gebhart/patrepeval huggingface dataset:
Amphidinolide B: Total Synthesis, Structural Investigation, and Biological Evaluation (2013)

The total syntheses of amphidinolide B1 and the proposed structure of amphidinolide B2 have been accomplished. Key aspects of this work include the development of a practical, non-transition-metal-mediated method for the construction of the C13-C15 diene, the identification of α-chelation and dipole minimization models for diastereoselective methyl ketone aldol reactions, the discovery of a spontaneous Horner-Wadsworth-Emmons macrocyclization strategy, and the development of a novel late stage method for construction of an allylic epoxide moiety. The originally proposed structure for amphidinolide B2 and diastereomers thereof display potent antitumor activities with IC50 values ranging from 3.3 to 94.5 nM against human solid and blood tumor cells. Of the different stereoisomers, the proposed structure of amphidinolide B2 is over 12-fold more potent than the C8,9-epimer and C18-epimer in human DU145 prostate cancer cells. These data suggest that the epoxide stereochemistry is a significant factor for anticancer activity.
Abnormal Expansion of a Disordered Zeolite upon Ion Exchange of K+ by Mg2+ (2019)

Here, we present the crystal structures of the Mg2+, Ca2+, Sr2+, and Ba2+ ion-exchanged forms of PST-3 and PST-4 in the hydrated state, the two synthetic almuminosilicate natrolites with almost fully disordered and ordered Al and Si atoms, whose frameworks are thus more and less flexible to each other. Unlike the case of the other alkaline earth cations, Mg2+ exchange was found to differ notably according to the framework flexibility of these zeolites: K-PST-3 showed a high level (∼85%) of Mg2+ exchange, whereas the opposite was observed for K-PST-4. A combination of the high charge density of Mg2+ ions and the highly flexible nature of the disordered PST-3 framework causes an unexpected expansion in the unit cell volume of this type of zeolites upon ion exchange of K+ by Mg2+.
Silicon photonics for optical computing, interconnects and sensing (2017)

Silicon photonics has been an active research topic for the past twenty years. The maturity of silicon nanofabrication and the transparency of silicon material at C- and L-band are a critical factor for the realization of silicon photonics for real applications. However, due to the intrinsic nature of indirect bandgap, hybrid integration with external III-V based lasers is the trend for integration. In this talk, we will focus on several key application areas. Figure 1 shows the system architecture to be demonstrated using III-V and silicon integrated photonic devices where energy consumption and bandwidth can be significantly improved.
A cyclin-dependent kinase inhibitor inducing cancer cell differentiation: Biochemical identification using Xenopus egg extracts (chemical librariesycell cycle) (1999)

Cellular differentiation is a complex process involving growth arrest, exit from the cell cycle, and expres- sion of differentiated cell-type-specific functions. To identify small molecules promoting this process, a chemical library was screened by using a myeloid leukemic cell line that retained the potential to differentiate in culture. In the presence of a purine derivative, aminopurvalanol (AP), cells acquired phenotypic characteristics of differentiated macro- phages and became arrested in the cell cycle with a 4N DNA content. AP also inhibited mitosis in Xenopus egg extracts, suggesting that it acted on an evolutionarily conserved cell cycle regulatory pathway. Affinity chromatography and bio- chemical reconstitution experiments with Xenopus egg ex- tracts identified cyclin-dependent kinase (CDK) 1-cyclin B as a target of the compound. Although AP potently inhibited immunoprecipitates of both human CDK1 and CDK2 from human leukemic cell extracts, our results indicate that the compound preferentially targets the G2yM-phase transition in vivo.
Modular basis for potent SARS-CoV-2 neutralization by a prevalent VH1-2-derived antibody class (2021)

SUMMARY Antibodies with heavy chains that derive from the VH1-2 gene constitute some of the most potent SARS-CoV-2-neutralizing antibodies yet identified. To provide insight into whether these genetic similarities inform common modes of recognition, we determined structures of the SARS-CoV-2 spike in complex with three VH1-2-derived antibodies: 2-15, 2-43, and H4. All three utilized VH1-2-encoded motifs to recognize the receptor-binding domain (RBD), with heavy chain N53I enhancing binding and light chain tyrosines recognizing F486 RBD . Despite these similarities, class members bound both RBD-up and -down conformations of the spike, with a subset of antibodies utilizing elongated CDRH3s to recognize glycan N 343 on a neighboring RBD – a quaternary interaction accommodated by an increase in RBD separation of up to 12 Å. The VH1-2-antibody class thus utilizes modular recognition encoded by modular genetic elements to effect potent neutralization, with VH-gene component specifying recognition of RBD and CDRH3 component specifying quaternary interactions. Highlights Determine structures of VH1-2-derived antibodies 2-43, 2-15, and H4 in complex with SARS-CoV-2 spike Define a multi-donor VH1-2-antibody class with modular components for RBD and quaternary recognition Reveal structural basis of RBD-up and RBD-down recognition within the class Show somatic hypermutations and avidity to be critical for potency Delineate changes in spike conformation induced by CDRH3-mediated quaternary recognition
Evaluation of a Screening and Selection Method for Bacillus Isolates for Use as Effective Direct-fed Microbials in Commercial Poultry (2010)

Bacillus-based direct-fed microbials may be an effective alternative to antibiotic growth promoters. Environmental samples were pasteurized to remove vegetative cells, plated onto TSA or SPA for 24 or 72 h and overlayed with soft agar containing S. enteritidis or C. perfringens. Isolates which produced antimicrobial activity against both pathogens were used to inoculate a solid state fermentation media and allowed to sporulate, to numbers greater than 10 spores/g and subjected to in vivo testing in both poults and chicks. 9 In exp. 1 chicks fed isolates PHL-RW35 and PHL-RW41, at doses of 10 and 10 spores/g feed respectively, 7 5 showed significant increases (p<0.05) in both Body Weight (BW) and Body Weight Gain (BWG). No significant differences in BW or BWG were noted in poults for any treatment. In this experiment, all groups were challenged with 10 cfu of S. typhimurium at day-of-hatch, no significant differences in Salmonella were 5 noted between groups. In experiment 2 PHL-RW41 fed at 10 spores/g of feed significantly increased BWG 5 by 8.3 and 11.7% in chicks and poults respectively. Isolate PHL-RW35 also increased BW and BWG in poults. These data indicate this approach for in vitro selection may be effective for screening and selection of Bacillus direct-fed microbials capable of causing an increase in BW and BWG in commercial poultry.
Data from Combination Therapy with Bispecific Antibodies and PD-1 Blockade Enhances the Antitumor Potency of T Cells (2023)

&lt;div&gt;Abstract&lt;p&gt;The DOCK-AND-LOCK (DNL) method is a platform technology that combines recombinant engineering and site-specific conjugation to create multispecific, multivalent antibodies of defined composition with retained bioactivity. We have applied DNL to generate a novel class of trivalent bispecific antibodies (bsAb), each comprising an anti-CD3 scFv covalently conjugated to a stabilized dimer of different antitumor Fabs. Here, we report the further characterization of two such constructs, (E1)-3s and (14)-3s, which activate T cells and target Trop-2– and CEACAM5-expressing cancer cells, respectively. (E1)-3s and (14)-3s, in the presence of human T cells, killed target cells grown as monolayers at subnanomolar concentrations, with a similar potency observed for drug-resistant cells. Antitumor efficacy was demonstrated for (E1)-3s coadministered with human peripheral blood mononuclear cells (PBMC) in NOD/SCID mice harboring xenografts of MDA-MB-231, a triple-negative breast cancer line constitutively expressing Trop-2 and PD-L1. Growth inhibition was observed following treatment with (E1)-3s or (14)-3s combined with human PBMC in 3D spheroids generated from target cell lines to mimic the &lt;i&gt;in vivo&lt;/i&gt; behavior and microenvironment of these tumors. Moreover, addition of an antagonistic anti–PD-1 antibody increased cell death in 3D spheroids and extended survival of MDA-MB-231-bearing mice. These preclinical results emphasize the potential of combining T-cell–redirecting bsAbs with antagonists or agonists that mitigate T-cell inhibition within the tumor microenvironment to improve immunotherapy of solid cancers in patients. They also support the use of 3D spheroids as a predictive alternative to &lt;i&gt;in vivo&lt;/i&gt; models for evaluating T-cell functions. &lt;i&gt;Cancer Res; 77(19); 5384–94. ©2017 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Simulation and experimental study of temperature distribution during ESD stress in smart-power technology ESD protection structures (2002)

Electro-thermal simulation and a laser-interferometric thermal mapping technique are employed to study temperature distribution and dynamics in smart power technology electrostatic discharge (ESD) protection npn transistor devices during a high current stress. The simulation predicts two temperature peaks along the device length which are due to a vertical and lateral current pathway in the studied devices. The temperature distribution in the device is studied via the measurements of the temperature-induced optical phase shift from the device backside. The position of the temperature peaks, their temporal evolution and stress level dependence obtained by experiment and simulation are in good agreement.
Arsenic Removal of Filters by Heat Treated Mixtures of Yellow Loess and Sand in One-Dimensional Column for Real Groundwater Treatment (2017)

It is described that the arsenic (As) removal in real groundwater by filters in one-dimensional (1D) column (30 mm diameter × 240 mm height) using mixtures of heat treated yellow loess (YL) and sand is applied with consideration of water permeability. The effluent satisfies the concentration of <10 ppb drinking water regulation before As saturation with filters. Heat treated mixture of YL and sand under 4% H2/96% Ar condition result in higher As removal capacity than heat treated one under air atmosphere condition at 500 °C for 3 hours. It is due to more evolution of Fe3O4 phase in the mixture. In order to increase As removal efficiency significantly, α-Fe2O3 coated filters on mixture of YL and sand by hydrothermal treatment at 100 °C for 12 hours are utilized. It leads to highly enhanced As removal efficiency with little Fe ions leaching but half reduction of effluent rate, appealing as an alternative of practical As removal filters.
ChemInform Abstract: Stereoselective Synthesis of (S)‐Propanolamines: Liver Microsomes Mediated Opening of Epoxides with Arylamines. (1992)

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.
A stochastic model of solid state thin film deposition: application to chalcopyrite growth (2016)

Developing high fidelity quantitative models of solid state reaction systems can be challenging, especially in deposition systems where, in addition to the multiple competing processes occurring simultaneously, the solid interacts with its atmosphere. In this work, we develop a model for the growth of a thin solid film where species from the atmosphere adsorb, diffuse, and react with the film. The model is mesoscale and describes an entire film with thickness on the order of microns. Because it is stochastic, the model allows us to examine inhomogeneities and agglomerations that would be impossible to characterize with deterministic methods. We demonstrate the modeling approach with the example of chalcopyrite Cu(InGa)(SeS)$_2$ thin film growth via precursor reaction, which is a common industrial method for fabricating thin film photovoltaic modules. The model is used to understand how and why through-film variation in the composition of Cu(InGa)(SeS)$_2$ thin films arises and persists. We believe that the model will be valuable as an effective quantitative description of many other materials systems used in semiconductors, energy storage, and other fast-growing industries.
O-MOORE-NICE! : new methodologies and algorithms for design and simulation of analog integrated circuits (2010)

In the valley of the Enisei (140 km from the town of Abakan up to the river) C. sinanoensis and C. sanguisuga are mass bloodsuckers while C. chiopterus and C. filicinus occur in small number. Data on the age composition of attacking females confirm the autogeny of C. filicinus and suggest the presence of autogeny in C. chiopterus. C. sinanoensis and C. sanguisuga can have two generations during the period of their activity. The emergence of the 1st generation takes place in the IInd--IIIrd decade of June, the emergence of the 2nd generation--at the beginning of August. The 2nd generation is so small, as a rule, that its appearance does not practically affect the abundance of attacking females. C. sanguisuga is less sensitive to light and attacks at a somewhat higher temperature as compared to C. sinanoensis. As a result, a morning peak of abundance of C. sanguisuga takes place in 1--2 hours after the peak of abundance of C. sinanoensis while the evening peak is 1--2 hours prior to it. The daily period of activity of C. sanguisuga is usually longer than that of C. sinanoensis.
Bend insensitive fibers for FTTH and MDU (2008)

As deployment of fiber to the home (FTTH) within multiple dwelling units (MDUs) is growing, more technicians will be involved in the deployment of optical drop cables, and there is a desire to use craft and practice similar to what is used for copper cables. We introduce a solid bend insensitive fiber in this application that is backwards compatible to G.652D fiber, and has macrobending, splice loss and system performance to meet the very demanding conditions of these applications. A closer look at the demands of this environment has made it necessary to re-evaluate reliability in these critical applications. We apply the Power Law Model to predict reliability in these demanding applications, and provide experimental evaluation of the model through testing on optical fibers and cables. It will be shown that bends and tension need to be considered together when evaluating the reliability of the passive optical plant.
Decorin‐expressing adenovirus decreases collagen synthesis and upregulates MMP expression in keloid fibroblasts and keloid spheroids (2015)

Decorin is a natural transforming growth factor-β1 (TGF-β1) antagonist. Reduced decorin synthesis is associated with dermal scarring, and increased decorin expression appears to reduce scar tissue formation. To investigate the therapeutic potential of decorin for keloids, human dermal fibroblasts (HDFs) and keloid-derived fibroblasts (KFs) were transduced with decorin-expressing adenovirus (dE1-RGD/GFP/DCN), and we examined the therapeutic potential of decorin-expressing Ad for treating pathologic skin fibrosis. Decorin expression was examined by immunofluorescence assay on keloid tissues. HDFs and KFs were transduced with dE1-RGD/GFP/DCN or control virus, and protein levels of decorin, epidermal growth factor receptor (EGFR) and secreted TGF-β1 were assessed by Western blotting and ELISA. And type I and III collagen, and matrix metalloproteinase-1 (MMP-1) and matrix metalloproteinase-3 (MMP-3) mRNA levels were measured by real-time RT-PCR. Additionally, we immunohistochemically investigated the expression levels of the major extracellular matrix (ECM) proteins in keloid spheroids transduced with dE1-RGD/GFP/DCN. Lower decorin expression was observed in the keloid region compared to adjacent normal tissues. After treatment with dE1-RGD/GFP/DCN, secreted TGF-β1 and EGFR protein expressions were decreased in TGF-β1-treated HDFs and KFs. Also, type I and III collagen mRNA levels were decreased, and the expression of MMP-1 and MMP-3 mRNA was strongly upregulated. In addition, the expression of type I and III collagen, fibronectin and elastin was significantly reduced in dE1-RGD/GFP/DCN-transduced keloid spheroids. These results support the utility of decorin-expressing adenovirus to reduce collagen synthesis in KFs and keloid spheroid, which may be highly beneficial in treating keloids.
Mechanisms and urodynamic effects of a potent and selective EP4 receptor antagonist, MF191, on cyclophosphamide and prostaglandin E 2 ‐induced bladder overactivity in rats (2012)

MF191 might affect the bladder urothelium and inflammatory cells and suppresses CYP- or PGE(2)-induced bladder overactivity. Systemic or intravesical MF191 administration for the treatment of overactive bladder merits clinical study.
ChemInform Abstract: Unsaturated Amides Derived from 2‐Amino‐3‐hydroxycyclopentenone: A Stille Approach to the Synthesis of Asuka‐mABA, 2880‐II, and Limocrocin. (1998)

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.
Radiation Dosimetry Results From a Phase II Trial of Ibritumomab Tiuxetan (Zevalin™) Radioimmunotherapy for Patients With Non-Hodgkin's Lymphoma and Mild Thrombocytopenia (2003)

This was a 30-patient Phase II trial of reduced-dose (90)Y ibritumomab tiuxetan (Zevalin) RIT for patients with low-grade, follicular, or transformed B-cell NHL and mild thrombocytopenia. Patients were given an imaging dose of (111)In-labeled ibritumomab tiuxetan for dosimetry measurements. One week later, patients were administered a therapeutic dose of 0.3 mCi/kg (11 MBq/kg) (90)Y ibritumomab tiuxetan. Both (111)In- and (90)Y-labeled ibritumomab tiuxetan doses were preceded by an infusion of 250 mg/m(2) rituximab (Rituxan, MabThera) an unlabeled chimeric anti-CD20 antibody, to clear peripheral blood B cells and improve biodistribution of the radiolabeled antibody. For all 30 patients, normal organ and red marrow radiation absorbed doses were well below protocol-defined limits of 2000 cGy and 300 cGy, respectively. Median radiation absorbed doses were 48 cGy to red marrow (range: 6.5-95 cGy), 393 cGy to liver (range: 92-1581 cGy), 522 cGy to spleen (range: 165-1711 cGy), 162 cGy to lungs (41-295 cGy), and 14 cGy to kidneys (0.03-65 cGy). Though most correlative analyses were negative, certain analyses demonstrated a statistically significant correlation between the severity or duration of thrombocytopenia and pharmacokinetic or dosimetric parameters. These correlations were not consistent across the total patient population, and therefore, could not be exploited to predict hematologic toxicity.
White emitting CdS quantum dot nanoluminophores hybridized on near-ultraviolet LEDs for high-quality white light generation and tuning (2008)

To generate white light using semiconductor nanocrystal (NC) quantum dots integrated on light emitting diodes (LEDs), multiple hybrid device parameters (emission wavelengths of the NCs and the excitation platform, order of the NCs with different sizes, amount of the different types of NCs, etc) need to be carefully designed and properly implemented. In this study, we introduce and demonstrate white LEDs based on simple device hybridization using only a single type of white emitting CdS quantum dot nanoluminophores on near-ultraviolet LEDs. Here we present their design, synthesis-growth, fabrication and characterization. With these hybrid devices, we achieve high color rendering index (&gt;70), despite using only a single NC type. Furthermore, we conveniently tune their photometric properties including the chromaticity coordinates, correlated color temperature, and color rendering index with the number of hybridized nanoluminophores in a controlled manner.
Fluorescent Image–Guided Surgery with an Anti-Prostate Stem Cell Antigen (PSCA) Diabody Enables Targeted Resection of Mouse Prostate Cancer Xenografts in Real Time (2015)

Fluorescently labeled cDb enables real-time in vivo imaging of prostate cancer xenografts in mice, and facilitates more complete tumor removal than conventional white light surgery alone.
Modified Polydimethylsiloxanes with Fluorescent Properties (1997)

The fluorescence behavior of covalent bonded probes was investigated in linear and crosslinked polydimethylsiloxanes. The probe shows a dual emission that depends on the network density and the concentration on swelling agent. Investigations of linear polydimethylsiloxanes with a bonded probe as a function of THF concentration indicate the existence of ground state complexes between the solvent and the probe molecule.
Real-time 3D ultrasound-based servoing of a surgical instrument (2006)

This paper presents a real-time 3D ultrasoundguided robotic system, designed to autonomously navigate a surgical instrument to surgeon-specified target points. The system tracks the instrument in real-time (2 Hz) using image processing. Thus, it does not require tracking of the ultrasound scan head. It makes use of a line detection algorithm and a passive instrument marker, which together report the instrument's position and orientation (6 d.o.f.) from a single ultrasound image. Validation experiments are presented. The system controlled instrument position in a variety of image locations with a mean error of 0.8 mm
Fair bandwidth allocation in wireless network using max-flow (2010)

This paper proposes a fair association scheme between clients and APs in WiFi network, exploiting the hybrid nature of the recent WLAN architecture. We show that such an association outperforms RSSI based schemes in several scenarios, while remaining practical and scalable for wide-scale deployment.
Compiler Technology for Parallel Scientific Computation (1994)

There is a need for compiler technology that, given the source program, will generate efficient parallel codes for different architectures with minimal user involvement. Parallel computation is becoming indispensable in solving large‐scale problems in science and engineering. Yet, the use of parallel computation is limited by the high costs of developing the needed software. To overcome this difficulty we advocate a comprehensive approach to the development of scalable architecture‐independent software for scientific computation based on our experience with equational programming language (EPL). Our approach is based on a program decomposition, parallel code synthesis, and run‐time support for parallel scientific computation. The program decomposition is guided by the source program annotations provided by the user. The synthesis of parallel code is based on configurations that describe the overall computation as a set of interacting components. Run‐time support is provided by the compiler‐generated code that redistributes computation and data during object program execution. The generated parallel code is optimized using techniques of data alignment, operator placement, wavefront determination, and memory optimization. In this article we discuss annotations, configurations, parallel code generation, and run‐time support suitable for parallel programs written in the functional parallel programming language EPL and in Fortran.