gebhart/patrepeval huggingface dataset:
Ultra-Fast and High-Reliability SOT-MRAM: From Cache Replacement to Normally-Off Computing (2015)

This paper deals with a new MRAM technology whose writing scheme relies on the Spin Orbit Torque (SOT). Compared to Spin Transfer Torque (STT) MRAM, it offers a very fast switching, a quasi-infinite endurance and improves the reliability by solving the issue of “read disturb”, thanks to separate reading and writing paths. These properties allow introducing SOT at all-levels of the memory hierarchy of systems and adressing applications which could not be easily implemented by STT-MRAM. We present this emerging technology and a full design framework, allowing to design and simulate hybrid CMOS/SOT complex circuits at any level of abstraction, from device to system. The results obtained are very promising and show that this technology leads to a reduced power consumption of circuits without notable penalty in terms of performance.
One-Handed Touch Typing on a QWERTY keyboard (1996)

"Half-QWERTY" is a new, one-handed typing technique designed to facilitate the transfer of two-handed touch-typing skill to the one-handed condition. It is performed on a standard keyboard with modified software or on a special half-keyboard with full-size keys. In an experiment using touch typists, hunt-and-peck typing speeds were surpassed after 3 to 4 hr of practice. Subjects reached 50% of their two-handed typing speed after about 8 hr. After 10 hr, all subjects typed between 41% and 73% of their two-handed speed, ranging from 23.8 to 42.8 words per minute (wpm). In extended testing, subjects achieved average one-handed speeds as high as 60 wpm and 83% of their two-handed rate. These results are important for providing access to disabled users and for designing compact computers.
On the application of hidden Markov models for enhancing noisy speech (2003)

An algorithm is proposed for enhancing noisy speech which has been degraded by statistically independent additive noise. The algorithm is based on modeling the clean speech as a hidden Markov process with mixtures of Gaussian autoregressive (AR) output processes and modeling the noise as a sequence of stationary, statistically independent, Gaussian AR vectors. The parameter sets of the models are estimated using training sequences from the clean speech and the noise process. The parameter set of the hidden Markov model is estimated by the segmental k-means algorithm. Given the estimated models, the enhancement of the noisy speech is done by alternate maximization of the likelihood function of the noisy speech, one over all sequences of states and mixture components assuming that the clean speech signal is given, and then over all vectors of the original speech using the resulting most probable sequence of states and mixture components. This alternating maximization is equivalent to first estimating the most probable sequence of AR models for the speech signal using the Viterbi algorithm, and then applying these AR models for constructing a sequence of Wiener filters which are used to enhance the noisy speech.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
<title>High-power optical amplifiers enable 1550-nm terrestrial free-space optical data links operating at WDM 2.5-Gb/s data rates</title> (1999)

Optical amplifiers are an enabling technology for free space laser communications. Transmission of four multiplexed 2.5 Gbps channels at 1550 nm over a 4.4 km terrestrial link is described and modeled.
XENOGENEIC HUMORAL RESPONSES TO ISLETS TRANSPLANTED IN BIOHYBRID DIFFUSION CHAMBERS (1994)

It has been hypothesized that chronic antigen leakage from the hybrid artificial pancreas could stimulate a host humoral response. Such antibodies could be induced by antigens shed from the islet cell surface, or by proteins secreted by live cells or liberated after cell death. To determine if this humoral response occurs, porcine (n = 15) or canine (n = 7) islets were seeded (2-5 x 10(4) equivalent islet number, density 30 islets/mm3) into diffusion chambers fabricated from permselective acrylic membranes (nominal M(r) exclusion of 80,000). The chambers were implanted intraperitoneally into streptozotocin-induced diabetic rats. Sera were collected at various intervals (0-12 weeks) and tested against isolated canine and porcine islets, for tissue specificity and interspecies cross-reactivity by fluorescence immunocytochemistry. No immunofluorescence (or only weak background staining) was obtained when islets were exposed to horse sera, or to sera obtained before to xenodevice implantation. Within 2-6 weeks, however, the postimplantation sera showed strong immunoreactivity. The antibodies were found to be reactive to multiple tissues, and to possess little or no interspecies cross-reactivity. The appearance of these xenoantibodies coincided with the appearance of circulating soluble immune complexes. However, none of the respiratory, cutaneous, or gastrointestinal manifestations that are characteristic of an anaphylactic reaction, or of the diseases of immediate-type hypersensitivity, were observed, even after intraperitoneal injection of additional naked islet tissue. Renal glomeruli did not stain for IgG or C3 in islet recipients. These results suggest that islet cell antigens crossed the membrane and stimulated antibody formation in the host, although they did not appear to cause renal or immune complex disease during the course of this study.
Sequence capture-PCR improves detection of mycobacterial DNA in clinical specimens (1996)

The rapid identification of mycobacterial DNA in clinical samples by PCR can be useful in the diagnosis of tuberculous infections, but several large studies have found that the sensitivity of this approach is not better than that of culture. In order to improve the sensitivity of detection of mycobacterial DNA in clinical specimens from patients with paucibacillary forms of tuberculosis, we have developed a procedure permitting the specific capture of mycobacterial DNA in crude samples prior to amplification, thereby concentrating the target sequences and removing irrelevant DNA and other potential inhibitors of the amplification reaction (sequence capture-PCR). By using this approach to capture and amplify two different sequences specific for organisms of the Mycobacterium tuberculosis complex (IS6110 and the direct repeat region), it was possible to detect as little as one genome of mycobacterial DNA in samples containing up to 750 micrograms of total DNA, representing a 10- to 100-fold increase in sensitivity compared with that obtained by purifying total DNA prior to amplification. Detection of the IS6110 sequence in pleural fluid samples from patients with tuberculous pleurisy by sequence capture-PCR gave positive results in 13 of 17 cases, including 3 of 3 culture-positive samples and 10 of 14 culture-negative samples. In contrast, when total DNA was purified from these samples by adsorption to a silica matrix prior to amplification, only the three culture-positive samples were positive by PCR. The sensitivity of detection of the direct repeat sequence in these samples by sequence capture-PCR was similar to that of IS6110 and, in addition, permitted immediate typing of the strains from some patients. We conclude that sequence capture-PCR improves the sensitivity of detection of mycobacterial DNA in paucibacillary samples. This approach should be useful in detecting rare target sequences from organisms implicated in other pathologic processes.
Fiber-Modified Adenovirus Vectors Decrease Liver Toxicity through Reduced IL-6 Production (2007)

Adenovirus (Ad) vectors are one of the most commonly used viral vectors in gene therapy clinical trials. However, they elicit a robust innate immune response and inflammatory responses. Improvement of the therapeutic index of Ad vector gene therapy requires elucidation of the mechanism of Ad vector-induced inflammation and cytokine/chemokine production as well as development of the safer vector. In the present study, we found that the fiber-modified Ad vector containing poly-lysine peptides in the fiber knob showed much lower serum IL-6 and aspartate aminotransferase levels (as a maker of liver toxicity) than the conventional Ad vector after i.v. administration, although the modified Ad vector showed higher transgene production in the liver than the conventional Ad vector. RT-PCR analysis showed that spleen, not liver, is the major site of cytokine, chemokine, and IFN expression. Splenic CD11c(+) cells were found to secret cytokines. The tissue distribution of Ad vector DNA showed that spleen distribution was much reduced in this modified Ad vector, reflecting reduced IL-6 levels in serum. Liver toxicity by the conventional Ad vector was reduced by anti-IL-6R Ab, suggesting that IL-6 signaling is involved in liver toxicity and that decreased liver toxicity of the modified Ad vector was due in part to the reduced IL-6 production. This study contributes to an understanding of the biological mechanism in innate immune host responses and liver toxicity toward systemically administered Ad vectors and will help in designing safer gene therapy methods that can reduce robust innate immunity and inflammatory responses.
Search for Majorana Fermions in Multiband Semiconducting Nanowires (2011)

We study multiband semiconducting nanowires proximity-coupled with an s-wave superconductor. We show that, when an odd number of subbands are occupied, the system realizes a nontrivial topological state supporting Majorana modes. We study the topological quantum phase transition in this system and calculate the phase diagram as a function of the chemical potential and magnetic field. Our key finding is that multiband occupancy not only lifts the stringent constraint of one-dimensionality but also allows one to have higher carrier density in the nanowire, and as such multisubband nanowires are better suited for observing the Majorana particle. We study the robustness of the topological phase by including the effects of the short- and long-range disorder. We show that there is an optimal regime in the phase diagram ("sweet spot") where the topological state is to a large extent insensitive to the presence of disorder.
Variable HIV peptide stability in human cytosol is critical to epitope presentation and immune escape (2011)

Induction of virus-specific CD8(+) T cell responses is critical for the success of vaccines against chronic viral infections. Despite the large number of potential MHC-I–restricted epitopes located in viral proteins, MHC-I–restricted epitope generation is inefficient, and factors defining the production and presentation of MHC-I–restricted viral epitopes are poorly understood. Here, we have demonstrated that the half-lives of HIV-derived peptides in cytosol from primary human cells were highly variable and sequence dependent, and significantly affected the efficiency of cell recognition by CD8(+) T cells. Furthermore, multiple clinical isolates of HLA-associated HIV epitope variants displayed reduced half-lives relative to consensus sequence. This decreased cytosolic peptide stability diminished epitope presentation and CTL recognition, illustrating a mechanism of immune escape. Chaperone complexes including Hsp90 and histone deacetylase HDAC6 enhanced peptide stability by transient protection from peptidase degradation. Based on empirical results with 166 peptides, we developed a computational approach utilizing a sequence-based algorithm to estimate the cytosolic stability of antigenic peptides. Our results identify sequence motifs able to alter the amount of peptide available for loading onto MHC-I, suggesting potential new strategies to modulate epitope production from vaccine immunogens.
FLICE-Inhibitory Proteins: Regulators of Death Receptor-Mediated Apoptosis (2001)

Cell death is executed along several pathways. Apart from necrotic cell death occurring upon tissue injury, several distinct types of apoptosis have been observed. Apoptosis, or programmed cell death, is critical for tissue homeostasis in multicellular organisms. It plays an important role in many physiological processes, especially in development and in the immune system (39, 80). Many diseases are associated with either too much or too little apoptosis, such as AIDS, cancer, and autoimmunity (39).
Structure-function studies in a series of carboxyl-terminal octapeptide analogs of anaphylatoxin C5a (1992)

The synthesis and structure-activity relationships of C-terminal octapeptide analogues of anaphylatoxin C5a have been studied. The introduction of hydrophobic amino acids into the N-acetylated native octapeptide (N-Ac-His-Lys-Asp-Met-Gln-Leu-Gly-Arg-OH) (1) has led to an analogue with 100 times more activity than the native octapeptide in inhibiting the binding of 125I-labeled anaphylatoxin C5a to human neutrophil membrane receptors. The observed apparent binding Ki's for the compounds (8-10) are in the range of 1-3 microM, and they possess nearly full agonist activity, despite the fact that these analogues are one-eighth or -ninth the size of the natural ligand anaphylatoxin C5a.
Distinct Cellular Interactions of Secreted and Transmembrane Ebola Virus Glycoproteins (1998)

The mechanisms by which Ebola virus evades detection and infects cells to cause hemorrhagic fever have not been defined, though its glycoprotein, synthesized in either a secreted or transmembrane form, is likely involved. Here the secreted glycoprotein was found to interact with neutrophils through CD16b, the neutrophil-specific form of the Fc gamma receptor III, whereas the transmembrane glycoprotein was found to interact with endothelial cells but not neutrophils. A murine retroviral vector pseudotyped with the transmembrane glycoprotein preferentially infected endothelial cells. Thus, the secreted glycoprotein inhibits early neutrophil activation, which likely affects the host response to infection, whereas binding of the transmembrane glycoprotein to endothelial cells may contribute to the hemorrhagic symptoms of this disease.
Hemophagocytic macrophages constitute a major compartment of heme oxygenase expression in sepsis (2006)

Lympho-histiocytic activation with hemophagocytosis is a shared pathophysiologic mechanism in HPS and sepsis. Furthermore, the association of hemophagocytosis with an increase in HO-1 expression may indicate a novel role for this apparently futile process as a negative regulator of inflammation.
A Systematic Nomenclature for the Redox States of High Mobility Group Box (HMGB) Proteins (2014)

High mobility group box 1 (HMGB1) is a central mediator in inflammation and immunity. Recently, it was shown that different redox states of the three cysteines of HMGB1 endow it with mutually exclusive activities, such as inducing chemotaxis or the transcription of cytokines and chemokines, via the interaction with different receptors. The different HMGB1 redox forms can be identified by mass spectrometry in body fluids of patients and may hold promise as biomarkers. We propose here a systematic nomenclature of the different redox forms of HMGB1 and related proteins, to replace the conflicting names used so far by different laboratories.
[Effect of elevated temperature and of hypoxia on activity of NO-ergic system of the central nervous system of bivalve molluscs]. (2008)

By light and electron microscopy methods the effect of changes of environmental conditions on the state of the nitroxidergic system has been studied in molluscs on the background of action of elevated temperature and hypoxia. Analysis is performed of biological effect of isolated and combined effects of the studied factors on dynamics of NO synthesis. A higher resistance of CNS neurons to the combined action of hyperthermia and hypoxia is revealed in molluscs with the initially high level of nitrogen oxide production. In molluscs with the initially low level of development of the nitroxidergic system, induction of NO formation in stress has been found to be accompanied by a change of morphology of nervous structures. It is suggested that nitrogen oxide participates in evolutionary established mechanisms of protection of mollusc nerve cells from hypoxia, while the initial high level of NO production reflects larger adaptational possibilities characteristic of these organisms.
A revised method of condensed tannin analysis in Leucaena spp. (1999)

The proanthocyanidin (butanol-HCl) assay was used to measure condensed tannin (CT) in extracts from Leucaena spp. at the University of Queensland. Inconsistent results were found to be caused by the iron catalyst in the butanol/HCl reagent and the presence of ascorbic acid in the sample matrix which enhanced anthocyanidin development. In addition, preparation of sample extracts by back extraction with organic solvents reduced CT recoveries. An accurate and rapid technique was developed that measures CT directly in 70% aqueous acetone 0.1% (w/v) sodium metabisulphite plant extracts.
Influence of thyroid status on the differentiation of slow and fast muscle phenotypes (2004)

Muscle phenotype is determined by combined effects of intrinsic genetic and extrinsic factors like innervation, hormonal levels and mechanical factors or muscle activity. We have been studying the effect of altered thyroid hormone levels on the expression of myosin heavy chain (MyHC) isoforms in control and regenerating soleus and extensor digitorum longus muscles of euthyroid, hypothyroid or hyperthyroid female inbred Lewis rats. The fiber type composition has been determined according to the mATPase activity and immunocytochemical staining of MyHC isoforms, the content of MyHC isoforms has been determined by SDS-PAGE, the mRNA levels have been measured by RT-PCR and the ultrastructural transformation has been analyzed by electron-microscopy. Our results indicate that although the innervation plays a decisive role in the determination of muscle phenotype, levels of thyroid hormones contribute to the extent of muscle phenotype transformation.
A Motion-Sensorless Control for Intake Valves in Combustion Engines (2016)

This paper proposes a position observer and a velocity estimator of a nonlinear actuator for an application in a sensorless control system for engines. This is realized using a position observer and a velocity estimator combined in a cascade structure. The position observer is designed using a Lyapunov approach as typically done in the nonlinear observer approach. The velocity estimator is realized using the model of a proposed electromagnetic actuator. The Lyapunov-based observer estimates the valve position by using the coil current as an input signal and the estimated valve velocity as an output signal. The results are compared with an extended Kalman filter (EKF) used as an observer and developed for the same application. Moreover, the numerical complexity of the algorithm and the comparison with the developed EKF is also taken into account in the paper. The actuator is controlled using a discrete and analogous proportional derivative (PD) controller combined with a feedforward action to compensate for the stationer error. The final part of this paper contains validations of the proposed observed and controlled strategy by means of real measurements.
Angiogenesis in the pathogenesis of inflammatory joint and lung diseases. (2001)

This paper reviews hypotheses about roles of angiogenesis in the pathogenesis of inflammatory disease in two organs, the synovial joint and the lung. Neovascularisation is a fundamental process for growth and tissue repair after injury. Nevertheless, it may contribute to a variety of chronic inflammatory diseases, including rheumatoid arthritis, osteoarthritis, asthma, and pulmonary fibrosis. Inflammation can promote angiogenesis, and new vessels may enhance tissue inflammation. Angiogenesis in inflammatory disease may also contribute to tissue growth, disordered tissue perfusion, abnormal ossification, and enhanced responses to normal or pathological stimuli. Angiogenesis inhibitors may reduce inflammation and may also help to restore appropriate tissue structure and function.
On‐Chip Synthesis and Label‐Free Assays of Oligosaccharide Arrays (2008)

Sugar coated: A new strategy for solid-support oligosaccharide array synthesis and direct SAMDI-TOF (self-assembled monolayers for matrix-assisted laser desorption-ionization time-of-flight) mass spectrometry detection of the synthesis process is reported (see scheme). It incorporates an on-chip ligand array synthesis, a label-free detection method, and direct application to an enzymatic assay. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2002/2008/z704998_s.pdf or from the author. 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.
Sub-20 nm CMOS FinFET technologies (2002)

A simplified fabrication process for sub-20 nm CMOS double-gate FinFETs is reported. It is a more manufacturable process and has less overlap capacitance compared to the previous FinFET (1999, 2000). Two different patterning approaches-e-beam lithography and spacer lithography-are developed. Selective Ge by LPCVD is utilized to fabricate raised S/D structures which minimize parasitic series resistance and improve drive current.
Mutant cystic fibrosis transmembrane conductance regulator inhibits acidification and apoptosis in C127 cells: possible relevance to cystic fibrosis. (1996)

We have shown elsewhere that acidification is an early event in apoptosis, preceding DNA cleavage. Cells expressing the most common mutation (delF508) of the cystic fibrosis transmembrane regulator (CFTR) exhibit a higher resting intracellular pH and are unable to secrete chloride and bicarbonate in response to cAMP. We hypothesized that defective acidification in cells expressing delF508 CFTR would interfere with the acidification that accompanies apoptosis, which in turn, would prevent endonuclease activation and cleavage of DNA. We therefore determined whether the function of the CFTR would affect the process of apoptosis in mouse mammary epithelial C127 cells stably transfected with the wild-type CFTR (C127/wt) or the delF508 mutation of the CFTR (C127/508). C127 cells possessed an acid endonuclease capable of DNA degradation at low pH. Sixteen hours after treatment with cycloheximide, C127/wt cells underwent cytoplasmic acidification. In contrast, C127/508 cells failed to demonstrate acidification. Furthermore, the C127/508 cells did not show nuclear condensation or DNA fragmentation detected by in situ nick-end labeling after treatment with cycloheximide or etoposide, in contrast to the characteristic features of apoptosis demonstrated by the C127/wt cells. Measurement of cell viability indicated a preservation of cell viability in C127/508 cells but not in C127/wt cells. That this resistance to the induction of apoptosis depended upon the loss of CFTR activity is shown by the finding that inhibition of the CFTR with diphenylamine carboxylate in C127/wt cells conferred similar protection. These findings suggest a role for the CFTR in acidification during the initiation of apoptosis in epithelial cells and imply that a failure to undergo programmed cell death could contribute to the pathogenesis of cystic fibrosis.