gebhart/patrepeval huggingface dataset:
Novel Phenotypic Outcomes Identified for a Public Collection of Approved Drugs from a Publicly Accessible Panel of Assays (2015)

Phenotypic assays have a proven track record for generating leads that become first-in-class therapies. Whole cell assays that inform on a phenotype or mechanism also possess great potential in drug repositioning studies by illuminating new activities for the existing pharmacopeia. The National Center for Advancing Translational Sciences (NCATS) pharmaceutical collection (NPC) is the largest reported collection of approved small molecule therapeutics that is available for screening in a high-throughput setting. Via a wide-ranging collaborative effort, this library was analyzed in the Open Innovation Drug Discovery (OIDD) phenotypic assay modules publicly offered by Lilly. The results of these tests are publically available online at www.ncats.nih.gov/expertise/preclinical/pd2 and via the PubChem Database (https://pubchem.ncbi.nlm.nih.gov/) (AID 1117321). Phenotypic outcomes for numerous drugs were confirmed, including sulfonylureas as insulin secretagogues and the anti-angiogenesis actions of multikinase inhibitors sorafenib, axitinib and pazopanib. Several novel outcomes were also noted including the Wnt potentiating activities of rotenone and the antifolate class of drugs, and the anti-angiogenic activity of cetaben.
LSTM-Attention-Embedding Model-Based Day-Ahead Prediction of Photovoltaic Power Output Using Bayesian Optimization (2019)

Photovoltaic (PV) output is susceptible to meteorological factors, resulting in intermittency and randomness of power generation. Accurate prediction of PV power output can not only reduce the impact of PV power generation on the grid but also provide a reference for grid dispatching. Therefore, this paper proposes an LSTM-attention-embedding model based on Bayesian optimization to predict the day-ahead PV power output. The statistical features at multiple time scales, combined features, time features and wind speed categorical features are explored for PV related meteorological factors. A deep learning model is constructed based on an LSTM block and an embedding block with the connection of a merge layer. The LSTM block is used to memorize and attend the historical information, and the embedding block is used to encode the categorical features. Then, an output block is used to output the prediction results, and a residual connection is also included in the model to mitigate the gradient transfer. Bayesian optimization is used to select the optimal combined features. The effectiveness of the proposed model is verified on two actual PV power plants in one area of China. The comparative experimental results show that the performance of the proposed model has been significantly improved compared to LSTM neural networks, BPNN, SVR model and persistence model.
Persistent movement disorders following Japanese encephalitis (2001)

The authors report on movement disorders that persist for a long duration following Japanese encephalitis (JE). Fifteen patients with diagnosed JE were followed up after an interval of 3 to 5 years. Of the four patients with a movement disorder, two were children with severe generalized dystonia in whom MRI revealed bilateral thalamic lesions. The two adult patients had parkinsonism. MRI in both adult patients showed lesions confined to the substantia nigra. Viral antibody and antigen were absent in the CSF of all patients.
Total Synthesis of Mycalamide A and 7-epi-Mycalamide A (2000)

[formula: see text] The final stages of a total synthesis of mycalamide A are described. A key step is the aldol reaction (mismatched) of imide 4 and aldehyde 5 which provided a ca. 5:4 mixture of aldols 10a and 10b, with incorrect C(7) stereochemistry. Elaboration of the 10a-10b mixture to mycalamide A required epimerization of C(7) at the stage of beta-keto imide 11. Alternatively, Swern oxidation of the 10a-10b mixture under conditions that minimize C(7) epimerization led to 7-epi-mycalamide A selectively.
Impact of abiraterone acetate plus prednisone in patients with castration-sensitive prostate cancer and visceral metastases over four years of follow-up: A post-hoc exploratory analysis of the LATITUDE study (2021)

ClinicalTrials.gov, number NCT01715285.
<title>Trial of computer design on mole-type plate optics</title> (1994)

Usefulness of the Plate Optics with grooved base plates in constructing hologram recording equipments was reported in the previous paper. This paper reports an improved type of Plate Optics called Mole type Plate Optics, and proposes a simple computer-aided design for constructing optical systems on the Mole type Plate Optics.
Cognitive Overload and Orthographic Errors: When Cognitive Overload Enhances Subject–Verb Agreement Errors. A Study in French Written Language (1994)

Three experiments were carried out to test the hypothesis that cognitive overload enhances the occurrence of subject-verb agreement errors in French. Highly educated adults were presented orally with sentences they were required to write down. The sentences were of the types “N1 de N2 V” (Noun 1 of Noun 2 Verb: Le chien des voisins arrive/The neighbours’ dog is arriving) versus “Prl Pr2 V” (Pronoun 1 Pronoun 2 Verb: Il les aime/He likes them). In these sentences, N1 (Pr1) and N2 (Pr2) matched or mismatched in number. In the three experiments, the sentences had to be recalled either in an isolated condition (i.e. every presented sentence had to be immediately recalled) or with a concurrent task: click counting (Experiment 2) or serial recall of series of five words presented immediately after the sentences (Experiments 1 and 3). Participants showed errors when performing two concurrent tasks and almost no error when recalling isolated sentences. As expected, errors occurred when N1 (Pr1) and N1 (Pr2) mismatched in number. The results are consistent with our hypothesis and with a functional approach of written composition.
[Immune status of patients with exacerbation of chronic suppurative otitis media and its correction]. (2010)

The authors report results of a clinical and immunological study involving 38 patients with exacerbation of chronic suppurative otitis media. It has demonstrated high immunological and clinical efficiency of combined treatment with derinate (an agent stimulating local immunity) and high molecular-weight polypeptide polyoxidonium. It is concluded that inclusion of these drugs in combined therapy of chronic suppurative otitis media increases its immunological and clinical effectiveness and allows duration of patients' hospitalization to be reduced.
A molecularly imprinted polymer for the pesticide bentazone (1999)

Polymers able to bind the pesticide bentazone were prepared by utilising the technique of the non-covalent molecular imprinting polymerisation and using different molar ratios of methacrylic acid and 4-vinylpyridine as interacting monomers. Polymers obtained were packed in HPLC columns and the imprinting effect was studied using chloroform and acetonitrile as mobile phase. The polymer obtained from equimolar amounts of methacrylic acid and 4-vinylpyridine was found to recognise bentazone better than other polymers, both in chloroform and acetonitrile. The bentazone capacity for this stationary phase was studied considering aqueous buffers with different pH values and ionic strengths. A preliminary procedure of solid phase extraction was tested on aqueous samples containing a fixed amount of bentazone. Good recoveries (91–96%) and concentration factors of 3.2–15.2 were found.
Size Effects on Magnetic Actuation in Ni‐Mn‐Ga Shape‐Memory Alloys (2010)

The off-stoichiometric Ni(2)MnGa Heusler alloy is a magnetic shape-memory alloy capable of reversible magnetic-field-induced strains (MFIS). These are generated by twin boundaries moving under the influence of an internal stress produced by a magnetic field through the magnetocrystalline anisotropy. While MFIS are very large (up to 10%) for monocrystalline Ni-Mn-Ga, they are near zero (<0.01%) in fine-grained polycrystals due to incompatibilities during twinning of neighboring grains and the resulting internal geometrical constraints. By growing the grains and/or shrinking the sample, the grain size becomes comparable to one or more characteristic sample sizes (film thickness, wire or strut diameter, ribbon width, particle diameter, etc), and the grains become surrounded by free space. This reduces the incompatibilities between neighboring grains and can favor twinning and thus increase the MFIS. This approach was validated recently with very large MFIS (0.2-8%) measured in Ni-Mn-Ga fibers and foams with bamboo grains with dimensions similar to the fiber or strut diameters and in thin plates where grain diameters are comparable to plate thickness. Here, we review processing, micro- and macrostructure, and magneto-mechanical properties of (i) Ni-Mn-Ga powders, fibers, ribbons and films with one or more small dimension, which are amenable to the growth of bamboo grains leading to large MFIS, and (ii) "constructs" from these structural elements (e.g., mats, laminates, textiles, foams and composites). Various strategies are proposed to accentuate this geometric effect which enables large MFIS in polycrystalline Ni-Mn-Ga by matching grain and sample sizes.
Structured Sparsity: Discrete and Convex approaches (2015)

Compressive sensing (CS) exploits sparsity to recover sparse or compressible signals from dimensionality reducing, non-adaptive sensing mechanisms. Sparsity is also used to enhance interpretability in machine learning and statistics applications: While the ambient dimension is vast in modern data analysis problems, the relevant information therein typically resides in a much lower dimensional space. However, many solutions proposed nowadays do not leverage the true underlying structure. Recent results in CS extend the simple sparsity idea to more sophisticated {\em structured} sparsity models, which describe the interdependency between the nonzero components of a signal, allowing to increase the interpretability of the results and lead to better recovery performance. In order to better understand the impact of structured sparsity, in this chapter we analyze the connections between the discrete models and their convex relaxations, highlighting their relative advantages. We start with the general group sparse model and then elaborate on two important special cases: the dispersive and the hierarchical models. For each, we present the models in their discrete nature, discuss how to solve the ensuing discrete problems and then describe convex relaxations. We also consider more general structures as defined by set functions and present their convex proxies. Further, we discuss efficient optimization solutions for structured sparsity problems and illustrate structured sparsity in action via three applications.
Suppl Fig 3 from Targeting the Inducible T-cell Costimulator (ICOS) in Patients with Relapsed/Refractory T-follicular Helper Phenotype Peripheral T-cell and Angioimmunoblastic T-cell Lymphoma (2023)

&lt;p&gt;Supplemental Figure 3. Representative baseline pre-treatment tumor specimen of a patient with AITL (H&amp;E, ICOS staining and CD3 staining by IHC)&lt;/p&gt;
A Compliant Rolling Contact Joint and Its Application in a 3-DOF Planar Parallel Mechanism With Kinematic Analysis (2004)

This paper first presents the concept and the fabrication of a new type of compliant rolling joint which combines the advantages of compliant mechanisms with those of rolling link mechanisms. In this joint, flexible bands create the necessary constraints to enforce a rolling movement between two links. Then, the rapid prototyping techniques used for the compliant rolling joint fabrication are described. The kinematics of one application of this joint in a 3-DOF planar parallel mechanism are then presented. A semigraphical method was used to find the solutions to the inverse kinematic problem. Finally, the workspace analysis and the velocity equations are presented.
The effect of some benzimidazoles on the disposition of antipyrine and tolbutamide from the rat isolated perfused liver (1985)

The anthelmintic benzimidazoles, mebendazole, albendazole and flubendazole have been screened for any propensity to alter the disposition of antipyrine and tolbutamide in the rat isolated perfused liver preparation. The benzimidazoles were added as a 2.5 mg bolus dose into the perfusate reservoir 5 min before the administration of either antipyrine or tolbutamide. Neither mebendazole or albendazole produced any significant effect on the pharmacokinetics of either of the substrate drugs. In contrast, flubendazole significantly decreased the clearance of antipyrine (by 40%) indicating inhibition of mixed function oxidase activity. However, flubendazole did not alter the disposition of tolbutamide. The results suggest that not all benzimidazoles inhibit hepatic drug metabolizing enzymes and that different forms of cytochrome P-450 are involved in the metabolism of antipyrine and tolbutamide.
Influence of plaque calcium on neointimal hyperplasia following bare metal and drug‐eluting stent implantation (2006)

These results suggest that while plaque calcium may influence NIH following BMS implantation, NIH suppression using DES does not appear to be affected by the presence or location of calcium.
Flow Control in a Compressor Cascade at High Incidence (2010)

Flow control has been applied on the suction surface of blades within a compressor cascade to remove a turbulent boundary-layer separation that occurs at an incidence of 12.5°. Vortex generator jets and boundary-layer suction through discreet holes have each been applied to the suction surface to push the point of separation from 54% chord to the trailing edge. Corner separations also occurring at this incidence have been controlled by means of endwall suction. The mixed-out stagnation-to-stagnation pressure loss coefficient was measured in each case tested. The measured loss coefficients were used, together with an endwall suction-loss coefficient and a boundary-layer control loss coefficient, to estimate the total loss coefficient for a compressor blade with a representative aspect ratio of 3.5. For such a blade, endwall suction and vortex generator jets on the suction surface were found to yield a 20% reduction in the total loss coefficient relative to the uncontrolled case. Endwall suction, together with boundary-layer suction on the suction surface, was found to yield a 33% reduction in the total loss coefficient. Flow control was also applied to the suction surface at a range of incidences from 0 to 15.5°. Only boundary-layer suction was able to achieve a loss reduction at 15.5°.
A pharmacokinetic evaluation of oral edivoxetine hydrochloride for the treatment of attention deficit-hyperactivity disorder (2014)

Available data suggest edivoxetine is safe and well tolerated. Edivoxetine is readily absorbed with metabolism proceeding through the CYP hepatic enzyme pathway, with CYP2D6 and CYP3A4 playing the most prominent roles. The tmax is ∼ 2 h post-dose, and the plasma t1/2 is ∼ 4 - 6 h irrespective of the dose. Pharmacokinetic parameters are not substantially different between children and adults. Edivoxetine may be a promising non-stimulant therapeutic agent. However, at present, there is insufficient data available to permit a thorough analysis of its potential place in ADHD pharmacotherapy, or how its PK and pharmacodynamics may differ in clinically meaningful ways from existing agents.
Hypersonic Phononic Crystals (2005)

In this Letter we propose the use of hypersonic phononic crystals to control the emission and propagation of high frequency phonons. We report the fabrication of high quality, single crystalline hypersonic crystals using interference lithography and show that direct measurement of their phononic band structure is possible with Brillouin light scattering. Numerical calculations are employed to explain the nature of the observed propagation modes. This work lays the foundation for experimental studies of hypersonic crystals and, more generally, phonon-dependent processes in nanostructures.
Concurso Campus 2008 CEDIM Monterrey. Leyendo (sobre) el paisaje de Rio. (2006)

Peroxisome proliferator-activated receptor (PPAR)-gamma agonists such as troglitazone, pioglitazone and thiazolidine have been shown to induce apoptosis in human colon cancer cells. The molecular mechanism of PPARgamma agonist-induced apoptosis of colon cancer cells, however, is not clear. Glycogen synthase kinase-3beta (GSK-3beta) is an indispensable element for the activation of nuclear factor-kappa B (NF-kappaB) which plays a critical role in the mediation of survival signals in cancer cells. To investigate the mechanisms of PPARgamma agonist-induced apoptosis of colon cancer cells, we examined the effect of troglitazone (0-16muM) on the activation of GSK-3beta and NF-kappaB. Our study showed that the inhibitory effect of troglitazone on colon cancer cell growth was associated with inhibition of NF-kappaB activity and GSK-3beta expression in a dose-dependent manner. Cells were arrested in G(0)/G(1) phase followed by the induction of apoptosis after treatment of troglitazone with concomitant decrease in the expression of the G(0)/G(1) phase regulatory proteins; Cdk2, Cdk4, cyclin B1, D1, and E as well as in the anti-apoptosis protein Bcl-2 along with an increase in the expression of the pro-apoptosis-associated proteins; Caspase-3, Caspase-9 and Bax. Transient transfection of GSK-3beta recovered troglitazone-induced cell growth inhibition and NF-kappaB inactivation. In contrast, co-treatment of troglitazone with a GSK-3beta inhibitor (AR-a014418) or siRNA against GSK-3beta, significantly augmented the inhibitory effect of troglitazone on the NF-kappaB activity, the cancer cell growth and on the expression of G(0)/G(1) phase regulatory proteins and pro-apoptosis regulatory proteins. These results suggest that the PPARgamma agonist, troglitazone, inhibits colon cancer cell growth via inactivation of NF-kappaB by suppressing GSK-3beta activity.
Crystallization of Nuclear Waste Disposal Glass (1980)

The rate of bulk crystallization and shear viscosity η of a zinc borosilicate simulated nuclear waste disposal glass (SNWDG) were measured above the glass transition temperature T g . Using recent theories and experimental data for the temperature dependence of η at &lt; T g , the crystallization rate below T g was calculated; well below T g the SNWDG (and, more generally, any high‐silica glass) will not crystallize appreciably over any important time period for radioactive decay of fission products.
Temperature Tunable Micellization of Polystyrene-block-poly(2-vinylpyridine) at Si−Ionic Liquid Interface (2010)

Highly ordered and stable micelles formed from both symmetric and asymmetric block copolymers of polystyrene-block-poly(2-vinylpyridine) (PS-b-P2VP) at the Si-ionic liquid (IL) interface have been investigated by scanning force microscopy (SFM) and transmission electron microscopy (TEM). The 1-butyl-3-methylimidazolium trifluoromethanesulfonate IL, a selective and temperature-tunable solvent for the P2VP block, was used and gave rise to block copolymer micelles having different morphologies that strongly depended on the annealing temperature. The effects of film thickness, molecular weight of block copolymers, and experimental conditions, such as preannealing, rinsing, and substrate properties, on the morphologies of block copolymer micelles were also studied. In addition, spherical micelles consisting of PS core and P2VP shell could also be obtained by core-corona inversion by annealing the as-coated micellar film in the IL at high temperatures. The possible mechanism for micelle formation is discussed.
Optical control over bioactive ligands at supramolecular surfaces (2014)

In this communication we report for the first time the use of azobenzene modified glycoconjugates to establish optical control over bioactive ligands at a supramolecular β-cyclodextrin (β-CD) surface. Several studies were conducted to investigate the photoresponsive immobilization of proteins and bacteria on these supramolecular surfaces.
In situassembly of gold nanoparticles on nitrogen-doped carbon nanotubes for sensitive immunosensing of microcystin-LR (2010)

A simple and green method was developed for in situ assembly of gold nanoparticles on nitrogen-doped carbon nanotubes, and the resulting Au/nitrogen-doped carbon nanotubes nanocomposite was used as an immobilization scaffold of antibody for sensitive immunosensing of microcystin-LR.
Technology evaluation: ABX-EGF, Abgenix/Amgen. (2003)

Abgenix and Amgen (formerly Immunex) are developing ABX-EGF, a human monoclonal antibody against the epidermal growth factor receptor, for potential use in the treatment of cancer. ABX-EGF is undergoing phase II trials in patients with renal, colorectal, prostate and non-small-cell lung cancers. By July 2002, phase III trials for these indications were planned to start in 2003.
Epigenetic mechanisms for nutrition determinants of later health outcomes (2020)

Epigenetic marking on genes can determine whether or not genes are expressed. Epigenetic regulation is mediated by the addition of methyl groups to DNA cytosine bases, of methyl and acetyl groups to proteins (histones) around which DNA is wrapped, and by small interfering RNA molecules. Some components of epigenetic regulation have evolved to permit control of whether maternal or paternal genes are expressed. The epigenetic imprinting of IGF2 expression is an example of maternal and paternal epigenetic marking that modulates fetal growth and fetal size. However, epigenetic regulation also permits the fetus and the infant to adapt gene expression to the environment in which it is growing; sometimes when this adjustment goes awry, the risk of chronic disease is increased. Recent progress in the understanding of nutritional influences on epigenetics suggests that nutrients that are part of methyl-group metabolism can significantly influence epigenetics. During critical periods in development, dietary methyl-group intake (choline, methionine, and folate) can alter DNA and histone methylation, which results in lifelong changes in gene expression. In rodent models, pregnant dams that were fed diets high in methionine, folic acid, and choline produced offspring with different coat colors or with kinked tails. A number of syndromes in humans can be caused by defective epigenetic regulation, including Rett syndrome. There are interesting examples of the effects of nutrition in early life that result in altered health in adults, and some of these could be the result of altered epigenetic regulation of gene expression.
Motion compensated coronary interventional navigation by means of diaphragm tracking and elastic motion models (2005)

Current catheter tracking in the x-ray catheter laboratory during coronary interventions is performed using 2D fluoroscopy. Although this features real-time navigation on high-resolution images, drawbacks such as overlap and foreshortening exist and hamper the diagnosis and treatment process. An alternative to fluoroscopy-based tracking is device tracking by means of a magnetic tracking system (MTS). Having measured the 3D location of the interventional device, its position can be reconstructed on 3D images or virtual roadmaps of the organ or vessel structure under examination. In this paper, a method is presented which compensates the interventional device location measured by the MTS for organ motion and thus registers it dynamically to a 3D virtual roadmap. The motion compensation is accomplished by using an elastic motion model which is driven by the ECG signal and a respiratory sensor signal derived from ultrasonic diaphragm tracking. The model is updated during the intervention itself, thus allowing for a local refinement in regions which bear a complex geometric structure, such as stenoses and bifurcations. The evaluation is done by means of a phantom-based study using a dynamic heart-phantom. The mean displacement caused by the overall motion of the heart is improved from 10.4+/-4.8 mm in the uncompensated case to 2.1+/-1.2 mm in the motion compensated case.