gebhart/patrepeval huggingface dataset:
Silica nanofibers as a new drug delivery system: a study of the protein–silica interactions (2017)

Drug delivery systems are proposed for the in situ controlled delivery of therapeutic molecules in the scope of tissue engineering. We propose herein silica nanofibers as carriers for the loading and release of bioactive proteins. The influence of pH, time and concentration on the amount of adsorbed proteins was studied. The interactions allowing loading were then studied by means of electron microscopy, zeta potential measurements, electron energy loss spectroscopy and attenuated total reflectance Fourier transform infrared analysis. Release profiles were determined and biological activities were enzymatically assessed. The first part of the work was carried out with lysozyme as a model protein, and then bioactive growth factors TGF-β1 and GDF-5 were used because their significance in human adipose stromal cell differentiation towards intervertebral disc nucleopulpocytes was previously assessed. It is demonstrated that protein-silica nanofiber interactions are mainly driven by hydrogen bonds and local electrostatic interactions. The present data thus provide a better understanding of the adsorption phenomenon involved, as well as a method to control protein adsorption and release. It is worth pointing out that the kinetic release of growth factors, up to 28 days, and their biological activity maintenance seem to be compatible with intervertebral disc regenerative medicine.
Spectral Estimation of Voiced Speech using a Family of MVDR Estimates (2007)

We present a robust approach to modeling voiced speech using a family of minimum variance distortionless response (MVDR) spectral estimates. The method exploits the fact that for a fixed model order, for a sinusoidal signal in noise, the MVDR estimate at the sinusoidal frequency is approximately related to the sinusoidal and noise power in a simple linear manner with the coefficients being dependent on the model order. Modeling voiced speech as a sum of harmonic signals, we then use the aforementioned relationship along with a least squares approach to combine a family of MVDR estimates (MVDR estimates of different orders) and develop a robust approach for modeling voiced speech. Experimental results of spectral estimation of sinusoids, synthetic vowels, and actual speech signals at SNR of 0 dB and 5 dB using this approach indicate an increased resolution in the estimated MVDR spectra. The MFCC computed from the MVDR spectra using this approach are also used for speaker identification experiments on the TEMIT database at various SNR. The results indicate a reasonable improvement in recognition performance when compared to the MFCC and the fixed order MVDR-MFCC.
Structure-activity relationships of acridine derivatives via click chemistry: A novel class of G-quadruplex binding ligands (2008)

AACR Annual Meeting-- Apr 12-16, 2008; San Diego, CA

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Besides Watson-Crick duplex structures, DNA can adopt other topologies during replication, transcription, recombination and damage repair processes. Of particular interest are the higher-order topologies, termed G-quadruplexes, formed by the planar arrangement of four hydrogen bonded guanine bases. These G-rich sequences are found at the ends of telomeric DNA in eukaryotic chromosomes and have the potential to cause instability at chromosome ends, leading to senescence and apoptopsis in cancer cells. A number of small molecules are capable of trapping and stabilizing the 3’ single-stranded overhang of telomeric DNA as these G-quadruplex structures disrupt the binding of telomerase and associated telomere maintenance. G-quadruplex forming motifs are also found in the promoter regions of many oncogenes (for example in the genes c-myc and c-kit ) and they may be involved in the control of cell growth and proliferation. A large number of small molecules, based on planar tricyclic chromophores, have previously been shown to be effective stabilisers of quadruplex DNA and inhibitors of telomerase activity in vitro . We have been developing ligands based on the acridine moiety, a proven quadruplex-binding motif, since acridines typically have favourable pharmacological features, especially good cellular uptake. A novel library of acridine derivatives has been devised, using click chemistry as a strategic synthetic approach, for the obtainment of readily available complex molecules in high yield. The introduction of the triazole ring, generated by the Huisgen 1,3-dipolar cycloaddition click reaction of acridine bis-azides and a library of substituted alkynes, was designed to enhance, along with the acridine scaffold, favourable π-stacking interactions with the central area of the G-tetrad plane in a quadruplex. Compounds have been evaluated for quadruplex selectivity by a FRET-based binding assay, and by surface plasmon resonance (SPR) methods. Their effects on a panel of cancer cell lines, known to express telomerase, and a normal fibroblast cell line, will also be reported.
Copper‐lowering therapy with tetrathiomolybdate for cancer and diseases of fibrosis and inflammation (2003)

Abstract Angiogenesis is required for tumor growth and is a likely Achilles heel for cancer. However, antiangiogenic agents have been somewhat disappointing in cancer therapy, perhaps because they target a single angiogenic factor, and there is much redundancy in angiogenic systems. Copper is required for high levels of angiogenesis, and many angiogenic factors have a requirement for copper. Thus, anticopper drugs offer the possibility of more global inhibition. Our group has developed tetrathiomolybdate (TM) for the initial treatment of neurologic Wilson's disease. Penicillamine makes about 50% of these patients neurologically worse, and many never recover. Only 2 of 55 (3.6%) patients worsened when treated with TM. Because TM exhibited desirable properties of potency, speed, and safety, we studied it as an antiangiogenic agent. We hypothesize that if copper is lowered to midrange, the cellular requirements for copper are met, but angiogenic cytokine signaling is inhibited. TM has shown strong inhibition of cancer growth in five rodent models, encouraging results in a canine study of advanced and metastatic cancer, and encouraging results in a phase 1/2 study of advanced and metastatic cancer in 42 patients. Finally, we have hypothesized that the pathway of fibrosis involving transforming growth factor beta (TGF‐β) and connective tissue growth factor is inhibitable by copper‐lowering therapy with TM. This pathway is overactive and dysregulated in many diseases of fibrosis. In animal studies, TM has completely inhibited the pulmonary fibrosis induced by bleomycin, the hepatitis induced by concanavalin A, and the cirrhosis induced by carbon tetrachloride. We find that TM inhibits transforming growth factor beta and inflammatory cytokines tumor necrosis factor alpha and interleukin‐1‐beta. J. Trace Elem. Exp. Med. 16:191–199, 2003. © 2003 Wiley‐Liss, Inc.
Comparative modeling of human NSF reveals a possible binding mode of GABARAP and GATE‐16 (2009)

Vesicular trafficking is an important homeostatic process in eukaryotic cells which critically relies on membrane fusion. One of the essential components of the universal membrane fusion machinery is NSF (N-ethylmaleimide-sensitive factor), a large hexameric ATPase involved in disassembly of SNARE (soluble NSF attachment protein receptor) complexes. To improve our understanding of this sophisticated molecular machine, we have modeled the structure of the NSF hexamer in two alternative assemblies. Our data suggest a mechanistic concept of the operating mode of NSF which helps to explain the functional impact of post-translational modifications and mutations reported previously. Furthermore, we propose a binding site for the ubiquitin-like proteins GABARAP and GATE-16, which is supported by experimental evidence, yielding a complex with favorable surface complementarity.
Non-Newtonian modeling of contact pressure in fused filament fabrication (2020)

The nozzle pressure was monitored in a fused filament fabrication process for the printing of high impact polystyrene. The contact pressure, defined as the pressure applied by the newly deposited layer onto the previous layer, is experimentally calculated as the difference between the pressure during printing and open discharge at the same volumetric flow rates. An analytical method for estimating the contact pressure, assuming one-dimensional steady isothermal flow, is derived for the Newtonian, power-law, and Cross model dependence of shear rates. A design of experiments was performed to characterize the contact pressure as a function of the road width, road height, and print speed. Statistical analysis of the results suggests that the contribution of the pressure driven flow is about twice that of the drag flow in determining contact pressure, which together describe about 60% of the variation in the observed contact pressure behavior. Modeling of the elastic and normal stresses at the nozzle orifice explains an additional 30% of the observed behavior, indicating that careful rheological modeling is required to successfully predict contact pressure.
Three‐Dimensional Synthetic Polymers (2007)

This chapter contains sections titled: Saturated Polyesters (Alkyd Resins) Unsaturated Polyesters (UP) Phenoplasts (Phenol-Formaldehyde Polymers, PF Resins) Aminoplasts (Amino Resins) Polyurethanes (PUR) Polyepoxides or Epoxy Resins (EP) Polysiloxanes (Three-Dimensional Silicones) (SI) Literature
Radiographic assessment of snap-shunt failure (2010)

Accurate assessment of imaging studies in patients with ventriculoperitoneal shunts can be aided by empirical findings. The authors characterize an objective measurement easily performed on head CT scans with the goal of producing clear evidence of shunt fracture or disconnection in patients with a snap shunt-type system. The authors describe 2 cases of ventriculoperitoneal shunt failure involving a fracture and a disconnection associated with a snap-shunt assembly. In both cases the initial clinical symptoms were not convincing for shunt malfunction, and the interpretation of the CT finding failed to immediately identify the abnormality. As the clinical picture became more convincing for shunt malfunction, each patient subsequently underwent successful shunt revision. The authors reviewed the CT scans of 10 patients with an intact and functioning snap-shunt system to characterize the normal appearance of the snap-shunt connection. On CT scans the distance between the radiopaque portion of the ventricular catheter and the radiopaque portion of the reservoir dome measures an average of 4.72 mm (range 4.6-4.9 mm, 95% CI 4.63-4.81 mm). In the authors' patient with a fractured ventricular catheter, this interval measured 7.8 mm, and in the patient with a disconnection it measured 7.7 mm. In comparison with the range of normal values, a radiolucent interval significantly greater than 4.9 mm should promptly raise concern for a disconnected or fractured shunt in this system. This measurement may prove particularly useful when serial imaging is not readily available.
Measuring Interprofessional Collaboration’s Impact on Healthcare Services Using the Quadruple Aim Framework: A Protocol Paper (2023)

Despite decades of research on the impact of interprofessional collaboration (IPC), we still lack definitive proof that team-based care can lead to a tangible effect on healthcare outcomes. Without return on investment (ROI) evidence, healthcare leaders cannot justifiably throw their weight behind IPC, and the institutional push for healthcare manpower reforms crucial for facilitating IPC will remain variable and fragmentary. The lack of proof for the ROI of IPC is likely due to a lack of a unifying conceptual framework and the over-reliance on the single-method study design. To address the gaps, this paper describes a protocol which uses as a framework the Quadruple Aim which examines the ROI of IPC using four dimensions: patient outcomes, patient experience, provider well-being, and cost of care. A multimethod approach is proposed whereby patient outcomes are measured using quantitative methods, and patient experience and provider well-being are assessed using qualitative methods. Healthcare costs will be calculated using the time-driven activity-based costing methodology. The study is set in a Singapore-based national and regional center that takes care of patients with neurological issues.
A SHORT SYNTHESIS OFar-TODOMATUIC ACID AND DIHYDRO-ar-TURMERONE BY THE HECK REACTION (2003)

(2003). A SHORT SYNTHESIS OF ar-TODOMATUIC ACID AND DIHYDRO-ar-TURMERONE BY THE HECK REACTION. Organic Preparations and Procedures International: Vol. 35, No. 4, pp. 418-420.
Resolution of anisometropic amblyopia in a 48‐year‐old with refractive correction alone (2016)

Amblyopia is a neuro‐developmental disorder of vision arising from disrupted binocular visual input during early visual cortical development. Current treatment guidelines for children with amblyopi...
Resonant power factor correction circuits with resonant capacitor-voltage and inductor-current-programmed controls (2002)

It is shown that, by using the control techniques proposed, one can use current driven resonant power converter topologies in designing resonant power factor correction circuits (RPFCCs). Based on the fact that the energy stored in the resonant tank circuit can be programmable, two types of control techniques that allow for fast output regulation are reported. These techniques are known as resonant tank capacitor-voltage-programmed control and inductor-current-programmed control. A design example based on the resonant capacitor-voltage-programmed control technique and computer simulations is given.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Molecular Electoronics. Laser Applications of Dendrimers. (2001)

レーザー発振は, 発光材料の光化学だけでなく光学系の空間制御をあわせて考察する必要がある.本報告では, デンドリマーを含む均一な発光媒体がデンドリマーの凝集によって発生する空間構造と光が結合することによって局所的にレーザー発振を引き起こすことを述べた.多重散乱によって発生する疑似境界と光学フードバックに関しては, さらに詳細を検討する必要があるが, 色素を高濃度で発光収率を下げないでドープ出来るというデンドリマー技術が基本にあることは確かである.この特性を利用すると, ランダム・マイクロレーザーやフォトニック・クリスタルと呼ばれるような微小デバイスへの展開が期待できる.また, デンドリマー構造自体が光学的に別の働きをしていることが明らかになった.本来4.5nm程度の高分子が光学的に特性に関与することは, 考えにくいことであったが, デンドリマーのように均一なナノサイズの構造を持たせることによって, 2節で述べたような新たな現象が発現してきたのである.ナノサイズの物性が, これまでの分子単体の特性やバルクの性質だけからは, 推定できない事を示す典型的な例であると考えられる.
Measurement of $$Z\gamma \gamma $$ production in pp collisions at $$\sqrt{s}= 13$$ TeV with the ATLAS detector (2023)

Abstract Cross-sections for the production of a Z boson in association with two photons are measured in proton–proton collisions at a centre-of-mass energy of 13 TeV. The data used correspond to an integrated luminosity of 139 fb $$^{-1}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:msup> <mml:mrow/> <mml:mrow> <mml:mo>-</mml:mo> <mml:mn>1</mml:mn> </mml:mrow> </mml:msup> </mml:math> recorded by the ATLAS experiment during Run 2 of the LHC. The measurements use the electron and muon decay channels of the Z boson, and a fiducial phase-space region where the photons are not radiated from the leptons. The integrated $$Z(\rightarrow \ell \ell )\gamma \gamma $$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>Z</mml:mi> <mml:mo>(</mml:mo> <mml:mo>→</mml:mo> <mml:mi>ℓ</mml:mi> <mml:mi>ℓ</mml:mi> <mml:mo>)</mml:mo> <mml:mi>γ</mml:mi> <mml:mi>γ</mml:mi> </mml:mrow> </mml:math> cross-section is measured with a precision of 12% and differential cross-sections are measured as a function of six kinematic variables of the $$Z\gamma \gamma $$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>Z</mml:mi> <mml:mi>γ</mml:mi> <mml:mi>γ</mml:mi> </mml:mrow> </mml:math> system. The data are compared with predictions from MC event generators which are accurate to up to next-to-leading order in QCD. The cross-section measurements are used to set limits on the coupling strengths of dimension-8 operators in the framework of an effective field theory.
Biomimetic MRI Contrast Agent for Imaging of Inflammation in Atherosclerotic Plaque of ApoE−/− Mice (2009)

This study demonstrates the efficacy of F-P717 as a new molecular imaging agent for noninvasive in vivo MRI location of inflammatory vascular tree lesions in ApoE-/- mice.
Interaction of D dopamine and ETB endothelin receptors in renal proximal tubule and vascular smooth muscle (2005)

enough to reduce macroalbuminuria and additional effects of losartan are crucial for the antiproteinuric action.
Quantum and classical information processing with a single quantum dot in photonic crystal cavity (2010)

The experiments show that the coupled QD-cavity system is a promising candidate for probing CQED as well as for optical information processing. Our present work includes building of a three level system in a QD coupled to cavity, which is essential for construction of any quantum information processing devices.
TH-C-T-6C-01: A Collapsed-Cone Convolution/superposition Dose Computation Algorithm for Sliding Window Beams (2005)

Purpose: An algorithm was developed to compute the incident energy fluence array used when computing dose for a Sliding Window beam using the collapsed-cone convolution/superposition (CCCS) dose computation algorithm. Method and Materials: The first step of a CCCS dose computation is the computation of the energy fluence array incident on the patient. The incident energy fluence array computation for a Sliding Window beam is the product of an opening density array (an integration over space-time of the multi-leaf collimator (MLC) leaf trajectories) and an open-field energy fluence array. An opening density represents the fraction of the time a pixel is exposed during treatment (i.e. not covered by the MLC leaves). Models of the MLC leaf end shape, tongue-and-groove and interleaf leakage effects are used by the algorithm. For an MLC with rounded leaf ends, partial transmission based on the leaf end profile model is applied to the areas that are covered by the rounded tip of an MLC leaf. Transmission corresponding to half of the leaf thickness is applied to the areas that are covered by only the tongue or the groove of a leaf. Interleaf leakage is applied to the areas that are covered by the tongue of a leaf and the groove of an adjacent (or opposing adjacent) leaf. Linear accelerator head scatter effects are also taken into account by convolving the head scatter array by the total transmission array (opening density array + leaf transmission array). Results: The algorithm to compute dose for a Sliding Window was implemented and released in a commercial treatment planning system. Validation results showed point dose measurement accuracy of 4 % or better in the high dose areas. Conclusion: The Sliding Window CCCS dose computation algorithm meets the AAPM TG 53 dose accuracy criteria (Med Phys, 25, 1773–1829).
NOC Chemistry for Tuberculosis—Further Investigations on the Structure–Activity Relationships of Antitubercular Isoxazole‐3‐carboxylic Acid Ester Derivatives (2010)

NOC, NOC! Who's there? We have expanded the body of structure–activity relationships (SAR) regarding the 3-isoxazolecarboxylic acid ethyl esters by the design and synthesis of 5-aryl- and 5-[(N-aryl)amino]methyl analogues. Compounds were active against Mycobacterium tuberculosis (Mtb) at sub-micromolar concentrations and, for selected compounds, no toxicity was observed on Vero cells. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. Please note: The publisher is not responsible for the content or functionality of any supporting information supplied by the authors. Any queries (other than missing content) should be directed to the corresponding author for the article.
Electron Microscopy of a Plant-Pathogenic Virus in the Nervous System of Its Insect Vector (1967)

The central nervous system of wound tumor virus (WTV)-infected Agallia constricta was studied by electron microscopy to obtain information concerning the virus distribution in the nervous system. Wound tumor virions were mostly found in the cytoplasm of the ganglion cells and less frequently in the glial cells. WTV was occasionally observed in the perineurium cells, nerve axons, tracheoblasts, and lateral nerves. In the ganglion cells, virions appeared as individual isolated particles (V(1)), in tubular formation (V(2)), and occasionally in aggregates (V(3)). In the glial cells, the virions were mostly seen in the V(3) formation, and very seldom in the V(1) and V(2) formations. In the perineurium cells and tracheoblasts, only small V(3) formations were observed. The isolated virions were usually surrounded with polyribosomes, and often appeared around the foci of the viroplasm. Sometimes degenerating ganglion cells infected with the WTV were encountered. These damaged cells strongly indicated that WTV exerted a cytopathogenic effect on the nerve cells.
Multimodal HDAC Inhibitors with Improved Anticancer Activity (2017)

Histone deacetylases (HDACs) play a significant role in the proliferation and dissemination of cancer and represent promising epigenetic drug targets. The HDAC inhibitor vorinostat featuring a zinc-binding hydroxamate fragment was already clinically approved. However, HDAC inhibitors containing hydroxamic acids are often hampered by acquired or intrinsic drug resistance and may lead to enhanced tumor aggressiveness. In order to overcome these drawbacks of hydroxamate HDAC inhibitors, a series of multimodal derivatives of this compound class, including such with different zinc-binding groups, was recently developed and showed promising anticancer activity. This review provides an overview of the chemistry and pleiotropic anticancer modes of action of these conceptually new HDAC inhibitors.
1H NMR‐based metabonomic applications to decipher gut microbial metabolic influence on mammalian health (2011)

Recent advances in molecular biology and microbiology have increased awareness on the importance of the gut microbiota to the overall mammalian host's health status. There is therefore increasing interest in nutrition research to characterise the molecular foundations of the gut microbial mammalian crosstalk at both physiological and biochemical pathway levels. Tackling these challenges can be achieved through systems biology strategies based on the measurement of metabolites to assess the highly complex metabolic exchanges between diverse biological compartments, including organs, biofluids and microbial symbionts. By opening a direct biochemical window into the metabolome, metabonomics is uniquely suited for the identification of biomarkers providing better understanding of these complex metabolic processes. Recent applications of top-down system biology based on (1)H NMR spectroscopy coupled to advanced chemometric modelling approaches provided compelling evidence that system-wide and organ-specific changes in biochemical processes may be finely tuned by gut microbial activities. This review aims at describing current advances in NMR-based metabonomics where the main objective is to discern the molecular pathways and biochemical mechanisms under the influence of the gut microbiota. Furthermore, emphasis is given on nutritional approaches, where the quest for homeostatic balance is dependent not only on the host but also on the nutritional modulation of the gut microbiota-host metabolic interactions, using, for instance, probiotics and prebiotics.