gebhart/patrepeval huggingface dataset:
Sparse Hartley Modeling for Fast Image Extrapolation (2018)

In many cases, image and video signal processing demands for high quality extrapolation algorithms, e.g., to solve inpainting problems or to increase image resolution. Indeed, a high computational load goes hand in hand with a good reconstruction quality as expensive models are calculated to estimate the missing data. To overcome this, the high-speed sparse Hartley modeling is introduced in this paper. This algorithm is based on Frequency Selective Extrapolation. In contrast to that, the model generation is carried out in the Hartley domain to exploit its real-valued transform properties. Due to this, it is possible to reduce the computational complexity significantly as no complex-valued arithmetic operations have to be conducted. In other words, a slightly higher reconstruction quality is obtained, while the proposed method is more than three times faster than the competing Frequency Selective Extrapolation.
Optimization and modeling of resonant clocking inductors for the POWER8<sup>TM</sup> microprocessor (2014)

A parameterized model for resonant clocking inductors embedded in a dense power grid was developed using extensive electromagnetic simulations. The resulting model was used to support resonant clock designs for the POWER8 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">TM</sup> microprocessor. The model enabled tuning of the inductance attached to each clock sector to optimize its resonant behavior, resulting in a 33% reduction in clock power. Simulations using the model showed excellent agreement with measurement for inductance, Q and global clock power. Inductor to inductor and inductor to flip-chip solder ball interaction was minimized by shielding provided by the dense power grid.
Evaluation of New, Sputtered Carbon SPME Fibers with a Multi-Functional Group Test Mixture (2021)

We report the first fabrication of sputtered carbon, solid-phase microextraction (SPME) fibers. These fibers have competitive extraction capabilities compared with the commercial carbon wide range (CWR) SPME fiber. This report also includes a demonstration of a newly developed SPME test mix that includes 15 different compounds with a wide range of functional groups and chemical properties. The fiber fabrication process involves sputtering carbon onto fused silica fibers, and the effects of throw distance on the morphology of the carbon coatings were studied. Four different carbon coating thicknesses were evaluated, with PDMS added as a stationary phase. These fibers were characterized with multiple analytical techniques, including scanning electron microscopy (SEM), X-ray photoelectron spectroscopy (XPS), water contact angle (WCA) goniometry, as well as headspace (HS) and direct immersion (DI)–SPME–GC–MS. The best (11.5 µm) sputtered carbon SPME fibers, with and without PDMS, were evaluated using the new evaluation mix and compared with the commercial CWR fiber and a previously sputtered/developed silicon fiber. The new probe mix helped elucidate differences among the fibers, which would have been missed by current commercial test mixes. The sputtered carbon SPME fibers showed similar functional group selectivity as commercial CWR fibers. However, the sputtered carbon fibers showed higher responses per volume compared with the commercial CWR fiber, indicating the porous morphology of the sputtered carbon has the ability to overcome large phase thickness/volume discrepancies and increase the relative recovery for various compounds.
Design and bioprinting for tissue interfaces (2023)

Tissue interfaces include complex gradient structures formed by transitioning of biochemical and mechanical properties in micro-scale. This characteristic allows the communication and synchronistic functioning of two adjacent but distinct tissues. It is particularly challenging to restore the function of these complex structures by transplantation of scaffolds exclusively produced by conventional tissue engineering methods. Three-dimensional (3D) bioprinting technology has opened an unprecedented approach for precise and graded patterning of chemical, biological and mechanical cues in a single construct mimicking natural tissue interfaces. This paper reviews and highlights biochemical and biomechanical design for 3D bioprinting of various tissue interfaces, including cartilage-bone, muscle-tendon, tendon/ligament-bone, skin, and neuro-vascular/muscular interfaces. Future directions and translational challenges are also provided at the end of the paper.
Is the NAD(P)H:Flavin Oxidoreductase from a Member of the Ferredoxin-NADP+ Reductase Family? (1996)

The NAD(P)H:flavin oxidoreductase from Escherichia coli, Fre, is a monomer of 26.1 kDa which catalyzes the reduction of free flavins by NADPH or NADH. The flavin reductase Fre is the prototype of a new class of flavin reductases able to transfer electrons with no prosthetic group. It has been suggested that the flavin reductase could belong to the ferredoxin-NADP+ reductase (FNR) family, on the basis of limited sequence homologies. A sequence, conserved within the ferredoxin-NADP+ reductase family and present in the flavin reductase, is important for recognition of the isoalloxazine ring. Within this sequence, we have mutated serine 49 of the flavin reductase into alanine or threonine. kcat value of the S49A mutant was 35-fold lower than kcat of the wild-type enzyme. Determination of real Kd values for NADPH and lumichrome, a flavin analog, showed that recognition of the flavin is strongly affected by the S49A mutation, whereas affinity for the nicotinamide cofactor is only weakly modified. This suggests that serine 49 is involved in the binding of the isoalloxazine ring. Moreover, the Kd value for 5-deazariboflavin, in which the N-5 position of the isoalloxazine ring has been changed to a carbon atom, is not affected by the serine 49 to alanine mutation. This is consistent with the concept that the N-5 position is the main site for serine 49-flavin interaction. In the ferredoxin-NADP+ reductase family, the equivalent serine residue, which has been shown to be essential for activity, is hydrogen-bonded to the N-5 of the FAD cofactor. Taken together, these data provide the first experimental support to the hypothesis that the flavin reductase Fre may belong to the ferredoxin-NADP+ reductase family.
Absorption (in Pharmaceutics) (2016)

This Glossary of Terms Related to Pharmaceutics is needed by practitioners in the field of pharmaceutics as this field fulfills an important and crucial role, different from the roles of other scientific disciplines involved in the drugmaking process. The glossary contains 168 definitions used in pharmaceutics. These are related to various aspects of this discipline, such as: (1) physicochemical characterization of pharmaceutical preparations and the active ingredients they contain; (2) unit operations used in the practice of pharmaceutics; (3) terms related to the various dosage forms; (4) terms related to the various modes and routes of drug delivery; (5) terms used in pharmacokinetics and biopharmaceutics in general; and additional miscellaneous terms. The field of pharmaceutics itself is of a multidisciplinary nature as its practitioners come from a variety of disciplines, such as chemistry or various biological sciences, thus a glossary containing authoritative definitions would be useful for them. The terms used in pharmaceutics are rarely covered by existing glossaries, and in the cases they are, their definitions are often inappropriate for the field of pharmaceutics and require new or modified definitions to better fit the new context.
Spatio-temporal inter-ictal activity recorded from human epileptic hippocampal slices (2012)

Epilepsy is a medical syndrome that produces seizures affecting a variety of mental and physical functions. The actual mechanisms of the onset and termination of the seizure are still unclear. While medical therapies can suppress the symptoms of seizures, 30% of patients do not respond well. Temporal lobectomy is a common surgical treatment for medically refractory epilepsy. Part of the hippocampus is removed from the patient. In this study, we have developed an in vitro epileptic model in human hippocampal slices resected from patients suffering from intractable mesial temporal lobe epilepsy. Using a planar multielectrode array system, spatio-temporal inter-ictal activity can be consistently recorded in high-potassium (8 mM), low-magnesium (0.25 mM) aCSF with additional 100 µM 4-aminopyridine. The induced inter-ictal activity can be recorded in different regions including dentate, CA1 and Subiculum. We hope the experimental model built in this study will help us understand more about seizure generation, as well as providing insights into prevention and novel therapeutics.
&#x0022;Self-Improving System Integration&#x0022; - Preface for the SISSY14 Workshop (2014)

Self-Improving System Integration -- Preface for the SISSY14 Workshop.
Novel genetic risk variants for pediatric celiac disease (2016)

The next-generation sequencing-based family genomics approach described herein may serve as a paradigm towards the identification of novel functional variants with the aim of understanding complex disease pathobiology.
gDNA: Towards Generative Detailed Neural Avatars (2022)

To make 3D human avatars widely available, we must be able to generate a variety of 3D virtual humans with varied identities and shapes in arbitrary poses. This task is chal-lenging due to the diversity of clothed body shapes, their complex articulations, and the resulting rich, yet stochas-tic geometric detail in clothing. Hence, current methods that represent 3D people do not provide a full generative model of people in clothing. In this paper, we propose a novel method that learns to generate detailed 3D shapes of people in a variety of garments with corresponding skin-ning weights. Specifically, we devise a multi-subject forward skinning module that is learned from only a few posed, unrigged scans per subject. To capture the stochastic nature of high-frequency details in garments, we leverage an adversarial loss formulation that encourages the model to capture the underlying statistics. We provide empirical evi-dence that this leads to realistic generation of local details such as wrinkles. We show that our model is able to gen-erate natural human avatars wearing diverse and detailed clothing. Furthermore, we show that our method can be used on the task of fitting human models to raw scans, out-performing the previous state-of-the-art.
Product line implementation with ECaesarJ (2011)

The implementation of a product line consists of a set of reusable components, called core assets, which are composed and configured in different ways to build different concrete products. The goal of a product line to support multiple products introduces additional complexity both to its assets and to the development process. The assets are more complicated because they must deal with variations of the concrete products. The development process is more complicated because it must deal not only with evolution of the common assets, but also with independent evolution of products and instantiation of new products.
Abstract PR04: Small molecule-mediated activation of Ras elicits inhibition of MAPK and PI3K signaling though pathway feedback (2017)

Abstract Oncogenic mutation or hyper-activation of Ras results in aberrant cellular signaling and is responsible for approximately 30% of all human tumors. Therefore, Ras is an outstanding candidate for therapeutic inhibition. However, the discovery of potent inhibitors has been challenging. Our laboratory has recently discovered small molecules that perturb Son of Sevenless (SOS) -catalyzed nucleotide exchange on Ras (Burns et al. PNAS 2014). Here we describe experiments conducted to determine the mechanism of compound action. SOS activator compound 4 (C4) induces signaling flux through the MAPK pathway in response to elevated Ras-GTP levels, reminiscent of epidermal growth factor signaling. We used mass spectrometry to show that in response to C4 stimulation, phospho-modifications on SOS1 increased at ERK phosphorylation consensus sequences. We hypothesize that these phospho-modifications can cause delocalization of SOS and membrane bound Ras, and we are currently using proximity-ligation to assess whether the interaction between SOS1 and Ras is affected by C4 treatment. Cross-talk between the MAPK and PI3K signaling pathways may be responsible for the inhibition of phospho-AKT Ser473 levels in response to MAPK signaling flux, or vice versa. Here we show, using MEK and PI3K inhibitor pre-treatments, that events in both pathways are independent after C4 treatment. As both SOS1 and PI3K bind to Ras at a similar site, we are currently testing the hypothesis that C4 disrupts the interaction between Ras and PI3K, whilst allowing signaling flux through the MAPK pathway. Overall, we have discovered small-molecule activators of SOS that modulate Ras-GTP levels, resulting in signaling flux through the MAPK pathway and eventual downstream inhibition of both the MAPK and PI3K pathways in cancer cells. This abstract is also being presented as Poster A15. Citation Format: Jennifer E. Howes, Denis T. Akan, Bethany M. Alicie, Alex G. Waterson, Olivia W. Rossanese, Stephen W. Fesik. Small molecule-mediated activation of Ras elicits inhibition of MAPK and PI3K signaling though pathway feedback. [abstract]. In: Proceedings of the AACR Precision Medicine Series: Targeting the Vulnerabilities of Cancer; May 16-19, 2016; Miami, FL. Philadelphia (PA): AACR; Clin Cancer Res 2017;23(1_Suppl):Abstract nr PR04.
An Optimized LMS Algorithm for Bilinear Forms (2018)

In this paper we introduce an optimized version of the least-mean-square (LMS) algorithm, which is tailored for the particular case of bilinear forms. In this context, the bilinear term is defined with respect to the impulse responses of a spatiotemporal model resembling a multiple-input/single-output system. Moreover, a comparison with the simplified version of the Kalman filter developed for bilinear forms is provided. Simulation results show the good performance of the proposed algorithm.
Unique bonding and geometry in .eta.-cyclopentadienyltantalum-diene complexes. Preparation, x-ray structural analyses, and EHMO calculations (1985)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTUnique bonding and geometry in .eta.-cyclopentadienyltantalum-diene complexes. Preparation, x-ray structural analyses, and EHMO calculationsHajime Yasuda, Kazuyuki Tatsumi, Takuji Okamoto, Kazushi Mashima, Keonil Lee, Akira Nakamura, Yasushi Kai, Noriko Kanehisa, and Nobutami KasaiCite this: J. Am. Chem. Soc. 1985, 107, 8, 2410–2422Publication Date (Print):April 1, 1985Publication History Published online1 May 2002Published inissue 1 April 1985https://doi.org/10.1021/ja00294a036RIGHTS & PERMISSIONSArticle Views188Altmetric-Citations97LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InReddit PDF (1 MB) Get e-AlertsSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
ChemInform Abstract: Iminyl Radicals. Part 1. Generation and Intramolecular Capture by an Olefin. (1994)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Identification of a murine cell line that distinguishes virulent from attenuated isolates of the morbillivirus Peste des Petits Ruminants, a promising tool for virulence studies (2020)

Comprehensive pathogenesis studies on Peste des Petits Ruminants virus (PPRV) have been delayed so far by the absence of a small animal model reproducing the disease or an in vitro biological system revealing virulence differences. In this study, a mouse 10T1/2 cell line has been identified as presenting different susceptibility to virulent and attenuated PPRV strains. As evidenced by immunofluorescence test and RT-PCR, both virulent and attenuated PPR viruses penetrated and initiated the replication cycle in 10T1/2 cells, independently of the presence of the SLAM goat receptor. However, only virulent strains successfully completed their replication cycle while the vaccine strains did not. Since 10T1/2 cells are interferon-producing cells, the role of the type I interferon (type I IFN) response on this differentiated replication between virulent and attenuated strains was verified by stimulation or repression. Modulation of the type I IFN response did not improve the replication of the vaccine strains, indicating that other cell factor(s) not yet established may hinder the replication of attenuated PPRV in 10T1/2. This 10T1/2 cell line can be proposed as a new in vitro tool for PPRV-host interaction and virulence studies.
Seed dormancy and germination in three annual canarygrass (Phalaris canariensis L.) cultivars relative to spring wheat (Triticum aestivum L.) (2001)

Seed dormancy in annual canarygrass may lead to unsatisfactory germination in seed tests. The objectives of this study were (i) to quantify the levels of seed dormancy in three morphologically diverse annual canarygrass cultivars (Keet', CDC Maria' and 'CY 184') relative to spring wheat and (ii) to determine the effectiveness of three treatments (GA 3 , KNO 3 and chilling) and two temperature regimes (15/25°C and 15°C) in promoting germination of dormant annual canarygrass seeds. The hard red spring wheat cultivar 'Katepwa' control was included as a representative of a cereal crop that has been extensively characterized with regards to seed dormancy. In 1998 and 1999, the four cultivars were grown at Saskatoon, Canada. At maturity, panicles and spikes were hand harvested and stored at -20°C. Four replications of 50 seeds per cultivar were used in each experiment. Three experiments were conducted: (i) seeds were germinated at 10, 15, 20 and 25°C for one week, (ii) seeds were stored at 24°C for zero to eight weeks prior to germination at 22°C for one week and (iii) seeds were treated with GA 3 , KNO 3 chilling prior to germination at 15/25°C (16/8h) or 15°C for two weeks. For experiment one and three, a split-plot analysis was used to analyze arc sin transformed percentage germination data. Average percentage germination data in experiment two were tested to be significantly different from 98% germination (P=0.05) based on one-tailed t-tests. Annual canarygrass developed deeper dormancy than the wheat cultivar in both years, particularly when germinated at 20 and 25°C. The highest percentage germination was observed at 15°C. Two (1998) and four weeks (1999) of storage at 24°C were required to overcome dormancy in annual canarygrass. Pre-chilling or KNO 3 treatment prior to germination at 15/25°C (16/8h in darkness) resulted in average germination levels of 94% (1998) and 66% (1999). Potassium nitrate treatment prior to incubation at 15°C in darkness was the most effective method of promoting germination in dormant seeds, resulting in 99% (1998) and 97% (1999) germination. Thus, we recommend the use of the latter method, instead of the former or currently recommended method (pre-chilling or KNO 3 treatment prior to germination at 15/25°C [16/8h] in darkness), for testing germination levels of dormant seed of annual canarygrass.
P10: CFD Simulation Of Thrombosis In A Catheter Pump Inside The Left Ventricle (2023)

Study: Catheter pumps are small axial flow assist devices indicated for temporary use for a variety of indications. Uniquely positioned within the circulation, the pump impeller and motor are situated in the ascending aorta, and blood is pumped from the left ventricle (LV) via a long angled inlet cannula. The interplay of pulsatile LV blood dynamics with hemocompatibility performance of a catheter pump is not well characterized. The purpose of this study is to conduct computational fluid dynamics (CFD) simulation that includes multifactorial and synergistic models of blood damage to a catheter pump within a virtual in-vivo environment to analyze its hemodynamics. Methods: A generic catheter pump whose shape is inspired by the Impella 5.0 is situated within a static geometry consisting of a semi-realistic LV and aorta. We apply bloodDamageFoam, an OpenFOAM-based CFD code, to predict the hemodynamic flow and blood damage generated by the pump operating at 20 kRPM. The thrombosis model includes seven biochemical and biophysical agonists and accounts for the effects of high shear stress induced activation of von Willebrand factor. Results: CFD predicted 4.43 LPM blood flow rate from the LV delivered into the aorta. Moderate levels of hemolysis were predicted. The thrombosis model showed moderate degrees of platelet deposition on the cage of the inlet cannula and within the catheter pump chamber. Because the LV in this simulation was not beating, unrealistically large regions of flow stagnation and high platelet activation were observed in the LV. To address this, realistic pulsatility of a dilated LV is currently being modeled. Our latest progress will be presented at the meeting.
Azadirachtin: structural requirements for reducing growth and increasing mortality in lepidopterous larvae (1990)

Abstract Spodoptera littoralis, Spodoptera frugiperda and Heliothis virescens were exposed to azadirachtin and 23 other related compounds in three bioassays: oral cannulation, haemolymph injection and topical application. Spodoptera littoralis was susceptible to a larger proportion of the compounds than either of the other species. Overall, azadirachtin, 22,23‐dihydroazadirachtin and 1‐detigloyl‐22,23‐dihydroazadirachtin were the most active compounds. The nature of the substitutes at C‐1 and C‐3 of the decalin ring affects the potency of the compounds, as does the addition of substitutes to C‐22,23. Generally, larvae were less sensitive to compounds when they were topically applied than when they were cannulated into the gut or injected into the haemolymph. Résumé Azadirachtine: contraintes structurales nécessaires pour obtenir la réduction de la croissance et l'augmentation de la mortalité chez les chenilles de lépidoptères Spodoptera littoralis, S. frugiperda et Heliothis virescens ont été exposés à l'azadirachtine et 23 autres substances voisines dans 3 expériences: canulation orale, injection d'haemolymphe et application topique. S. littoralis est sensible à un plus grand nombre de substances que les 2 autres espèces. De toutes façons, les substances les plus actives ont été l'azadirachtine, la 22,23‐dihydroazadirachtine et la 1‐détigloyl‐22,23‐dihydroazadirachtine. La nature des substitutions en C‐1 et C‐3 de l'anneau décaline modifie la puissance des substances, tout comme les substitutions en C‐22,23. D'une façon générale, les chenilles ont été moins sensibles aux applications topiques qu'aux canulations dans le tube digestif ou aux injections dans l'haemolymphe.