gebhart/patrepeval huggingface dataset:
Abstract NT-108: TARGETING BROMODOMAIN PROTEINS AS A THERAPEUTIC STRATEGY FOR CLEAR CELL CARCINOMA OF THE OVARY (2019)

Abstract Background and Objectives: Clear cell carcinoma of the ovary (OCCC) is more resistant to platinum-based chemotherapy than high-grade serous ovarian cancer (HGSOC). Also, the indication for PARP inhibitors seems to be limited in OCCC because of the lower frequency of homologous recombination deficiency. As genomic background significantly differs among subtypes, therapeutic strategies should be optimized in response to each subtype or unique gene alterations. This study was designed to find novel therapeutic targets for OCCC by utilizing siRNA screens and unique patient-derived ovarian cancer cells that phenocopy original tumors. Materials and Methods: Novel patient-derived ovarian cancer cells were established and kindly provided by Dr. Tan Ince at University of Miami. Genomic alterations of these cells were determined by DNA sequencing. siRNA screens targeting 2,172 unique genes were performed with ARID1A-mutated OCCC cell line OCI C5x, and high-grade serous ovarian cancer cell line OCI P5x. Genes inhibition of which significantly suppressed cell proliferation were selected as hits for each subtype independently. The difference of cell viability between OCI C5x and P5x was also compared, and subtype-specific hits were additionally determined. Hits were applied to Gene Ontology (GO) enrichment analysis to comprehend the gene set enrichment. Several prioritized targets for OCCC were validated with additional RNAi experiments and small molecule inhibitors. Results: 114 and 108 genes were selected as hits specific to OCI C5x and OCI P5x, respectively. GO enrichment analysis revealed OCCC is potentially more vulnerable to epigenetic interventions than HOGSC. The following inspection revealed bromodomain-containing proteins were enriched in the hits for OCI C5x. Among these, we highlighted bromodomain and extra-terminal domain (BET) family proteins BRD2 and BRD3. Subsequent RNAi experiments validated BRD2 and BRD3 are highly potent therapeutic targets for OCCC. Conclusions: siRNA screening results suggest different approaches are required according to subtypes for the targeted therapy of ovarian cancer. We propose that epigenetic intervention such as BET protein inhibition as a potential therapeutic option for OCCC, 50-60% of which harbor ARID1A mutation. Citation Format: Shogo Shigeta, Reid Shaw, Russell Moser, Kay Gurley, Goldie Lui, Carla Grandori, Christopher Kemp. TARGETING BROMODOMAIN PROTEINS AS A THERAPEUTIC STRATEGY FOR CLEAR CELL CARCINOMA OF THE OVARY [abstract]. In: Proceedings of the 12th Biennial Ovarian Cancer Research Symposium; Sep 13-15, 2018; Seattle, WA. Philadelphia (PA): AACR; Clin Cancer Res 2019;25(22 Suppl):Abstract nr NT-108.
Adjuvant systemic therapy of gastrointestinal stromal tumors The Scandinavian Sarcoma Group perspective (2009)

Gastrointestinal stromal tumors (GISTs) have a malignant potential varying from virtually no risk of recurrence (microscopic GISTs) to a high risk. Acquired secondary mutations that interfere with imatinib binding have been identified as a common mechanism for drug resistance and tumor progression in advanced GIST. Patients with advanced GIST but with a small tumor mass have the longest time to disease progression suggesting that the rate of secondary mutations that confer drug resistance may be low when the number of cancer cells is small. Thus, early administration of imatinib in the adjuvant setting might result in a low rate of secondary mutations and might improve survival. The results of the ACOSOG Z9001 trial demonstrated a significantly longer recurrence-free survival among patients treated with adjuvant imatinib as compared to placebo. Although data on influence of adjuvant imatinib on overall survival is lacking, its administration may be warranted to patients who have a high risk of recurrence and death from GIST that likely exceeds the risks related to adjuvant administration of imatinib. Many aspects of adjuvant treatment remain unknown including the overall benefits and harms of adjuvant treatment, optimal selection of patients for treatment, and the duration of adjuvant treatment, which is currently being investigated in the ongoing Scandinavian Sarcoma Group/AIO trial (SSG/AIO XVIII).
Hepatitis C virus genotypes in France: relationship with epidemiology, pathogenicity and response to interferon therapy (1999)

The aim of this study was to investigate the following in a large population of French patients with chronic hepatitis C: the geographical distribution of hepatitis C virus (HCV) genotypes; the relationship between HCV genotypes and epidemiological characteristics; severity of the disease; and response to interferon (IFN) therapy. Data from 14 tertiary referral centres, corresponding to 1872 patients with chronic hepatitis C, were prospectively collected from 1989 to 1997. HCV genotyping was performed using the line probe assay (LiPA). HCV genotypes 1b, 3, 1a, 2, 4 and a mixed infection were found in 41%, 22%, 16%, 11%, 4% and 4% of our population, respectively. HCV genotype distribution was homogeneous, except for genotype 2 that was found more frequently in the southwest than in the other regions (21% vs 9.2%) (P=0.001). HCV distribution was associated with gender, age, and source and duration of infection. In multivariate analysis, these correlations were related to the source of infection, which was the only independent factor significantly associated with genotype (P=0.001). Genotype 1b was significantly more common in patients with cirrhosis, but in multivariate analysis cirrhosis was independently related to older age at exposure and longer duration of infection (P=0.001). A sustained response to IFN therapy was observed in 11% of patients infected with genotypes 1a or 1b vs 32% of those infected with genotypes 2 or 3 (P=0.001). This study shows that HCV genotype is mainly related to the source infection, but not to the intrinsic pathogenicity of HCV, and is a strong predictor of sustained response to therapy.
Interference phase-contrast imaging technology without beam separation (2019)

Interferometers are widely used in science and industry to measure small displacements, changes in refractive index, and surface irregularities. In all interferometers, including phase-contrast microscopes and DICs (differential interference contrast microscopes), light from a single source is split into two beams that travel along different optical paths. They are then recombined to produce interference. The fundamental operation of beam separation makes device configuration more complex and adds to the bulk of the equipment. In this study we propose a new method of observing phase-contrast images without beam separation by using self-interference inside a grating coupler structure disposed on the observation plane. We experimentally demonstrate that the self-interference principle can generate phase-contrast images using a simple configuration. From measurements using a multilevel phase plate, we confirm its phase-contrast depth resolution to approach one- tenth of a wavelength.
Resonant Cavity Enhanced Ge Photodetectors for 1550 nm Operation on Reflecting Si Substrates (2004)

We have fabricated and characterized the first resonant cavity-enhanced germanium photodetectors on double silicon-on-insulator substrates (Ge-DSOI) for operation around the 1550-nm communication wavelength and have demonstrated over four-fold improvement in quantum efficiency compared to its single-pass counterpart. The DSOI substrate is fabricated using an ion-cut process and optimized for high reflectivity (>90%) in the 1300-1600-nm wavelength range, whereas the Ge layer is grown using a novel two-step ultra-high vacuum/chemical vapor deposition direct epitaxial growth technique. We have simulated a Ge-DSOI photodetector optimized for operation at 1550 nm, exhibiting a quantum efficiency of 76% at 1550 nm given a Ge layer thickness of only 860 nm as a result of both strain-induced and resonant cavity enhancement. For this Ge thickness, we estimate a transit time-limited 3-dB bandwidth of approximately 25 GHz.
Multicomponent Formulations of Chemical Penetration Enhancers (2007)

INTRODUCTION The skin is the largest organ of our body and the boundary to the environment. Analysis of skin structure is essential for dermatological diagnoses and therapy control, as well as for the investigation of cosmetic products. In recent years, laser scanning microscopy (LSM) has achieved substantial improvements in the imaging of dermal tissue in vivo. Nowadays, laser microscopic systems on the open market are either significantly reduced in size or are fiber-based with handheld scanning devices, allowing a simple in vivo application and evaluation of the skin on any region of the body (1-5).
5-Aminolevulinic acid combined with ferrous iron induces carbon monoxide generation in mouse kidneys and protects from renal ischemia-reperfusion injury (2013)

Renal ischemia reperfusion injury (IRI) is a major factor responsible for acute renal failure. An intermediate in heme synthesis, 5-aminolevulinic acid (5-ALA) is fundamental in aerobic energy metabolism. Heme oxygenase (HO)-1 cleaves heme to form biliverdin, carbon monoxide (CO), and iron (Fe(2+)), which is used with 5-ALA. In the present study, we investigated the role of 5-ALA in the attenuation of acute renal IRI using a mouse model. Male Balb/c mice received 30 mg/kg 5-ALA with Fe(2+) 48, 24, and 2 h before IRI and were subsequently subjected to bilateral renal pedicle occlusion for 45 min. The endogenous CO concentration of the kidneys from the mice administered 5-ALA/Fe(2+) increased significantly, and the peak concentrations of serum creatinine and blood urea nitrogen decreased. 5-ALA/Fe(2+) treatments significantly decreased the tubular damage and number of apoptotic cells. IRI-induced renal thiobarbituric acid-reactive substance levels were also significantly decreased in the 5-ALA/Fe(2+) group. Furthermore, mRNA expression of HO-1, TNF-α, and interferon-γ was significantly increased after IRI. Levels of HO-1 were increased and levels of TNF-α and interferon-γ were decreased in the 5-ALA/Fe(2+)-pretreated renal parenchyma after IRI. F4/80 staining showed reduced macrophage infiltration, and TUNEL staining revealed that there were fewer interstitial apoptotic cells. These findings suggest that 5-ALA/Fe(2+) can protect the kidneys against IRI by reducing macrophage infiltration and decreasing renal cell apoptosis via the generation of CO.
Structural and Morphological Properties of Hf<sub>x</sub>Zr<sub>1-x</sub>O<sub>2</sub> Thin Films Prepared by Pechini Route (2010)

In this study, HfxZr1-xO2 (0 &lt; x &lt; 1) thin films were deposited on silicon wafers using a dip-coating technique and by using a precursor solution prepared by the Pechini route. The effects of annealing temperature on the structure and morphological properties of the proposed films were investigated. HfxZr1-xO2 thin films with 1, 3 and 5 layers were annealed in air for 2 h at 600 and 800 °C and the structural and morphological properties studied by X-ray diffraction (XRD) and scanning electron microscopy (SEM). XRD results show that the films have monoclinic and tetragonal structure depending of the Hf and Zr concentration. SEM photographs show that all films consist of nanocrystalline grains with sizes in the range of 6 - 13 nm. The total film thickness is about 90 nm.
Coupled Quantum Wells (2009)

Properties of quantum-well (QW) structures have proved useful in providing enhanced device characteristics and even in generating new device applications. This book presents a theory needed to understand the properties of QW structures, as well as the rules employed in the design of photodetectors based on QWs. A theoretical model is presented evaluating gain from the QW structure based on IV-VI semiconductor materials. The experimental and theoretical results concerning coupled QW structures are discussed. Semimagnetic quantum wells attract great attention due to potential device application in the field of spintronics. A study of three groups of semimagnetic structures is presented. Magnetoexcitons dispersion in coupled quantum wells are discussed using the Bethe-Salpeter formalism. Also presented are: high-resolution electron energy loss spectroscopy measurements on surface plasmon dispersion in systems exhibiting quantum well states; a review of different ways to achieve a spin splitting of two-dimensional electron and hole sub-bands; a review of two approaches to the quantisation of the particle motion in an infinite square; a study of the different disordered electron systems with various disorder strengths; and a study of quantum states of Double Quantum Wells and hydrogen-like molecules. An optical gain using the new material system InGaAsN for the operation of QW based semiconductor lasers is evaluated as well.Show more Show less
Synthesis and Characterization of Highly Soluble Polyamide-Imides Derived from α,α′-Bis[3,5-Dimethyl-4-(4-Trimellitimidophenoxy)-Phenyl]-1,4-Diisopropylbenzene (2001)

A new diimide-dicarboxylic acid, α,α′-bis[3,5-dimethyl-4-(4-trimellitimidophenoxy)phenyl]-1,4-diisopropylbenzene (BDTPD), was synthesized by the condensation reaction of α,α′-bis[3,5-dimethyl-4-(4-aminophenoxy)phenyl]-1,4-diisopropylbenzene (BDAPD) with trimellitic anhydride in refluxing glacial acetic acid. A series of new polyamide-imide (PAIs) were prepared by direct polycondensation of BDAPD and various aromatic diamines in N-methyl-2-pyrrolidinone (NMP) using triphenyl phosphite and pyridine as condensing agents. The polymers were produced with high yield and moderate to high inherent viscosities of 0.77–1.03 dl g −1 . Wide-angle x-ray diffractograms revealed that the polymers were amorphous. All the PAIs exhibited excellent solubility and could be readily dissolved in various solvents such as NMP, N,N-dimethylacetamide (DMAc), N,N-dimethylformamide, dimethyl sulfoxide, pyridine, cyclohexanone, tetrahydrofuran and chloroform at room temperature or upon heating at 70°C. Such PAIs had better solubility than those containing a hexafluoroisopropylidene linkage in the repeating unit of a PAI backbone. These PAIs had glass transition temperatures between 252 and 269°C and 10% weight loss temperatures in the range of 453–482°C and 462–485°C in nitrogen and air atmospheres, respectively. The tough polymer films, obtained by solution casting from DMAc solution, had a tensile strength range of 80–103 MPa and a tensile modulus range of 1.6–2.0 GPa.
Spoof surface plasmon enhanced reflection in THz parallel plate waveguides (2012)

Back reflections from the end of a parallel-plate metal waveguide can be enhanced up to 99% at a selected frequency by patterning the output facet. This concept can be used to design resonant waveguide structures.
17O NMR spectroscopy (natural abundance) of heterocycles: Anhydrides (1986)

Abstract 17 O NMR spectra were recorded for several series of anhydrides (⩽0.5 M) in dried acetonoitrile at 75°C. The 17 O NMR data for simple anhydrides were found to be highly sensitive [acetic anhydride, δ 411 ppm (CO), δ 273; glutaric anhydride (2), δ 396 ppm (CO), δ 288 ppm; succinic anhydride δ 376 (CO), δ 301; maleic anhydride, δ 401 (CO), δ 252; phthalic anhydride (27), δ 374 (CO), δ 263]. The 17 O NMR data were found to be sensitive to ring size and conformation. Substitutent effects on a series of maleic anhydrides could be rationalized in terms of electronic effects. In contrast, the 17 O NMR data for polycyclic succinic anhydrides showed that the chemical shifts of the carbonyl oxygens were roughly constant, while those of the central oxygens were sensitive to structure. The 17 O NMR data for homophthalic anhydride [δ 397 (CO), δ 372 (CO), δ 273] were consistent with those for 2 and 27; the data for pyridine‐2,3‐dicar‐boxylic anhydride [δ 383 (CO), δ 380 (CO), δ 263] could be rationalized in terms of electronic effects, and those for 3,4‐dihydronaphthalene‐1,2‐dicarboxylic anhydride [δ 392 (CO), δ 387 (CO), δ 252] were explained by compressional and electronic effects.
Anisoplanatic imaging through turbulent media: image recovery by local information fusion from a set of short-exposure images (2001)

A wide-field-of-view white-light imaging experiment with artificially generated turbulence layers located between the extended object and the imaging system is described. Relocation of the turbulence sources along the imaging path allowed the creation of controllable anisoplanatic effects. We demonstrate that the recently proposed synthetic imaging technique [J. Opt. Soc. Am. A 16, 1623 (1999)] may result in substantial improvement in image quality for highly anisoplanatic conditions. It is shown that for multisource objects located at different distances the processing of turbulence-degraded short-exposure images may lead to a synthetic image that has an image quality superior to that of the undistorted image obtained in the absence of turbulence (turbulence-induced image quality enhancement).
A sharp-focusing schlieren optical deflectometer (1993)

A new instrument capable of localized, nonintrusive turbulence measurements is developed by combining a focusing schlieren system with an optical deflectometer. This instrument records the fluctuating light intensity at a point in the focused schlieren image. Its capability is verified by making benchmark measurements of Kelvin-Helmholtz vortices produced in a low-speed axisymmetric mixing layer. The sharp-focusing effect is demonstrated both visually and quantitatively. The results show that the instrument is capable of optical turbulence measurements within a 4 mm depth-of-field.
Force and stiffness of the pelvic floor as function of muscle length: A comparison between women with and without stress urinary incontinence (2007)

This study indicates that both active force development and active stiffness in the pelvic floor tissues are significantly reduced in incontinent women, whereas the passive resting mechanical forces in the pelvic floor tissues in both groups are not different.
(Acetato-κO)(acetato-κO,O′)bis(1,3-diazinane-2-thione-κS)cadmium(II) (2012)

In the title complex, [Cd(CH(3)COO)(2)(C(4)H(8)N(2)S)(2)], the Cd(II) cation is coordinated by three acetate O atoms and two S atoms of Diaz [Diaz = 1,3-diazinane-2-thione = 3,4,5,6-tetra-hydro-pyrimidine-2(1H)-thione]. The Cd(II) coordination is augmented by one considerably longer Cd-O bond of 2.782 (3) Å to a carboxyl-ate O atom. The resulting coordination polyhedron around the Cd(II) cations can be described as a highly distorted octa-hedron. The Diaz ligand and the acetate anions are linked by N-H⋯O hydrogen-bonding inter-actions.
Low b‐value diffusion tensor imaging for measuring pseudorandom flow of cerebrospinal fluid (2021)

From the viewpoint of the proposed framework, the high and anisotropic DT<sub>L</sub> in the ROIs indicates large covariance of velocity distribution, which represents intensive pseudorandom flows of CSF.
Improving the quality of randomized controlled trials in Chinese herbal medicine, Part Ⅲ: quality control of Chinese herbal medicine used in randomize (2006)

To improve quality control of CHM used in RCTs in future, we recommend developing and implementing guidelines such as Good Agricultural Practice (GAP) for Chinese crude drugs, and current Good Manufacturing Practice (GMP) specific to CHM products. Chemical analyses of individual herbs of CHM and combination products are also recommended to provide reference standards for quality control.
Multiaccess Interference Suppression in Orthogonal Space–Time Block Coded MIMO Systems by Adaptive Projected Subgradient Method (2008)

This paper introduces adaptive filters that are effective to suppress multiple access interference (MAI) in orthogonal space-time block coded/ multiple-input multiple-output (OSTBC-MIMO) systems. We define an optimal linear filter that minimizes the mean-square error between the filter output and a scaled version of the desired output under a constraint defined by the available channel state information (CSI). The adaptive filters refine a given estimate of the optimal filter by suppressing a sequence of closed convex functions with the adaptive projected subgradient method (APSM) at each iteration. To provide robustness against imperfect CSI, the adaptive filters use not only the available CSI but also estimates of previously transmitted symbols, which usually belong to a small finite set in digital communication systems. The resulting algorithms employ computationally efficient projections onto hyperplanes or hyperslabs and do not require any matrix inversion. An efficient recursive scheme based on such an algorithm is also presented. Convergence analysis and simulation results show the excellent performance of the proposed schemes.
Proteomics and Transcriptomics of the Hippocampus and Cortex in SUDEP and High-Risk SUDEP Patients (2021)

The SUDEP proteome and high-risk SUDEP transcriptome were similar to those in other patients with epilepsy in hippocampus and cortex, consistent with diverse epilepsy syndromes and comorbid conditions associated with SUDEP. Studies with larger cohorts and different epilepsy syndromes, as well as additional anatomic regions, may identify molecular mechanisms of SUDEP.
Supplementary Methods from Modulation of Target Antigen Density Improves CAR T-cell Functionality and Persistence (2023)

&lt;p&gt;Supplementary methods to paper&lt;/p&gt;
ChemInform Abstract: Resormycin, a Novel Herbicidal and Antifungal Antibiotic Produced by a Strain of Streptomyces platensis. Part 2. Structure Elucidation of Resormycin. (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.
Фрактальный анализ АСМ-изображений химически осажденных пленок Cu–Ga–Se (2013)

С использованием атомно-силовой микроскопии исследована морфология поверхности тонких пленок Cu–Ga–Se, полученных совместным гидрохимическим осаждением селенидов меди (I) Cu2Se и галлия Ga2Se3. С помощью фрактального анализа АСМ-изображений установлена зависимость между условиями осаждения тонких пленок Cu–Ga–Se и их фрактальной размерностью, рассчитанной методом подсчета кубов и методом триангуляции. Также предложен механизм формирования и роста пленок при гидрохимическом осаждении диселенида меди (I) и галлия.
Cooperative synchronization and channel estimation in wireless sensor networks (2004)

A critical issue in applications involving networks of wireless sensors is their ability to synchronize and mitigate the fading propagation channel effects. Especially when distributed "slave" sensors (nodes) reach-back to communicate with the "master" sensor (gateway), low-power cooperative schemes are well motivated. Viewing each node as an antenna element in a multi-input multi-output (MIMO) multi-antenna system, we design pilot patterns to estimate the multiple carrier frequency offsets (CFO), and the multiple channels corresponding to each node-gateway link. Our novel pilot scheme consists of non-zero pilot symbols along with zeros, which separate nodes in a TDMA fashion, and lead to low-complexity estimators because CFOs and channels per node are decoupled. The resulting training algorithm is not only suitable for wireless sensor networks, but also for synchronization and channel estimation of single-carrier MIMO systems. We investigate the performance of our estimators analytically, and with simulations.