantify the biomass productivities of algae growing in the dynamically fluctuating light and temperature conditions of outdoor ponds. In this effort, we describe a testing pipeline that screens for productivity under climate simulated conditions. A validated, miniaturized Laboratory Environmental Algae Pond Simulator (mini-LEAPS) photobioreactor was used to determine optimal medium salinities and biomass productivities of cold-tolerant microalgae collected from Arctic, subarctic, Antarctic, and subalpine habitats. Strains characterized in this effort include: Chlorella antarctica UTEX1959, Chlorella sp. UTEXSNO69, Chloromonas rosae UTEXSNO11, Phaeodactylum tricornutum UTEX646, and Stichococcus minutus CCALA727. Observed productivities of the characterized strains ranged from 1.74 ± 0.25 to 8.18 ± 0.81 g m –2 day –1 (as ash-free dry weight). For each strain, a temperature tolerance profile was generated to identify the most appropriate season (s) for cultivation. The two most promising strains, Chlorella sp. UTEX SNO69 and P. tricornutum UTEX646, were tested alongside the DISCOVR winter benchmark strain Monoraphidium minutum 26B-AM in outdoor open ponds at the PNNL Algae Testbed (PAT) in Arizona. Further, under cold-season outdoor pond conditions, Chlorella sp. UTEXSNO69 achieved average areal biomass productivities of 8.21 ± 0.50 g m –2 day –1 , not significantly different from that of the benchmark strain (8.52 ± 0.43 g m –2 day –1 , p > 0.05). Under spring outdoor pond conditions, P. tricornutum UTEX646 achieved average areal biomass productivities 10.34 ± 0.27 g m –2 day –1 , not significantly different from that of the benchmark (10.07 ± 0.50 g m –2 day –1 ) under the tested conditions (p > 0.05). The streamlined pipeline was thus demonstrated to successfully characterize productive microalgae strains for outdoor deployment by weeding out algae strains that were not productive under the tested dynamic light and temperature conditions.

59 BASIC BIOLOGICAL SCIENCES↗

P–P Coupling with and without Terminal Metal–Phosphorus Intermediates

Terminal metal–phosphorus (M–P) complexes are of significant contemporary interest as potential platforms for P-atom transfer (PAT) chemistry. Decarbonylation of metal–phosphaethynolate (M–PCO) complexes has emerged as a general synthetic approach to terminal M–P complexes. M–P complexes that are stabilized by strong M–P multiple bonds are kinetically persistent and isolable. In the absence of strong M–P stabilization, the formation of diphosphorus-bridged complexes (i.e., M–P–P–M species) is often interpreted as evidence for the intermediacy of reactive, unobserved M–P species. Here, we demonstrate that while diphosphorus complexes can arise from reactive M–P species, P–P coupling can also proceed directly from M–PCO species without the intermediacy of M–P complexes. Photochemical decarbonylations of a pincer-supported Ni (II)–PCO complex at 77 K afford a spectroscopically observed terminal Ni–P complex, which is best described as a triplet, Ni(II)-metallophosphinidene with two unpaired electrons localized on the atomic phosphorus ligand. Thermal annealing of this transient Ni–P complex results in rapid dimerization to afford the corresponding P 2 2– -bridged dinickel complex. Unexpectedly, the same P 2 2– -bridged dinickel complex can also be accessed via a thermally promoted process in the absence of light. The analysis of reaction kinetics, isotope-labeling studies, and computational results indicate that the thermal P–P coupling process proceeds via a noncanonical mechanism that avoids terminal M–P intermediates. Together, these results represent the first observation of P–P coupling from characterized terminal M–P species and demonstrate that terminal M–P intermediates are not required to obtain P–P coupling products. These observations provide critical mechanistic understanding of the activation modes relevant to P-atom transfer.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Development of a continuous synthesis process for carbamazepine using validated in-line Raman spectroscopy and kinetic modelling for disturbance simulation

Mitigation of failure modes in the continuous synthesis (CS) of a drug substance (DS) has the potential to widen the adoption of continuous manufacturing (CM) technologies by the pharmaceutical industry. Here, this work demonstrates the development of a robust continuous process for the synthesis of carbamazepine (CBZ), an essential medicine as per the World Health Organization (WHO), facilitated by kinetic modelling and monitored by in-line Raman spectroscopy. Accurate kinetic modelling and the use of validated process analytical technology (PAT) models for quantitative measurement were found to play an important role in developing CS of drug substances. Kinetic data for the formation of CBZ from iminostilbene (ISB) were collected by batch reaction sampling and high-performance liquid chromatography (HPLC) analysis. A non-linear solver and iterative method was applied to determine two sets of Arrhenius parameters simultaneously for the reaction system by minimizing the standard error of the model fit. The start-up and dynamic equilibrium stages for the CS of CBZ using a continuous stirred tank reactor (CSTR) were modelled based on the batch kinetic data and employed to optimize conversion and simulate process disturbances. An in-line Raman spectroscopy method was successfully developed, validated, and integrated to determine the concentrations of CBZ and ISB within the operating range for the CS. The CS kinetic model was evaluated experimentally from startup to dynamic equilibrium over 10 residence times with monitoring by HPLC and in-line Raman spectroscopy. The developed kinetic model in tandem with in-line Raman spectroscopy successfully predicted disturbances due to changes in process variables and can serve as a useful tool in the future design of advanced process control strategies for the continuous synthesis of CBZ.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Quantifying the Impact of Advanced Web Platforms on High Performance Computing Usage

The deployment of Science Gateways for High Performance Computing (HPC) systems can alter long-accepted usage patterns on supercomputing systems in positive ways as an ever-increasing number of users migrate their workflows to HPC systems. Idaho National Laboratory (INL) has deployed two separate advanced web platforms, Open OnDemand and NICE DCV, for integration with HPC resources to improve web accessibility for HPC users. Researchers conducted a multi-year study on how HPC usage pat- terns changed in the presence of these platforms. This work reports the results of that study and quantifies the observed impacts, including adoption by visualization and Jupyter Notebook/Lab users, decreased job submission friction, rapid uptake of HPC by Windows users, and increased overall system utilization. The most significant impacts were observed from the deployment of Open OnDemand, and this work also identifies some best practices for Open OnDemand deployment for HPC datacenters.

97 MATHEMATICS AND COMPUTING↗

MSD CoP Webinar: Using Meta-Repositories To Facilitate Open Science in MSD Research

Context: This webinar was hosted by the MultiSector Dynamics Community of Practice (MSD CoP; https://multisectordynamics.org). Abstract: In this webinar, we will describe the use of a GitHub meta-repository, for documenting and disseminating the tools and data supporting MSD publications. The goal is to make it easier for others to understand the flow of data and code through your experiment and to be able to reproduce your results and figures with only the information you have provided for them. The webinar will cover the role of open science in the MSD community, the origins and purpose of meta-repositories, and step-by-step instructions and best practices for building a meta-repository starting from the GitHub template (https://github.com/IMMM-SFA/metarepo). We will also discuss how to leverage MSD-LIVE (https://msdlive.org/) in your meta-repository, provide links to numerous examples you can learn from, and discuss the role of meta-repositories in the IM3 project's open science mandates. Presenters : Chris R. Vernon, Casey D. Burleyson, Jennie Rice, and Mengqi Zhao Moderator: Pat M. Reed (MSD CoP Facilitation Team) This webinar was held on: February 22nd, 2024 from 2-3 PM ET

Open Science↗

MSD CoP Webinar: Confronting Climate Change Complexity: Intersectionality, Integration, and Innovative Governance

Context: This webinar was hosted by the MultiSector Dynamics Community of Practice (MSD CoP; https://multisectordynamics.org). Abstract: Climate impacts increasingly unfold in interlinked systems of people, nature, and infrastructure. The cascading consequences are revealing sometimes surprising connections, and prospects for climate responses also depend on complex interactions. In this presentation, we will introduce key findings from the United States Fifth National Climate Assessment and build upon them to suggest a framework for understanding and responding to complex climate challenges. This approach involves: (1) integration of disciplines and expertise to understand how intersectionality shapes complex climate impacts and the wide-ranging effects of climate responses, (2) collaborations among diverse knowledge holders to improve responses and better encompass intersectionality, and (3) sustained experimentation with and learning about governance approaches capable of handling the complexity of climate change. We outline actionable steps for climate research to incorporate these pillars, as is increasingly necessary for confronting climate complexity and sustaining equitable, ideally vibrant climate futures. Presenters : Katharine J. Mach, Kripa Jagannathan, Carlos E. Martín, and Linda Shi Moderator: Pat M. Reed (MSD CoP Facilitation Team) This webinar was held on: March 28th, 2024 from 1-2 PM ET

Mach, Katharine J.↗