gebhart/patrepeval huggingface dataset:
Dual work function metal gate CMOS using CVD metal electrodes (2004)

Dual workfunction metal gated MOSFETs with CVD TaSiN, W and Re have been fabricated on HfO/sub 2/. T/sub inv/ as low as 1.46 nm with appropriate Vts and sub-threshold slopes 90 mV/decade or better have been achieved. For the first time we report low damage CVD processes for achieving dual workfunction metal gates in contrast to most reports in literature. Excellent hole mobility has been obtained for aggressive stacks. It is further observed that electron mobility optimization is critically dependent on specific electrode and interface layer combinations along with post deposition processing even for nominally identical HfO/sub 2/ layers.
The improbable but highly appropriate marriage of 3D stacking and neuromorphic accelerators (2014)

3D stacking is a promising technology (low latency/power/area, high bandwidth); its main shortcoming is increased power density. Simultaneously, motivated by energy constraints, architectures are evolving towards greater customization, with tasks delegated to accelerators. Due to the widespread use of machine-learning algorithms and the re-emergence of neural networks (NNs) as the preferred such algorithms, NN accelerators are receiving increased attention. They turn out to be well matched to 3D stacking: inherently 3D structures with a low power density and high across-layer bandwidth requirements. We present what is, to the best of our knowledge, the first 3D stacked NN accelerator
PyTorch: An Imperative Style, High-Performance Deep Learning Library (2019)

Deep learning frameworks have often focused on either usability or speed, but not both. PyTorch is a machine learning library that shows that these two goals are in fact compatible: it provides an imperative and Pythonic programming style that supports code as a model, makes debugging easy and is consistent with other popular scientific computing libraries, while remaining efficient and supporting hardware accelerators such as GPUs. In this paper, we detail the principles that drove the implementation of PyTorch and how they are reflected in its architecture. We emphasize that every aspect of PyTorch is a regular Python program under the full control of its user. We also explain how the careful and pragmatic implementation of the key components of its runtime enables them to work together to achieve compelling performance. We demonstrate the efficiency of individual subsystems, as well as the overall speed of PyTorch on several common benchmarks.
Left ventricular wall stresses and wall stress–mass–heart rate products in hypertensive patients with electrocardiographic left ventricular hypertrophy (2000)

Hypertensive patients with ECG LV hypertrophy have increased LV wall stresses and stress-mass-heart rate products, suggesting a contribution of high myocardial oxygen demand to increased risk in such patients. Particularly high stresses and triple products were associated with echocardiographic LV hypertrophy, and subnormal LV chamber and midwall function.
Additive Glucose-Lowering Effects of Glucagon-Like Peptide-1 and Metformin in Type 2 Diabetes (2001)

Monotherapy with GLP-1 and metformin have equal effects on plasma glucose and additive effects upon combination.
Effects of Tamoxifen on Bone Mineral Density in Postmenopausal Women with Breast Cancer (1992)

In postmenopausal women, treatment with tamoxifen is associated with preservation of the bone mineral density of the lumbar spine. Whether this favorable effect on bone mineral density is accompanied by a decrease in the risk of fractures remains to be determined.
The "metal transcription factor" MTF-1: biological facts and medical implications (2001)

Metallothioneins (MTs) are a class of small, cysteine-rich proteins that have an important function in heavy metal metabolism and detoxification and in the management of various forms of cell stress. Several lines of evidence suggest a role for metallothioneins in therapy resistance of malignant tumours, regulation of blood pressure and protection against some neurological diseases. Basal and heavy metal-induced expression of the stress-inducible metallothionein-I and -II genes and some other stress-regulated genes depends on the zinc-finger transcription factor MTF-1. MTF-1 acts as a cellular stress-sensor protein and, besides its crucial role in metallothionein expression, is essential for liver development since mice null mutant for MTF-1 die in utero due to hepatocyte degeneration. Under pathological conditions, MTF-1 seems to be involved in clinically important processes such as tumour angiogenesis and drug resistance. It thus seems generally advisable to monitor MTF-1 activity in stress-related processes including aging and carcinogenesis.
Entrainment of Perceptually Relevant Brain Oscillations by Non-Invasive Rhythmic Stimulation of the Human Brain (2011)

The notion of driving brain oscillations by directly stimulating neuronal elements with rhythmic stimulation protocols has become increasingly popular in research on brain rhythms. Induction of brain oscillations in a controlled and functionally meaningful way would likely prove highly beneficial for the study of brain oscillations, and their therapeutic control. We here review conventional and new non-invasive brain stimulation protocols as to their suitability for controlled intervention into human brain oscillations. We focus on one such type of intervention, the direct entrainment of brain oscillations by a periodic external drive. We review highlights of the literature on entraining brain rhythms linked to perception and attention, and point out controversies. Behaviourally, such entrainment seems to alter specific aspects of perception depending on the frequency of stimulation, informing models on the functional role of oscillatory activity. This indicates that human brain oscillations and function may be promoted in a controlled way by focal entrainment, with great potential for probing into brain oscillations and their causal role.
Mitogen-activated Protein Kinase Phosphorylates and Regulates the HIV-1 Vif Protein (1998)

The human immunodeficiency virus type 1 (HIV-1) Vif protein plays a critical role in virus replication and infectivity. Here we show that Vif is phosphorylated and regulated by p44/42 mitogen-activated protein kinase (MAPK). Vif phosphorylation by MAPK was demonstrated in vitro as well as in vivo and was shown to occur on serine and threonine residues. Two-dimensional tryptic phosphopeptide mapping indicated that Vif is phosphorylated by MAPK on the same sites in vitro and in vivo. Radioactive peptide sequencing identified two phosphorylation sites, Thr96 and Ser165. These phosphorylation sites do not correspond to the known optimum consensus sequences for phosphorylation by MAPK (PX(S/T)P) nor to the minimum consensus sequence ((S/T)P), indicating that MAPK can phosphorylate proteins at sites other than those containing the PX(S/T)P or (S/T)P motifs. Synthetic Vif peptides corresponding to the local sequences of the phosphorylation sites were not phosphorylated by MAPK, suggesting that recognition of these sites by MAPK is likely to require structural determinants outside the phosphorylation site. Mutations of the Thr96 site, which is conserved among Vif sequences from HIV-1, HIV-2, and SIV, resulted in significant loss of Vif activity and inhibition of HIV-1 replication. These results suggest that MAPK plays a direct role in regulating HIV-1 replication and infectivity by phosphorylating Vif and identify a novel mechanism for activation of HIV-1 replication by mitogens and other extracellular stimuli.
Natural and artificial parallel computation (1991)

These eleven contributions by leaders in the fields of neuroscience, artificial intelligence, and cognitive science cover the phenomenon of parallelism in both natural and artificial systems, from the neural architecture of the human brain to the electronic architecture of parallel computers.The brain's complex neural architecture not only supports higher mental processes, such as learning, perception, and thought, but also supervises the body's basic physiological operating system and oversees its emergency services of damage control and self-repair. By combining sound empirical observation with elegant theoretical modeling, neuroscientists are rapidly developing a detailed and convincing account of the organization and the functioning of this natural, living parallel machine. At the same time, computer scientists and engineers are devising imaginative parallel computing machines and the programming languages and techniques necessary to use them to create superb new experimental instruments for the study of all parallel systems.Michael A. Arbib is Professor of Computer Science, Neurobiology, and Physiology at the University of Southern California. J. Alan Robinson is University Professor at Syracuse University.Contents: Natural and Artificial Parallel Computation, M. A. Arbib, J. A. Robinson. The Evolution of Computing, R. E. Gomory. The Nature of Parallel Programming, P. Brinch Hansen. Toward General Purpose Parallel Computers, D. May. Applications of Parallel Supercomputers, G. E. Fox. Cooperative Computation in Brains and Computers, M. A. Arbib. Parallel Processing in the Primate Cortex, P. Goldman-Rakic. Neural Darwinism, G. M. Edelman, G. N. Reeke, Jr. How the Brain Rewires Itself, M. Merzenich. Memory-Based Reasoning, D. Waltz. Natural and Artificial Reasoning, J. A. Robinson.
Inducible costimulator is essential for collagen-induced arthritis (2003)

CD4(+) helper Th cells play a major role in the pathogenesis of rheumatoid arthritis. Th cell activation, differentiation, and immune function are regulated by costimulatory molecules. Inducible costimulator (ICOS) is a novel costimulatory receptor expressed on activated T cells. We, as well as others, recently demonstrated its importance in Th2 cytokine expression and Ab class switching by B cells. In this study, we examined the role of ICOS in rheumatoid arthritis using a collagen-induced arthritis model. We found that ICOS knockout mice on the DBA/1 background were completely resistant to collagen-induced arthritis and exhibited absence of joint tissue inflammation. These mice, when immunized with collagen, exhibited reduced anti-collagen IgM Ab's in the initial stage and IgG2a Ab's at the effector phase of collagen-induced arthritis. Furthermore, ICOS regulates the in vitro and in vivo expression of IL-17, a proinflammatory cytokine implicated in rheumatoid arthritis. These data indicate that ICOS is essential for collagen-induced arthritis and may suggest novel means for treating patients with rheumatoid arthritis.
Analysis of the transcarbamoylation‐dehydration reaction catalyzed by the hydrogenase maturation proteins HypF and HypE (2004)

The hydrogenase maturation proteins HypF and HypE catalyze the synthesis of the CN ligands of the active site iron of the NiFe-hydrogenases using carbamoylphosphate as a substrate. HypE protein from Escherichia coli was purified from a transformant overexpressing the hypE gene from a plasmid. Purified HypE in gel filtration experiments behaves predominantly as a monomer. It does not contain statistically significant amounts of metals or of cofactors absorbing in the UV and visible light range. The protein displays low intrinsic ATPase activity with ADP and phosphate as the products, the apparent K(m) being 25 micro m and the k(cat) 1.7 x 10(-3) s(-1). Removal of the C-terminal cysteine residue of HypE which accepts the carbamoyl moiety from HypF affected the K(m) (47 micro m) but not significantly the k(cat) (2.1 x 10(-3) s(-1)). During the carbamoyltransfer reaction, HypE and HypF enter a complex which is rather tight at stoichiometric ratios of the two proteins. A mutant HypE variant was generated by amino acid replacements in the nucleoside triphosphate binding region, which showed no intrinsic ATPase activity. The variant was active as an acceptor in the transcarbamoylation reaction but did not dehydrate the thiocarboxamide to the thiocyanate. The results obtained with the HypE variants and also with mutant HypF forms are integrated to explain the complex reaction pattern of protein HypF.
Characteristics of dual mode AlN thin film bulk acoustic wave resonators (2008)

Thin film bulk acoustic wave resonators (FBAR) using piezoelectric AlN thin films have attracted extensive research activities in the past few years. Highly c-axis oriented AlN thin films are particularly investigated for resonators operating at the fundamental thickness longitudinal mode. Depending on the processing conditions, tilted polarization (c-axis off the normal direction to the substrate surface) is often found for the as-deposited AlN thin films, which may leads to the coexistence of thickness longitudinal mode and shear mode for the thin film resonators. Knowing that the material properties are strongly crystalline orientation dependent for AlN thin films, a theoretical study is conducted to reveal the effect of tilted polarization on the frequency characteristics of thin film resonators. The input electric impedance of a thin film resonator is derived that includes both thickness longitudinal and thickness shear modes in a uniform equation. Based on the theoretical model, the effective material properties corresponding to the longitudinal and shear modes are calculated through the properties transformation between the original and new coordinate systems. The electric impedance spectra of dual mode AlN thin film resonators are calculated using appropriate materials properties and compared with experimental results. The results indicate that the frequency characteristics of thin film resonators vary with the tilted polarization angles. The coexistence of thickness longitudinal and shear modes in the thin film resonators may provide some flexibility in the design and fabrication of the FBAR devices.
Intense Pulsed Light Sintering of Electrodeposited CdS Thin Films (2014)

In order to manufacture market competitive solar cells, material processing methods with low capital and running costs are required. One method for achieving this goal would be to use atmospheric processing techniques with a high throughput. Here, we report the use of intense pulsed light (IPL) to process cadmium sulfide (CdS) thin films. IPL is an ultra‐fast and facile technique for the heat treatment of materials. Pulses of light from the UV to IR wavelengths are absorbed by the material, leading to localized heating and sintering. IPL has been used to successfully make Ag and Cu electrical contacts for use in electronic circuits, however little work exists on the use of IPL in the processing of semiconductor materials. CdS was selected due to its importance in solar cell manufacturing. This n‐type semiconductor has been used as a “window” material in high efficiency CdTe and Cu In (1 −x) Ga x Se 2 ‐based solar cells. The effect of energy input and the energy density of the pulse on the films optical, compositional and morphological properties of the films was investigated using UV–Vis spectroscopy, XRD, and SEM. IPL sintering resulted in significant improvement to the CdS crystallinity with processing times &lt;2 mins.
Def defines a conserved nucleolar pathway that leads p53 to proteasome-independent degradation (2013)

p53 protein turnover through the ubiquitination pathway is a vital mechanism in the regulation of its transcriptional activity; however, little is known about p53 turnover through proteasome-independent pathway(s). The digestive organ expansion factor (Def) protein is essential for the development of digestive organs. In zebrafish, loss of function of def selectively upregulates the expression of p53 response genes, which raises a question as to what is the relationship between Def and p53. We report here that Def is a nucleolar protein and that loss of function of def leads to the upregulation of p53 protein, which surprisingly accumulates in the nucleoli. Our extensive studies have demonstrated that Def can mediate the degradation of p53 protein and that this process is independent of the proteasome pathway, but dependent on the activity of Calpain3, a cysteine protease. Our findings define a novel nucleolar pathway that regulates the turnover function of p53, which will advance our understanding of p53's role in organogenesis and tumorigenesis.
Low-crosstalk WDM by Bragg diffraction fromthermally fixed reflection holograms in lithium niobate (1998)

Dense wavelength-division-multiplexing (WDM) systems require narrowband wavelength filters for simultaneous multiplexing/demultiplexing of several channels. As a proof of concept the authors report the demultiplexing of two channels (channel spacing 0.8 nm) by Bragg diffraction from two thermally fixed volume phase reflection holograms in photorefractive lithium niobate crystals doped with iron. More than 25 dB crosstalk suppression is achieved, and intensity losses are only between 2.3 and 5.2 dB.
Pulse oximetry for perioperative monitoring (2009)

The studies confirmed that pulse oximetry can detect hypoxaemia and related events. However, we have found no evidence that pulse oximetry affects the outcome of anaesthesia for patients. The conflicting subjective and objective results of the studies, despite an intense methodical collection of data from a relatively large general surgery population, indicate that the value of perioperative monitoring with pulse oximetry is questionable in relation to improved reliable outcomes, effectiveness, and efficiency. Routine continuous pulse oximetry monitoring did not reduce either transfer to ICU or mortality, and it is unclear if there is any real benefit from the application of this technology in patients who are recovering from cardiothoracic surgery in a general care area.
Sodium-glucose cotransporter inhibitors for diabetes. (2007)

In the search for potential new drug targets for the treatment of diabetes, sodium-glucose cotransporters (SGLTs), in particular SGLT2, have been the subject of particular attention. SGLT2 plays an important role in glucose reabsorption in the kidney, and SGLT2 inhibitors enhance renal glucose excretion and consequently lower plasma glucose levels. Thus, SGLT2 inhibitors can control energy balance in a negative direction. The principle behind SGLT2 inhibition involves the improvement of diabetic conditions without increasing body weight or the risk of hypoglycemia. A number of pharmaceutical companies are evaluating SGLT2 inhibitors, and studies have confirmed the therapeutic potency and safety of these drugs for the potential treatment of diabetes.
A scalable modular convex solver for regularized risk minimization (2007)

A wide variety of machine learning problems can be described as minimizing a regularized risk functional, with different algorithms using different notions of risk and different regularizers. Examples include linear Support Vector Machines (SVMs), Logistic Regression, Conditional Random Fields (CRFs), and Lasso amongst others. This paper describes the theory and implementation of a highly scalable and modular convex solver which solves all these estimation problems. It can be parallelized on a cluster of workstations, allows for data-locality, and can deal with regularizers such as l1 and l2 penalties. At present, our solver implements 20 different estimation problems, can be easily extended, scales to millions of observations, and is up to 10 times faster than specialized solvers for many applications. The open source code is freely available as part of the ELEFANT toolbox.
Inhibition of Tumor Angiogenesis by a Synthetic Cell‐adhesive Polypeptide Containing the Arg‐Gly‐Asp (RGD) Sequence of Fibronectin, Poly(RGD) (1990)

We have investigated the anti-angiogenic effect of a polymeric peptide based on the Arg-Gly-Asp (RGD) core sequence of fibronectin as a monomer unit, i.e., poly(RGD), in syngeneic mice and in vitro. Single intratumoral administration of poly(RGD) on day 0, 1 or 7 after tumor implantation achieved a significant reduction of B16-BL6 melanoma colonization in the lungs, but did not affect the size of the primary tumor at the time of amputation. The number of capillary blood vessels oriented toward the tumor mass increased during the early growth phase after the intradermal inoculation of the tumor. Poly(RGD) significantly inhibited the formation of tumor neovascularization when co-injected with the tumor cells or separately injected intratumorally or intravenously on day 1 or 3 after tumor inoculation. This inhibitory effect of poly(RGD) was dose-dependent. Poly(RGD) was able to inhibit the haptotactic migration of endothelial cells along a gradient of substratum-immobilized fibronectin but not laminin. Tumor-conditioned medium (CM) by itself did not act as a chemoattractant when it was added in the lower compartment of a Transwell chamber, but promoted the endothelial cell migration to immobilized fibronectin or laminin. Poly(RGD) inhibited the enhanced cell migration to fibronectin but not to laminin in response to CM. Thus, poly(RGD)-mediated inhibition of tumor metastasis may be partly due to the inhibition of tumor-induced angiogenesis at primary and secondary sites.
Tumor immunoprophylaxis in mice using glutaraldehyde-treated syngeneic tumor cells. (1975)

The ability of glutaraldehyde-treated tumor cells to induce protection against subsequent challenge has been studied in a syngeneic system. Two tumors have been tested in BALB/c mice. The first was a methylcholanthrene-induced tumor that has been maintained in serial passage for over a decade. The second was a spontaneous mammary adenoacanthoma that was tested at the third passage. The protection was found to consist of two components: (a) a specific immunological component; and (b) a nonspecific component observed when the immunizing and challenge dose were both given i.p. This nonspecificity, while possibly an element in tumor protective mechanisms, may confuse careful analytical studies of the immunogenic potential of tumor antigens.
Sorting Mechanisms Regulating Membrane Protein Traffic in the Apical Transcytotic Pathway of Polarized MDCK Cells (1998)

The transcytotic pathway followed by the polymeric IgA receptor (pIgR) carrying its bound ligand (dIgA) from the basolateral to the apical surface of polarized MDCK cells has been mapped using morphological tracers. At 20 degreesC dIgA-pIgR internalize to interconnected groups of vacuoles and tubules that comprise the endosomal compartment and in which they codistribute with internalized transferrin receptors (TR) and epidermal growth factor receptors (EGFR). Upon transfer to 37 degreesC the endosome vacuoles develop long tubules that give rise to a distinctive population of 100-nm-diam cup-shaped vesicles containing pIgR. At the same time, the endosome gives rise to multivesicular endosomes (MVB) enriched in EGFR and to 60-nm-diam basolateral vesicles. The cup-shaped vesicles carry the dIgA/pIgR complexes to the apical surface where they exocytose. Using video microscopy and correlative electron microscopy to study cells grown thin and flat we show that endosome vacuoles tubulate in response to dIgA/pIgR but that the tubules contain TR as well as pIgR. However, we show that TR are removed from these dIgA-induced tubules via clathrin-coated buds and, as a result, the cup-shaped vesicles to which the tubules give rise become enriched in dIgA/pIgR. Taken together with the published information available on pIgR trafficking signals, our observations suggest that the steady-state concentrations of TR and unoccupied pIgR on the basolateral surface of polarized MDCK cells are maintained by a signal-dependent, clathrin-based sorting mechanism that operates along the length of the transcytotic pathway. We propose that the differential sorting of occupied receptors within the MDCK endosome is achieved by this clathrin-based mechanism continuously retrieving receptors like TR from the pathways that deliver pIgR to the apical surface and EGFR to the lysosome.