gebhart/patrepeval huggingface dataset:
Rate-distortion optimal fast thresholding with complete JPEG/MPEG decoder compatibility (1994)

We show a rate-distortion optimal way to threshold or drop the DCT coefficients of the JPEG and MPEG compression standards. Our optimal algorithm uses a fast dynamic programming recursive structure. The primary advantage of our approach lies in its complete compatibility with standard JPEG and MPEG decoders.
Interleukin-6 Overexpression Induces Pulmonary Hypertension (2008)

Inflammatory cytokine interleukin (IL)-6 is elevated in the serum and lungs of patients with pulmonary artery hypertension (PAH). Several animal models of PAH cite the potential role of inflammatory mediators. We investigated role of IL-6 in the pathogenesis of pulmonary vascular disease. Indices of pulmonary vascular remodeling were measured in lung-specific IL-6-overexpressing transgenic mice (Tg(+)) and compared to wild-type (Tg(-)) controls in both normoxic and chronic hypoxic conditions. The Tg(+) mice exhibited elevated right ventricular systolic pressures and right ventricular hypertrophy with corresponding pulmonary vasculopathic changes, all of which were exacerbated by chronic hypoxia. IL-6 overexpression increased muscularization of the proximal arterial tree, and hypoxia enhanced this effect. It also reproduced the muscularization and proliferative arteriopathy seen in the distal arteriolar vessels of PAH patients. The latter was characterized by the formation of occlusive neointimal angioproliferative lesions that worsened with hypoxia and were composed of endothelial cells and T-lymphocytes. IL-6-induced arteriopathic changes were accompanied by activation of proangiogenic factor, vascular endothelial growth factor, the proproliferative kinase extracellular signal-regulated kinase, proproliferative transcription factors c-MYC and MAX, and the antiapoptotic proteins survivin and Bcl-2 and downregulation of the growth inhibitor transforming growth factor-beta and proapoptotic kinases JNK and p38. These findings suggest that IL-6 promotes the development and progression of pulmonary vascular remodeling and PAH through proproliferative antiapoptotic mechanisms.
Molecular Signature Analysis: the Potential of gene-expression Analysis in Cardiomyopathy (2005)

Despite the expanding knowledge base of the molecular and cellular pathophysiology and management of cardiomyopathy, it still remains difficult to accurately distinguish between patients who will someday develop circulatory collapse and require cardiac transplantation from those with excellent long-term prognosis. Of equal importance, current medical practice does not include strategies to tailor therapies to patients most likely to benefit, while at the same time seeking predictors of poor or adverse responsiveness. Gene-expression analysis using microarray technology, by providing a phenotypic resolution not possible with standard clinical criteria, has enormous potential to provide better information regarding prognosis and response to therapy in heart-failure patients. Emerging data demonstrate that a molecular signature can accurately identify etiology in cardiomyopathy, supporting ongoing efforts to identify expression profiling-based biomarkers, although microarray research in cardiomyopathy is still in its earliest stages. The ultimate potential application of transcriptome-based molecular signature analysis is individualization of the management of heart-failure patients, whereby a patient with a newly diagnosed cardiomyopathy could, through molecular signature analysis, be offered an accurate assessment of prognosis, and how individualized medical therapy could affect his or her outcome.
Reversal of drug resistance mediated by multidrug resistance protein (MRP) 1 by dual effects of agosterol a on MRP1 function (2001)

We previously isolated agosterol A (AG-A) from a marine Spongia sp. and found that it completely reversed colchicine resistance in P-glycoprotein (Pgp)-over-expressing KB-C2 cells and vincristine resistance in multidrug-resistance protein (MRP)1-over-expressing CV60 cells. However, a tri-deacetylated derivative of AG-A (IAG-A) showed almost no activity in reversing Pgp- or MRP1-mediated drug resistance. In this study, we examined the mechanisms by which AG-A reverses MRP1-mediated drug resistance by investigating the interaction between agosterols and MRP1 in MRP1-over-expressing human KB carcinoma (KB/MRP) cells. [3H]-Leukotriene C4 (LTC4), [3H]-2,4-dinitrophenyl-S-glutathione uptake into membrane vesicles prepared from KB/MRP cells and intracellular [3H]-vincristine accumulation and efflux in KB/MRP cells were measured with or without AG-A and/or inactive IAG-A. AG-A reduced MRP1-mediated [3H]-LTC4 transport in a dose-dependent manner, but IAG-A did not. Inhibition by AG-A was competitive, with a K(i) value of 31 microM. AG-A at 10 microM enhanced the accumulation of [3H]-vincristine in KB/MRP cells to the level of that in control cells in the absence of the agent. Likewise, ATP-dependent efflux of [3H]-vincristine from KB/MRP cells was enhanced compared with KB-3-1 cells and inhibited by AG-A. In addition, AG-A reduced intracellular levels of glutathione, a compound required for MRP1-mediated transport of some anti-cancer drugs. These findings suggest that AG-A reverses MRP1-mediated drug resistance by directly inhibiting the capacity of MRP1 to transport drugs. In addition, the capacity of AG-A to reduce cellular glutathione levels may contribute to the modulating activity of MRP1.
Changes of excitatory and inhibitory neurotransmitters in the colon of rats underwent to the wrap partial restraint stress (2016)

The present results support the consistency of the WRS as a potential model where part of the human IBS signs and symptoms are reproduced. The changes in glial cells and in excitatory and inhibitory neurotransmitters might represent the substrate for the dysmotility and hypersensitivity.
Zinc finger E‐box binding factor 1 plays a central role in regulating Epstein‐Barr virus (EBV) latent‐lytic switch and acts as a therapeutic target in EBV‐associated gastric cancer (2011)

ZEB1 was confirmed as a key mediator of the latent-lytic switch of EBV-associated gastric cancer, a distinct subtype with different clinicopathologic features. The current results indicated that inhibition of ZEB1 may be a potential target for EBV-associated gastric cancer therapy.
The Idea of the Classic in Archaeology (1987)

Journal Article The Idea of the Classic in Archaeology Get access Thoughts occasioned by the conference, ‘Fulture Directions in Greek Archaeology’, held at Cambridge, August 1986, hosted by Professor A. C. Renfrew and Professor A. M. Snodgrass. Jan Parker Jan Parker Search for other works by this author on: Oxford Academic Google Scholar The Cambridge Quarterly, Volume XVI, Issue 3, 1987, Pages 267–272, https://doi.org/10.1093/camqtly/XVI.3.267 Published: 01 March 1987
Direct generation of subpicosecond chirp-free pulses at 10 GHz from a nonpolarization maintaining actively mode-locked fiber ring laser (2000)

0.7-1.3 ps highly stable, transform-limited, sech/sup 2/-shaped pulses at 10 GHz in the 1536-1569 nm wavelength region from a nonpolarization maintaining (PM), single intensity modulator, actively and harmonically mode-locked fiber ring laser have been directly generated. Little degradation of long-term stability of the laser operation was observed due to the non-PM nature of the laser cavity.
A Novel Phosphodiesterase Type 4 Inhibitor, HT-0712, Enhances Rehabilitation-Dependent Motor Recovery and Cortical Reorganization After Focal Cortical Ischemia (2007)

Rehabilitation-dependent motor recovery after cerebral ischemia is associated with functional reorganization of residual cortical tissue. Recovery is thought to occur when remaining circuitry surrounding the lesion is "retrained" to assume some of the lost function. This reorganization is in turn supported by synaptic plasticity within cortical circuitry and manipulations that promote plasticity may enhance recovery. Activation of the cAMP/CREB pathway is a key step for experience-dependent neural plasticity. Here we examined the effects of the prototypical phosphodiesterase inhibitor 4 (PDE4) rolipram and a novel PDE inhibitor (HT-0712), known to enhance cAMP/CREB signaling and cognitive function, on restoration of motor skill and cortical function after focal cerebral ischemia. Adult male rats were trained on a skilled reaching task to establish a baseline level of motor performance. Intracortical microstimulation was then used to derive high-resolution maps of forelimb movement representations within the caudal forelimb area of motor cortex contralateral to the trained paw. A focal ischemic infarct was created within approximately 30% of the caudal forelimb area. The effects of administering either rolipram or the novel PDE4 inhibitor HT-0712 during rehabilitation on motor recovery and restoration of movement representations within residual motor cortex were examined. Both compounds significantly enhanced motor recovery and induced an expansion of distal movement representations that extended beyond residual motor cortex. The expansion beyond the initial residual cortex was not observed in vehicle injected controls. Furthermore, the motor recovery seen in the HT-0712 animals was dose dependent. Our results suggest that PDE4 inhibitors during motor rehabilitation facilitate behavioral recovery and cortical reorganization after ischemic insult to levels significantly greater than that observed with rehabilitation alone.
Statistical Reconstruction for Cosmic Ray Muon Tomography (2007)

Highly penetrating cosmic ray muons constantly shower the earth at a rate of about 1 muon per cm2 per minute. We have developed a technique which exploits the multiple Coulomb scattering of these particles to perform nondestructive inspection without the use of artificial radiation. In prior work [1]-[3], we have described heuristic methods for processing muon data to create reconstructed images. In this paper, we present a maximum likelihood/expectation maximization tomographic reconstruction algorithm designed for the technique. This algorithm borrows much from techniques used in medical imaging, particularly emission tomography, but the statistics of muon scattering dictates differences. We describe the statistical model for multiple scattering, derive the reconstruction algorithm, and present simulated examples. We also propose methods to improve the robustness of the algorithm to experimental errors and events departing from the statistical model.
LECTINS AS MOLECULES AND AS TOOLS (1986)

The Hippo pathway was initially discovered in Drosophila melanogaster as a key regulator of tissue growth. It is an evolutionarily conserved signaling cascade regulating numerous biological processes, including cell growth and fate decision, organ size ...Read More
Dual-layer dye-filled developer-soluble BARCs for 193-nm lithography (2008)

A family of dye-filled developer-soluble bottom anti-reflective coatings (BARCs) has been developed for use in 193-nm microlithography. This new dye-filled chemical platform easily provides products covering a wide range of optical properties. The light-sensitive and positive-working BARCs use a transparent polymeric binder and a polymeric dye in a thermally crosslinking formulation, with the cured products then being photochemically decrosslinked prior to development. The cured BARC films are imaged and removed with developer in the same steps as the covering photoresist. Two dye-filled BARCs with differing optical properties were developed via a series of DOEs and then used as a dual-layer BARC stack. Lithography with this BARC stack, using a 193-nm resist, gave 150-nm L/S (1:1). A 193-nm dual-layer BARC stack (gradient optical properties) from the well-established dye-attached family of light-sensitive BARCs also gave 150-nm L/S (1:1) with the same resist. However, the latter provided much improved line shape with no scumming. The targeted application for light-sensitive dual-layer BARCs is high-numerical aperture (NA) immersion lithography where a single-layer BARC will not afford the requisite reflection control.
Chromosome specific DNA hybridization in suspension for flow cytometric detection of chimerism in bone marrow transplantation and leukemia (1995)

Flow cytometry was used to measure the fluorescence intensity of nuclei that were subjected to fluorescent in situ hybridization in suspension with chromosome specific DNA probes. Paraformaldehyde-fixed nuclei were protein digested with trypsin and hybridized simultaneously with a biotin- and DIG labeled chromosome specific centromere probe. A number of probes were tested in the suspension hybridizations. The method yielded fluorescent hybridization signals that allow discrimination between Y chromosome positive and negative nuclei when analyzed by flow cytometry. The method is especially suited for analysis of bone marrow cells derived from patients who have received a sex-mismatched allogeneic bone marrow transplantation. Male leukemia cells with a trisomy for chromosome 8 were mixed with normal female cells and simultaneously hybridized in suspension with a DIG labeled probe specific for chromosome 8 and the biotin labeled Y chromosome probe. Y chromosome positive or negative nuclei were sorted onto microscope slides and subsequently classified as being leukemic or not by fluorescence microscopy, on the basis of the presence of a trisomy for chromosome 8. A 120-fold enrichment could be achieved when 300 Y positive nuclei were sorted from a mixture originally containing 0.5% leukemia cells. Given the specificity of the flow cytometry and FISH procedure, the combination of the two methods can reach a lower detection level of 1 per 250,000.
GABAergic mechanisms in the pathogenesis and treatment of epilepsy. (1989)

1. Evidence relating to the role of GABA in the pathogenesis of epilepsy is reviewed. 2. Impaired GABAergic function appears to contribute to seizure susceptibility in a variety of genetically‐ determined syndromes in animals, e.g. genetically epilepsy prone rats showing sound‐induced seizures, gerbils with genetically determined epilepsy, and baboons, Papio papio, with photosensitive epilepsy. 3. In epilepsy secondary to a cerebral insult there is some morphological and biochemical evidence for impaired GABAergic function in experimental situations, but little definitive evidence in man. 4. Pharmacological approaches to enhancing GABAergic inhibition include the use of GABA agonists (or prodrugs), GABA‐transaminase inhibition, GABA uptake inhibition, and action at the GABA/benzodiazepine allosteric site. 5. Experimental data suggest that the best prospect for potent anticonvulsant action with fewest side effects (myoclonus, sedation, ataxia) is at present offered by GABA‐transaminase inhibitors or novel agents acting on the benzodiazepine receptor site.
Ultrasensitivity in the mitogen-activated protein kinase cascade. (1996)

The mitogen-activated protein kinase (MAPK) cascade is a highly conserved series of three protein kinases implicated in diverse biological processes. Here we demonstrate that the cascade arrangement has unexpected consequences for the dynamics of MAPK signaling. We solved the rate equations for the cascade numerically and found that MAPK is predicted to behave like a highly cooperative enzyme, even though it was not assumed that any of the enzymes in the cascade were regulated cooperatively. Measurements of MAPK activation in Xenopus oocyte extracts confirmed this prediction. The stimulus/response curve of the MAPK was found to be as steep as that of a cooperative enzyme with a Hill coefficient of 4-5, well in excess of that of the classical allosteric protein hemoglobin. The shape of the MAPK stimulus/ response curve may make the cascade particularly appropriate for mediating processes like mitogenesis, cell fate induction, and oocyte maturation, where a cell switches from one discrete state to another.
Photochemical Stability of Pentacene and a Substituted Pentacene in Solution and in Thin Films (2004)

The organic semiconductor pentacene (1) has shown the highest field effect mobilities in thin films of any organic semiconductor, yet suffers from instability toward oxidation. 6,13-Bis(triisopropylsilylethynyl)pentacene (2) has been reported as an interesting functionalized pentacene which is soluble in common organic solvents and exhibits high carrier mobility (>0.1 cm2/Vs) in thin film transistor devices. In our investigations of 2, we were surprised by its remarkable stability in solution. Using UV−vis spectroscopy we observe that under ambient light conditions, 2 is approximately 50× more stable toward degradation in air-saturated tetrahydrofuran solution as compared to unsubstituted pentacene. Previous investigators have implicated oxygen in the mechanism of photodegradation of pentacene. In this study, quantum chemical calculations have been performed which demonstrate that alkynyl functionalization at the 6 and 13 positions reduces the rate of photooxidation in two ways. First, alkynyl substitution reduces the triplet energy of 2 considerably, thereby preventing singlet oxygen sensitization. Second, alkynyl substitution lowers the LUMO energy for 2 as compared to that of pentacene. We propose that the lower LUMO energy hinders photooxidation by reducing the rate of electron transfer from photoexcited 2 to oxygen. In thin films, pentacene is more stable to photooxidation than 2 when exposed to UV irradiation. The stabilization of pentacene in the solid state is discussed in the context of solid-state interactions.
Thy-1 in Developing Nervous Tissue (Part 1 of 2) (1985)

Thy-1 is a developmentally regulated cell surface glycoprotein, found at high levels in nerve and certain other tissues. In brain its level rises nearly 100-fold during early postnatal development, but until recently the cellular basis of this, or even the distribution of Thy-1 in adult nervous tissue, has been unclear. On the other hand considerable progress has been made in elucidating the gene, and protein and carbohydrate structure of this molecule, so that the basis for its developmental regulation, and possibly its function, is beginning to emerge. In adult nervous tissues Thy-1 appears to be a surface component of most neurons, although within the CNS the density of antigen varies considerably on different cell types. Early in development, however, Thy-1 is present on only certain neurons--for instance on Purkinje cells in cerebellar cortex--and Thy-1 immunohistochemistry can demonstrate new aspects of the development of such cells. During development, previously Thy-1-negative cells can acquire high levels of Thy-1, and conversely detectable antigen can be lost from cells which at earlier stages stained intensely in Thy-1 immunohistochemistry. Such developmental changes can occur in waves of maturation which are defined spatially as well as temporally. Changing patterns of Thy-1 expression are also found at some sites in nervous tissue after axonal injury. The evidence for a role for Thy-1 in nervous system development is discussed, both in terms of its changing distribution during development and in the light of more direct attempts to define its role on the cell surface.
Impact of genetic dynamics and single-cell heterogeneity on development of nonstandard personalized medicine strategies for cancer (2012)

Cancers are heterogeneous and genetically unstable. Current practice of personalized medicine tailors therapy to heterogeneity between cancers of the same organ type. However, it does not yet systematically address heterogeneity at the single-cell level within a single individual's cancer or the dynamic nature of cancer due to genetic and epigenetic change as well as transient functional changes. We have developed a mathematical model of personalized cancer therapy incorporating genetic evolutionary dynamics and single-cell heterogeneity, and have examined simulated clinical outcomes. Analyses of an illustrative case and a virtual clinical trial of over 3 million evaluable "patients" demonstrate that augmented (and sometimes counterintuitive) nonstandard personalized medicine strategies may lead to superior patient outcomes compared with the current personalized medicine approach. Current personalized medicine matches therapy to a tumor molecular profile at diagnosis and at tumor relapse or progression, generally focusing on the average, static, and current properties of the sample. Nonstandard strategies also consider minor subclones, dynamics, and predicted future tumor states. Our methods allow systematic study and evaluation of nonstandard personalized medicine strategies. These findings may, in turn, suggest global adjustments and enhancements to translational oncology research paradigms.
A Prediction Model for Lung Cancer Diagnosis that Integrates Genomic and Clinical Features (2008)

Lung cancer is the leading cause of cancer death due, in part, to lack of early diagnostic tools. Bronchoscopy represents a relatively noninvasive initial diagnostic test in smokers with suspect disease, but it has low sensitivity. We have reported a gene expression profile in cytologically normal large airway epithelium obtained via bronchoscopic brushings, which is a sensitive and specific biomarker for lung cancer. Here, we evaluate the independence of the biomarker from other clinical risk factors and determine the performance of a clinicogenomic model that combines clinical factors and gene expression. Training (n = 76) and test (n = 62) sets consisted of smokers undergoing bronchoscopy for suspicion of lung cancer at five medical centers. Logistic regression models describing the likelihood of having lung cancer using the biomarker, clinical factors, and these data combined were tested using the independent set of patients with nondiagnostic bronchoscopies. The model predictions were also compared with physicians' clinical assessment. The gene expression biomarker is associated with cancer status in the combined clinicogenomic model (P < 0.005). There is a significant difference in performance of the clinicogenomic relative to the clinical model (P < 0.05). In the test set, the clinicogenomic model increases sensitivity and negative predictive value to 100% and results in higher specificity (91%) and positive predictive value (81%) compared with other models. The clinicogenomic model has high accuracy where physician assessment is most uncertain. The airway gene expression biomarker provides information about the likelihood of lung cancer not captured by clinical factors, and the clinicogenomic model has the highest prediction accuracy. These findings suggest that use of the clinicogenomic model may expedite more invasive testing and definitive therapy for smokers with lung cancer and reduce invasive diagnostic procedures for individuals without lung cancer.
Action of Triphenylphosphine on some Episulphides; a new Method for the Synthesis of Thermochromic Ethylenes (1970)

Abstract A new method for the preparation of thermochromic ethylenes by the action of triphenylphosphine on episulphides is described. The desulphurization reaction is assumed to proceed with nucleophilic attack by the phosphine on the sulphur atom of the thiirane ring to give the phosphine sulphide and the olefin in one step.
Transient Quantum Drift-Diffusion Modelling of Resonant Tunneling Heterostructure Nanodevices (2005)

In the present work, double‐barrier GaAs/AlGaAs resonant tunneling heterostructure nanodevices are investigated. Numerical results, obtained by in‐house developed software, based on a transient quantum drift‐diffusion model, are presented and discussed. In the model, quantum effects are incorporated via parameter dependencies on the carrier density gradients. Particular emphasis is given to the carrier densities and quasi‐Fermi levels as a function of applied bias, and electrostatic potential profiles inside the resonant tunneling diodes and superlattices.