gebhart/patrepeval huggingface dataset:
Effect of nanorope waviness on the effective moduli of nanotube sheets (2004)

Using a micromechanics approach, we recently investigated the theoretical limits on achievable moduli in nanotube mats by stiffening of bonds. However, the waviness intrinsic to many manufacturing processes also clearly plays an important role in stiffness of these materials. To study the effect of waviness on mechanical properties, we modeled fiber segments as sinusoids, generated networks comprised of these fibers, and performed simulations of deformations of the networks. In contradiction of classical work by Kallmes and Corte [Tappi J. 43, 737 (1960)], we found the number of fiber crossings in these networks to be independent of fiber waviness, leading to identification of the number of fiber crossings as a necessary and sufficient parameter to specify network geometry, for either wavy or straight fibers. Our mechanical modeling results suggest that reducing the waviness of nanotube ropes would significantly improve Young’s moduli in these materials. However, reduction of waviness would not produce the improvements achievable with higher bond density; for random sheets, assuring connections among all intersecting ropes appears to be the most direct route toward improving the overall sheet properties. There remains a persistent discrepancy between statistically predicted bond densities and physical bond densities, based on moduli of these materials.
Fatty acid biosynthesis is involved in solvent tolerance in Pseudomonas putida DOT‐T1E (2004)

The unusual tolerance of Pseudomonas putida DOT-T1E to toluene is based on the extrusion of this solvent by constitutive and inducible efflux pumps and rigidification of its membranes via phospholipid alterations. Pseudomonas putida DOT-T1E-109 is a solvent-sensitive mutant. Mutant cells were less efficient in solvent extrusion than the wild-type cells, as shown by the limited efflux of 14C-1,2,4-trichlorobenzene from the cell membranes, despite the fact that the efflux pumps are overexpressed as a result of increased expression of the ttgDEF and ttgGHI efflux pump operons. This limitation could be the result of alterations in the outer membrane because the mutant cells released more beta-lactamase to the external medium than the wild-type cells. The mutant P. putida DOT-T1E-109 showed negligible synthesis of fatty acids in the presence of sublethal concentrations of toluene as revealed by analysis of 13CH3-13COOH incorporation into fatty acids. In contrast, the mutant strain in the absence of solvents, and the wild-type strain, both in the presence and in the absence of toluene, incorporated 13CH3-13COOH at a high rate into de novo synthesized lipids. The mutation in P. putida DOT-T1E-109 increases sensitivity to the solvent because of a limited efflux of the solvent from the cell membranes with the concomitant inhibition of fatty acid biosynthesis.
Synthesis Strategy for Protected Metal Nanoparticles (2012)

A method for synthesizing metal nanoparticle catalysts with a structured environment using atomic layer deposition (ALD) has been developed. The method involves growing uniform, dispersed Pd nanoparticles, protecting the particles with a blocking agent, growing a metal oxide structure around the nanoparticle using ALD, and removing the blocking agent. Using CO adsorption and diffuse reflectance infrared Fourier transform spectroscopy, possible blocking agents for metal nanoparticles have been evaluated based on the ability of CO to adsorb to the blocking agent–Pd nanoparticle complex. Ethylenediamine and decanethiol were found to be effective blocking agents, while acetonitrile, 1-(3-mercapto)propyl-3,5,7,9,11,13,15-isobutylpentacyclo[9.5.1.13,9.15,15.17,13]octasiloxane, and hexafluoroacetylacetonate were less effective. Octadecanethiol was proven to be effective in protecting Pd nanoparticles during Al2O3 ALD.
A graph cut method for linear inverse problems (2011)

In this paper we propose a graph cut method for solving a multi-label linear inverse problem with an arbitrary system matrix. Graph cuts are efficient methods for solving pixel-labeling and early vision problems. Energy function minimization problems that occur in image denoising are easily solved by graph cut techniques. However, applying graph cuts to inverse problems which have a non-diagonal system matrix becomes challenging, as a data cost of one pixel depends on intensities of other pixels. Such cost functions are not graph representable. In this paper, we propose an iterative method for minimization of energy functions occurring in inverse problems, where a graph-representable Taylor approximation of the original cost function is rapidly solved via a graph cut method at each iteration.
Sequential tumor and dual immune targeted immunotherapy: anti-lymphoma activity of Rituximab with 4-1bb stimulation and PD-1 blockade (2014)

Meeting abstracts To select maximally-efficacious, minimally-toxic regimens of combination tumor- and immune-targeted therapy, preclinical testing in immune-competent models is required. We previously demonstrated 4-1bb(CD137) stimulation augmented the innate immune response mediated by CD137+
Integrating On-chain and Off-chain Governance for Supply Chain\n Transparency and Integrity (2021)

Integrating on-chain and off-chain data storage for decentralised and\ndistributed information systems, such as blockchain, presents specific\nchallenges for providing transparency of data governance and ensuring data\nintegrity through stakeholder engagement. Current research on blockchain-based\nsupply chains focuses on using on-chain governance rules developed for\ncryptocurrency blockchains to store some critical data points without designing\ntailored on-chain governance mechanisms and disclosing off-chain\ndecision-making processes on data governance. In response to this research gap,\nthis paper presents an integrated data governance framework that coordinates\nsupply chain stakeholders with inter-linked on-chain and off-chain governance\nto disclose on-chain and off-chain rules and decision-making processes for\nsupply chain transparency and integrity. We present a Proof-of-Concept (PoC) of\nour integrated data governance approach and suggest future research to\nstrengthen scaling up and supply chain-based use cases based on our learnings.\n
Health-related quality of life (HRQL) in patients with advanced cutaneous squamous cell carcinoma (CSCC) treated with cemiplimab: Post hoc exploratory analyses of a phase II clinical trial. (2020)

10033 Background: Cemiplimab-rwlc (cemiplimab), a PD-1 Inhibitor, showed a robust clinical response in patients (pts) with metastatic (mCSCC) or locally advanced (laCSCC) CSCC not eligible for curative surgery/radiation. This post hoc exploratory analysis examined data from the EORTC cancer specific 30-item HRQL questionnaire (QLQ-C30) for pts participating in a cemiplimab phase 2 clinical trial (clinicaltrials.gov NCT02760498). Methods: Adults (N = 193) with invasive CSCC, ≥1 lesion and ECOG performance status ≤1 received IV cemiplimab 3mg/kg q2w (mCSCC n = 59; laCSCC n = 78) or 350mg q3w (mCSCC n = 56). At baseline (BL) and day 1 of each treatment cycle, pts were administered the QLQ-C30. Mixed effects repeated measures (MMRM) models were used to estimate mean change from BL to cycle 5 (C5) for domains/items of the QLQ-C30. For pts with data from BL to C5, the proportion who reported clinically meaningful improvement or worsening (≥10 points) or maintenance (those who did not have ≥10 point change) on each domain was determined for combined and individual treatment groups. Results: BL scores indicated moderate to high levels of functioning and low symptom burden. From BL to C5, a clinically meaningful improvement in pain score was observed (least squares [LS] mean [standard error] change -12.1 [2.1]; P&lt; .0001); other domains/items remained stable or showed a trend towards improvement (LS mean changes &lt; 10 points). By C5, the majority of pts experienced clinically meaningful improvement or remained stable across key domains (Table). Similar findings were observed on individual symptoms (85%-94% for dyspnea, nausea/vomiting, diarrhea, constipation, appetite loss) and in each treatment group. Conclusions: Cemiplimab-treated patients achieved a clinically meaningful reduction in pain and most pts either improved or maintained their HRQL, function with low symptom burden. Clinical trial information: NCT02760498. [Table: see text]
Determination of Elbow Flexion-Extension Axis Based on Planar and Closed B-Splines (2013)

Accurate determination of the flexion-extension axis of the elbow affects the outcome of implant replacement.The current study proposes an automated approach capable of determining the FE axis based on a stack of axial computer tomographic (CT) imaging slices of the distal humerus.The core of the algorithm consists of an original technique employing control polygon deformation used to approximate the segmented outer cortical bone points with closed B-Splines, followed by curvaturebased and least squares fitting methods for determination of the two relevant geometric centers.The new approach was validated against a conventional voxelbased FE axis determination procedure involving marching cubes algorithm.
Comparison of transformation protocols in Streptococcus gordonii and evaluation of native promoter strength using a multiple-copy plasmid (2007)

An active area of research in the development of Streptococcus gordonii for use as a bacterial commensal vector involves the identification and utilization of strong promoters for high-level expression of heterologous products. Escherichia coli plasmid vectors containing different streptococcal promoters often fail to become established in E. coli for unknown reasons. Therefore, it is desirable at times to transform S. gordonii, which is naturally competent, with small quantities of nascently ligated DNA without using E. coli first to amplify or screen the product. By comparing the efficiency of two methods used to induce competence in S. gordonii, it was shown that the use of a synthetic competence stimulating peptide substantially enhanced plasmid uptake by S. gordonii. We amplified the amylase-binding protein (abpA) promoter from the S. gordonii genome and, using a synthetic peptide to induce competence, directly introduced plasmid DNA containing this promoter into S. gordonii as an unamplified product of ligation. This plasmid facilitated abundant secretion of a heterologous product by S. gordonii. By assessing the levels of heterologous product secreted by two plasmid constructs, it was possible to evaluate the relative strength of two native promoters.
Ferroelectric Liquid Crystalline Ordering of Rigid Rods with Dipolar Interactions (1994)

Abstract A mean-field model for the ferroelectric ordering of hard sphero-cylinders with dipolar interaction is developed within the Onsager formalism. By performing accurate numerical analyses, a complete phase diagram is obtained in terms of the dipolar strength, the number density, and the pressure of the spherocylinders, which exhibits a usual isotropic-nematic, a nematic-ferroelectric nematic, and a direct isotropic-ferroelectric nematic phase transitions. These results are in reasonable agreement with the recent computer simulations. It is also found that there exists always a direct isotropic-ferroelectric nematic phase transition above a critical dipolar strength.
Analytical Modeling of a Bubble Column Dehumidifier (2013)

Bubble column dehumidifiers are a compact, inexpensive alternative to conventional fin-tube dehumidifiers for humidification-dehumidification (HDH) desalination, a technology that has promising applications in small-scale desalination and industrial water remediation. In this paper, algebraic equations for relevant mean heat and mass transfer driving forces are developed for improved modeling of bubble column dehumidifiers. Because mixing in the column ensures a uniform liquid temperature, the bubble column can be modeled as two single stream heat exchangers in contact with the column liquid: the seawater side, for which a log-mean temperature difference is appropriate, and the gas side, which has a varying heat capacity and mass exchange. Under typical conditions, a log-mean mass fraction difference is shown to drive latent heat transfer, and an expression for the mean temperature difference of the moist gas stream is presented. These expressions will facilitate modeling of bubble column heat and mass exchangers.
Thermal design of power GaN FETs in microstrip and coplanar MMICs (2005)

The paper presents a discussion on the thermal design of integrated power GaN devices. After a short out line of some critical thermal modelling issues, design guidelines are proposed on the basis of thermal simulations; the results presented suggest that for room temperature applications SiC substrate thinning (thus implying a microstrip process)is not mandatory from a thermal standpoint. This would open the possibility for coplanar GaN MMICs, already exploited for low-noise amplifiers, also in power circuits.
Coupling Model Interpretation of Thermorheological Complexity in Polybutadienes with Varied Microstructure (2004)

Small-amplitude oscillatory shear rheology was used to investigate relaxation dynamics for two linear polybutadienes with low-vinyl (7% 1,2-addition; PBd-L) and high-vinyl (94% 1,2-addition; PBd-H) microstructures. The Mw values were equal to 38.7 and 80.1 kg/mol for PBd-L and PBd-H, respectively, and both polymers were near-monodisperse (Mw/Mn < 1.05). These molecular weights were selected in order to keep the number of entanglements per chain, and hence the plateau length, fairly equivalent for these two polymers. Well-defined terminal flow and segmental relaxation (α-relaxation) loss modulus peaks in the isothermal linear viscoelastic data were used to determine relaxation times, thus the necessity of time−temperature superposition was avoided. These results are interpreted in the context of the Ngai coupling model (CM). We apply the model to both relaxation processes in a unified approach by adopting the CM framework which contends that the primitive relaxation which underlies the cooperative α-relaxation process also directly controls the temperature dependence of the monomeric friction coefficient for the Rouse relaxation, which, in turn, is the primitive process for entangled terminal flow. Thermorheological complexity is a direct consequence of the model, and the viscoelastic data support this prediction for both PBd-L and PBd-H. The common discrepancy between the Vogel temperature evaluated from the temperature dependence of terminal flow and its α-relaxation counterpart is explained and resolved using this coupling model approach.
Editorial Welcome to the IEEE Open Journal of the Solid-State Circuits Society (OJ-SSCS) (2021)

Dear Readers, The editorial board is pleased to welcome you to the IEEE Open Journal of the Solid-State Circuits Society (OJ-SSCS). Our first papers will soon be available online via the IEEEXplore <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">®</sup> platform.
Decreased leftward ‘aiming’ motor-intentional spatial cuing in traumatic brain injury. (2016)

TBI may cause frontal-subcortical cognitive dysfunction and asymmetric motor perseveration, affecting spatial Aiming bias on line bisection. Potential effects on real-world function need further investigation. (PsycINFO Database Record
ChemInform Abstract: An Efficient Oxa‐Michael Addition to Diethyl Vinylphosphonate under Mild Reaction Conditions. (2012)

Abstract Vinylphosphonate (II) is added to secondary and sterically hindered primary alcohols under optimized conditions to give the corresponding 2‐(alkoxy)ethylphosphonates, including biologically active compounds.
Designing manufacturable filters for a 16-band plenoptic camera using differential evolution (2017)

A 16-band plenoptic camera allows for the rapid exchange of filter sets via a 4x4 filter array on the lens's front aperture. This ability to change out filters allows for an operator to quickly adapt to different locales or threat intelligence. Typically, such a system incorporates a default set of 16 equally spaced at-topped filters. Knowing the operating theater or the likely targets of interest it becomes advantageous to tune the filters. We propose using a modified beta distribution to parameterize the different possible filters and differential evolution (DE) to search over the space of possible filter designs. The modified beta distribution allows us to jointly optimize the width, taper and wavelength center of each single- or multi-pass filter in the set over a number of evolutionary steps. Further, by constraining the function parameters we can develop solutions which are not just theoretical but manufacturable. We examine two independent tasks: general spectral sensing and target detection. In the general spectral sensing task we utilize the theory of compressive sensing (CS) and find filters that generate codings which minimize the CS reconstruction error based on a fixed spectral dictionary of endmembers. For the target detection task and a set of known targets, we train the filters to optimize the separation of the background and target signature. We compare our results to the default 16 at-topped non-overlapping filter set which comes with the plenoptic camera and full hyperspectral resolution data which was previously acquired.
Anterior Exposure of the Spine for Removal of Lumbar Interbody Devices and Implants (2006)

Anterior removal of lumbar interbody devices placed anteriorly or posteriorly has a high incidence of complication. Average blood loss and hospital stay are increased with revision anterior surgery. The vascular complication rate is 2-fold higher at L4-L5 level compared to L5-S1.
Parallelizing a GIS on a shared address space architecture (1996)

We are developing a high-performance GIS (our term for a parallel GIS) on an SGI Challenge, a 16-processor machine with a shared address space architecture (SASA). We describe how we parallelized a key GIS operation using a message-passing algorithm. We advocate the linking of two diverse approaches to the design of parallel architectures and algorithms. As part of our project, we evaluated the effect of parallelizing an important GIS operation: range query. We parallelized a range query using data partitioning (to reduce synchronization) and dynamic load balancing (to improve speedup). We found that these approaches do achieve the performance required for many GIS applications.
Minisequencing with Acyclonucleoside Triphosphates Tethered to Lanthanide(III) Chelates (2008)

Four acyclic nucleoside triphosphates (derivatives of cytosine, thymine, 7-deazaadenine, and 7-deazaguanine) labeled with nonluminescent europium, terbium, dysprosium, and samarium chelates of 2,2',2'',2'''-[[4-(4-isothiocyanatophenyl)ethyl]pyridine-2,6-diyl]bis(methylenenitrilo)]tetrakis(acetic acid) were applied to minisequencing using two mutations (Delta F 508 and 1717-1 G to A) of cystic fibrosis as a model system. When synthetic targets were used, all four alleles involved could be analyzed in a single reaction using four terminating substrates labeled with four different lanthanide(III) chelates and DELFIA technology for detection. Blood spot samples without DNA isolations were used for PCR amplification and genotyping the target mutations by minisequencing. The single- and dual-labeled minisequencing assays were robust, while the four-label assay still requires further optimization of the multiplexed PCR amplification.
Molecular Evolution of the Testis TAFs of Drosophila (2009)

The basal transcription machinery is responsible for initiating transcription at core promoters. During metazoan evolution, its components have expanded in number and diversified to increase the complexity of transcriptional regulation in tissues and developmental stages. To explore the evolutionary events and forces underlying this diversification, we analyzed the evolution of the Drosophila testis TAFs (TBP-associated factors), paralogs of TAFs from the basal transcription factor TFIID that are essential for normal transcription during spermatogenesis of a large set of specific genes involved in terminal differentiation of male gametes. There are five testis-specific TAFs in Drosophila, each expressed only in primary spermatocytes and each a paralog of a different generally expressed TFIID subunit. An examination of the presence of paralogs across taxa as well as molecular clock dating indicates that all five testis TAFs likely arose within a span of approximately 38 My 63-250 Ma by independent duplication events from their generally expressed paralogs. Furthermore, the evolution of the testis TAFs has been rapid, with apparent further accelerations in multiple Drosophila lineages. Analysis of between-species divergence and intraspecies polymorphism indicates that the major forces of evolution on these genes have been reduced purifying selection, pervasive positive selection, and coevolution. Other genes that exhibit similar patterns of evolution in the Drosophila lineages are also characterized by enriched expression in the testis, suggesting that the pervasive positive selection acting on the tTAFs is likely to be related to their expression in the testis.
Exception handling design issues (1975)

Exception handling design issues are reflected in discussions by Zahn [1] Parnas [2], Hill [3], Elson [4], Organick [5], and myself [6, 7]. The purpose of this paper is to summarize these issues. This summary can be used to evaluate the strengths and weaknesses of proposed or existing exception handling language features and as a guide in designing new features.
‘Simultaneous tracking of cell motility in liquid and at the solid-liquid interface’ (2019)

1. Abstract To better understand key behaviors of living cells, such as bacterial biofilm formation, they must be observed above surfaces and at the interface between the surface and liquid medium. We have established a methodology for label-free imaging and tracking of individual cells simultaneously at both the solid-liquid interface and within the bulk, utilizing imaging modes of digital holographic microscopy (DHM) in 3D, differential interference contrast (DIC) and total internal reflectance microscopy (TIRM) in 2D as well as analysis protocols using a bespoke software package. We illustrate the power of this method by making detailed single cell measurements of Pseudomonas aeruginosa in the first minutes of their interaction with a glass surface, focusing on the role of the flagella stators, motAB and motCD . Using this new method we have determined their relative contributions to bulk and near surface motion for populations of cells at the single cell level.
Symmetrically coated pellicle beam splitters for dual quarter-wave retardation in reflection and transmission (2002)

A trilayer pellicle that consists of a high-index center layer that is symmetrically coated on both sides by a low-index film can be designed to produce differential reflection and transmission phase shifts of +/- 90 degrees at oblique incidence and equal throughput for the p and the s polarizations. Such a device splits a beam of incident linearly polarized light into two orthogonal circularly polarized components that travel in well-separated angular directions. Examples of infrared dual quarter-wave retarders that use a symmetrically coated Ge pellicle at 77 degrees angle of incidence are presented. A 50-50% splitter requires a symmetric pellicle with at least five layers. Error analysis shows that the thicknesses of the high-index layers must be tightly controlled. These circular polarization beam splitters are intended for operation with a well-collimated light source and can be used as the basis of a novel circular polarization Michelson interferometer.