gebhart/patrepeval huggingface dataset:
Estimation of Volume Referent Bone Turnover in the Otic Capsule after Sequential Point Labeling (2000)

Using fluorochrome labeling and a newly validated method for bone turnover estimation, we determined absolute values for canine perilabyrinthine bone remodeling. The overall capsular bone turnover was found to be 2.1% per year, compared to 13.9% per year for the neighboring cranial bones and 7.4% per year for the humerus compacta. This gross 2.1% per year conceals a vast range, from 0.13% per year for the innermost perilymphatic zone, through a centrifugal increment toward 8% to 10% per year in the periphery. The underlying individual bone remodeling units exhibit a similar centrifugal pattern in numerical density and size. These findings indicate an inhibition of remodeling, seemingly emanating from the perilymphatic spaces, and affecting both the activation of osteoclasts and the extent of resorption by the osteoclasts. These values satisfactorily explain the preservation of such fetal remnants as the globuli ossei, the interglobular spaces, and the skein bone. In humans, local ineffective inhibition of bone resorption may play a role in the initiation of otosclerosis.
Field Effect Sensors for Nucleic Acid Detection: Recent Advances and Future Perspectives (2015)

In the last decade the use of field-effect-based devices has become a basic structural element in a new generation of biosensors that allow label-free DNA analysis. In particular, ion sensitive field effect transistors (FET) are the basis for the development of radical new approaches for the specific detection and characterization of DNA due to FETs' greater signal-to-noise ratio, fast measurement capabilities, and possibility to be included in portable instrumentation. Reliable molecular characterization of DNA and/or RNA is vital for disease diagnostics and to follow up alterations in gene expression profiles. FET biosensors may become a relevant tool for molecular diagnostics and at point-of-care. The development of these devices and strategies should be carefully designed, as biomolecular recognition and detection events must occur within the Debye length. This limitation is sometimes considered to be fundamental for FET devices and considerable efforts have been made to develop better architectures. Herein we review the use of field effect sensors for nucleic acid detection strategies-from production and functionalization to integration in molecular diagnostics platforms, with special focus on those that have made their way into the diagnostics lab.
Cyclic Nucleotide Phosphodiesterase Isoenzymes and Asthma — Outstanding Issues (1993)

Cyclic nucleotide phosphodiesterase isoenzymes hydrolyse and thus inactivate the intracellular second messengers cyclic AMP and cyclic GMP. Inhibitors of these isoenzymes modulate tissue function by reducing the rate of breakdown of the cyclic nucleotides. Eukaryotic cells contain multiple forms of phosphodiesterase with differing regulatory characteristics and substrate specificities. At present, the majority of the identified isoenzymes can be grouped into five families (PDE I-PDE V). These isoenzymes have differing distributions and play differing relative roles in the hydrolysis of cyclic nucleotides between tissues. Thus, isoenzyme selective inhibitors may selectively modulate tissue function. Drugs which are therapeutically useful in asthma either bronchodilate or reduce the underlying inflammatory condition. Inhibitors of PDE III, PDE IV and PDE V relax airways smooth muscle. Inhibitors of PDE IV attenuate the activation of pro-inflammatory cells, an effect which in some assays is potentiated by additional PDE III inhibition. PDE V inhibition has not been shown to result in potentially useful anti-inflammatory activity. Despite various degrees of tissue selectivity, the possible side effect profile of isoenzyme selective phosphodiesterase inhibitors requires elucidation before these agents can be proposed as selective anti-asthma drugs. However, it is apparent that selective inhibitors of PDE III, PDE IV and PDE V may be useful bronchodilators, whilst PDE IV and PDE III/IV inhibitors also possess potentially useful anti-inflammatory activity. Such compounds require further evaluation in animals and man to clarify their full potential as therapeutic agents for the treatment of asthma.
Myostatin-deficiency in mice increases global gene expression at the Dlk1-Dio3 locus in the skeletal muscle (2016)

Myostatin, a member of the transforming growth factor-beta superfamily, is a negative regulator of skeletal muscle growth and development. Myostatin inhibition leads to increased skeletal muscle mass in mammals; hence, myostatin is considered a potential therapeutic target for skeletal muscle wasting. However, downstream molecules of myostatin in the skeletal muscle have not been fully elucidated. Here, we identified the Dlk1-Dio3 locus at the mouse chromosome 12qF1, also called as the callipyge locus in sheep, as a novel downstream target of myostatin. In skeletal muscle of myostatin knockout mice, the expression of mature miRNAs at the Dlk1-Dio3 locus was significantly increased. The increased miRNA levels are caused by the transcriptional activation of the Dlk1-Dio3 locus, because a significant increase in the primary miRNA transcript was observed in myostatin knockout mice. In addition, we found increased expression of coding and non-coding genes (Dlk1, Gtl2, Rtl1/Rtl1as, and Rian) at the Dlk1-Dio3 locus in myostatin-deficient skeletal muscle. Moreover, epigenetic changes, associated with the regulation of the Dlk1-Dio3 locus, were observed in myostatin knockout mice. Taken together, this is the first report demonstrating the role of myostatin in regulating the Dlk1-Dio3 (the callipyge) locus in the skeletal muscle.
Review of technologies and implementation strategies in the area of Smart Grid (2009)

Currently there is a global concern about the economic downturn and a greener Earth which is related to a better and efficient method to generate and transmit electric power. With the advent of the plug-in electric vehicles and renewable energy generators, a smarter, more efficient and customer-friendly power grid is essential. Progress is underway for the development of technologies which can improve the quality, efficiency & reliability of the existing transmitted electric power. Governments and sponsors around the world are investing in R&D strategies to construct a smart electric power infrastructure which supports the decentralized approach of power generation, employs two - way intelligent communications for real time monitoring, utilizes demand & fault management and latest security protocols to contribute towards a rigid and attack free electric power network. This paper gives suggestions to emerging novel solutions by utilizing the current advancements and technologies in the area of smart electric power system. It also depicts how Smart Grid addresses the current issues in the power industry.
Pharmacokinetics and safety of green tea polyphenols after multiple-dose administration of epigallocatechin gallate and polyphenon E in healthy individuals. (2003)

We conclude that it is safe for healthy individuals to take green tea polyphenol products in amounts equivalent to the EGCG content in 8-16 cups of green tea once a day or in divided doses twice a day for 4 weeks. There is a >60% increase in the systemic availability of free EGCG after chronic green tea polyphenol administration at a high daily bolus dose (800 mg EGCG or Polyphenon E once daily).
Hydrophobic Binding Hot Spots of Bcl-xL Protein−Protein Interfaces by Cosolvent Molecular Dynamics Simulation (2011)

Identifying binding hot spots in protein-protein interfaces is important for understanding the binding specificity and for the design of nonpeptide, small molecule inhibitors. Molecular dynamics simulation in the isopropanol/water cosolvent environment and in water was employed to investigate Bcl-xL protein, which has a highly flexible, large, and primarily hydrophobic binding site. Simulations of either the apo- or holocrystal structures of the Bcl-xL in pure water fail to generate conformations found in the cocrystal structures of Bcl-xL in complex with its binding partners due to hydrophobic collapse. In contrast, simulations in cosolvent starting either from the apo- or holocrystal structure of the Bcl-xL yield binding-site conformations similar to that found in the cocrystal structures of Bcl-xL. Hydrophobic binding hot spots identified using the conformations from the cosolvent simulations are in excellent agreement with experimental structural data of known inhibitors. Importantly, cosolvent simulations revealed the highly dynamic nature of the hydrophobic binding pockets in Bcl-xL and yielded new structural insights for the design of novel Bcl-xL small-molecule inhibitors.
The Farnesyltransferase Inhibitor, FTI-2153, Blocks Bipolar Spindle Formation and Chromosome Alignment and Causes Prometaphase Accumulation during Mitosis of Human Lung Cancer Cells (2001)

Even though farnesyltransferase inhibitors (FTIs), a novel class of therapeutic agents presently in clinical trials, have preclinically outstanding anticancer activity and impressive lack of toxicity, their mechanism of action is not well understood. To enhance our understanding of how FTIs inhibit the growth of tumors, we have investigated their effects on cell cycle progression of two human lung cancer cell lines, A-549 and Calu-1. In this report, we show in synchronized A-549 and Calu-1 cells that FTI-2153 treatment resulted in a large accumulation of cells in the mitosis phase of the cell division cycle, with some cells in the G(0)/G(1) phase. Furthermore, microtubule immunostaining and 4,6-diamidino-2-phenylindole DNA staining demonstrated that the FTI-2153-induced accumulation in mitosis is due to the inability of these cells to progress from prophase to metaphase. FTI-2153 inhibited the ability of A-549 and Calu-1 cells to form bipolar spindles and caused formation of monoasteral spindles. Furthermore, FTI-2153 induced a ring-shaped chromosome morphology and inhibited chromosome alignment. Time-lapse videomicroscopy confirmed this result by showing that FTI-2153-treated cells are unable to align their chromosomes at the metaphase plate. FTI-2153 did not affect the localization to the kinetochores of two farnesylated centromeric proteins, CENP-E and CENP-F. Thus, a mechanism by which FTIs inhibit progression through mitosis and tumor growth is by blocking bipolar spindle formation and chromosome alignment.
A simplified approach to web service development (2006)

Copyright © 2006, Australian Computer Society, Inc. This paper appeared at Fourth Australasian Workshop on Grid Computing and e-Research (AusGrid 2006), Hobart, Australia. Conferences in Research and Practice in Information Technology, Vol. 54. Rajkumar Buyya and Tianchi Ma and Rei Safavi- Naini and Chris Steketee and Willy Susilo, Ed. Reproduction for academic, not-for profit purposes permitted provided this text is included.
Fusion of stereoscopic video and laparoscopic ultrasound for minimally invasive partial nephrectomy (2009)

The development of an augmented reality environment that combines laparoscopic video and ultrasound imaging for image-guided minimally invasive abdominal surgical procedures, such as partial nephrectomy and radical prostatectomy, is an ongoing project in our laboratory. Our system overlays magnetically tracked ultrasound images onto endoscopic video to create a more intuitive visualization for mapping lesions intraoperatively and to give the ultrasound image context in 3D space. By presenting data in a common environment, this system will allow surgeons to visualize the multimodality information without having to switch between different images. A stereoscopic laparoscope from Visionsense Limited enhances our current system by providing surgeons with additional visual information through improved depth perception. In this paper, we develop and validate a calibration method that determines the transformation between the images from the stereoscopic laparoscope and the 3D locations of structures represented by a tracked laparoscopic ultrasound probe. We first calibrate the laparoscope with a checkerboard pattern and measure how accurate the transformation from image space to tracking space is. We then perform a target localization task using our fused environment. Our initial experience has demonstrated an RMS registration accuracy in 3D of 2.21mm for the laparoscope and 1.16mm for the ultrasound in a working volume of 0.125m<sup>3</sup>, indicating that magnetically tracked stereoscopic laparoscope and ultrasound images may be appropriately combined using magnetic tracking as long as steps are taken to ensure that the magnetic field generated by the system is not distorted by surrounding objects close to the working volume.
Label-less Learning for Emotion Cognition (2019)

In this paper, we propose a label-less learning for emotion cognition (LLEC) to achieve the utilization of a large amount of unlabeled data. We first inspect the unlabeled data from two perspectives, i.e., the feature layer and the decision layer. By utilizing the similarity model and the entropy model, this paper presents a hybrid label-less learning that can automatically label data without human intervention. Then, we design an enhanced hybrid label-less learning to purify the automatic labeled data. To further improve the accuracy of emotion detection model and increase the utilization of unlabeled data, we apply enhanced hybrid label-less learning for multimodal unlabeled emotion data. Finally, we build a real-world test bed to evaluate the LLEC algorithm. The experimental results show that the LLEC algorithm can improve the accuracy of emotion detection significantly.
Evidence for involvement of protein kinase C in the cellular response to interferon alpha. (1990)

Phospholipid/Ca2(+)-dependent protein kinase (protein kinase C; PKC) appears to be involved in the signal-transduction pathway mediated by human leukocyte interferon (IFN) in HeLa cells. IFN treatment results in a rapid increase in [3H]phorbol 12,13-dibutyrate binding to intact cells, indicating an activation of PKC. In addition, inhibitors of PKC (H7 and staurosporine) block the induction of antiviral activity by IFN against vesicular stomatitis virus. PKC inhibitors also block the accumulation of IFN-stimulated mRNAs in the cytoplasm of HeLa cells and suppress the transcriptional induction of IFN-stimulated genes. Activation of IFN-stimulated genes is mediated through a DNA response element that is necessary and sufficient for the transcriptional response to IFN. IFN treatment induces the appearance of several DNA-binding factors that specifically recognize the response element, and the appearance of these factors is suppressed by PKC inhibitors. This observation provides evidence that PKC activity is involved during IFN-stimulated signal transduction. Although activation of PKC appears to be required for the response to IFN, agonists of PKC activity alone do not turn on expression of IFN-stimulated genes.
Cells in vivo and in vitro from osteopetrotic mice homozygous for c-src disruption show suppression of synthesis of osteopontin, a multifunctional extracellular matrix protein. (1996)

Mice carrying homozygous disruption of the c-src proto-oncogene (Src-/-) develop osteopetrosis due to an impaired ability of osteoclasts to adhere to the bone surface and/or to form bone-resorbing ruffled border. It has also been reported that osteopontin (OPN), a secreted phosphoprotein, mediates osteoclast adherence to the bone matrix. We report here that cells from Src-/- mice, both in vitro and in vivo, express OPN mRNA and protein at a significantly reduced level as compared to cells from Src+/- and +/+ animals, suggesting a potential role for the proto-oncogene c-src in the regulation of OPN gene expression. Our data also show that OPN gene expression can be induced by treatment of SR-/- cells with epidermal growth factor (EGF) and 12-O-tetradecanoyl phorbol-13-acetate (TPA). Results obtained from studies using inhibitors of receptor tyrosine kinases (RTKs) and protein kinase C (PKC) suggest that PKC and RTK are positioned in a pathway with PKC as the downstream effector for the EGF-induced OPN gene expression in SRC-/- cells, and that pp60c-src and EGF may regulate OPN gene expression through a common signalling pathway. Furthermore, contrary to published reports, our study shows that EGF-mediated cell signalling does not require functional interaction between the EGF-receptor and pp60c-src.
Nuclear Physics Multimessenger Astrophysics Constraints on the Neutron Star Equation of State: Adding NICER's PSR J0740+6620 Measurement (2021)

In the past few years, new observations of neutron stars (NSs) and NS mergers have provided a wealth of data that allow one to constrain the equation of state (EOS) of nuclear matter at densities above nuclear saturation density. However, most observations were based on NSs with masses of about 1.4 M⊙, probing densities up to ∼three to four times the nuclear saturation density. Even higher densities are probed inside massive NSs such as PSR J0740+6620. Very recently, new radio observations provided an update to the mass estimate for PSR J0740+6620, and X-ray observations by the NICER and XMM telescopes constrained its radius. Based on these new measurements, we revisit our previous nuclear physics multimessenger astrophysics constraints and derive updated constraints on the EOS describing the NS interior. By combining astrophysical observations of two radio pulsars, two NICER measurements, the two gravitational-wave detections GW170817 and GW190425, detailed modeling of the kilonova AT 2017gfo, and the gamma-ray burst GRB 170817A, we are able to estimate the radius of a typical 1.4 M⊙ NS to be 11.94-0.87+0.76 km at 90% confidence. Our analysis allows us to revisit the upper bound on the maximum mass of NSs and disfavors the presence of a strong first-order phase transition from nuclear matter to exotic forms of matter, such as quark matter, inside NSs.
ECCSyn-A synthesis tool for ECC circuits (2002)

EECSyn is an automated tool dedicated for the synthesis of error control coding (ECC) circuits. EECSyn takes H matrices as inputs and produces physical layouts automatically. A greedy algorithm and an exhaustive search algorithm are implemented for ECC logic minimization. They achieve 37.7% and 40.8% reduction in gate counts respectively.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Development and Application of a Method for Counterselectable In-Frame Deletion in <i>Clostridium perfringens</i> (2010)

Many pathogenic clostridial species produce toxins and enzymes. To facilitate genome-wide identification of virulence factors and biotechnological application of their useful products, we have developed a markerless in-frame deletion method for Clostridium perfringens which allows efficient counterselection and multiple-gene disruption. The system comprises a galKT gene disruptant and a suicide galK plasmid into which two fragments of a target gene for in-frame deletion are cloned. The system was shown to be accurate and simple by using it to disrupt the alpha-toxin gene of the organism. It was also used to construct of two different virulence-attenuated strains, ΗΝ1303 and HN1314: the former is a disruptant of the virRS operon, which regulates the expression of virulence factors, and the latter is a disruptant of the six genes encoding the α, θ, and κ toxins; a clostripain-like protease; a 190-kDa secretory protein; and a putative cell wall lytic endopeptidase. Comparison of the two disruptants in terms of growth ability and the background levels of secreted proteins showed that HN1314 is more useful than ΗΝ1303 as a host for the large-scale production of recombinant proteins.
OFDM Baseband Receiver Design for Wireless Communications (2007)

Orthogonal frequency-division multiplexing (OFDM) access schemes are becoming more prevalent among cellular and wireless broadband systems, accelerating the need for smaller, more energy efficient receiver solutions. Up to now the majority of OFDM texts have dealt with signal processing aspects. To address the current gap in OFDM integrated circuit (IC) instruction, Chiueh and Tsai have produced this timely text on baseband design. OFDM Baseband Receiver Design for Wireless Communications covers the gamut of OFDM technology, from theories and algorithms to architectures and circuits. Chiueh and Tsai give a concise yet comprehensive look at digital communications fundamentals before explaining modulation and signal processing algorithms in OFDM receivers. Moreover, the authors give detailed treatment of hardware issues -- from design methodology to physical IC implementation. Closes the gap between OFDM theory and implementation Enables the reader to transfer communication receiver concepts into hardware design wireless receivers with acceptable implementation loss achieve low-power designs Contains numerous figures to illustrate techniques Features concrete design examples of MC-CDMA systems and cognitive radio applications Presents theoretical discussions that focus on concepts rather than mathematical derivation Provides a much-needed single source of material from numerous papers Based on course materials for a class in digital communication IC design, this book is ideal for advanced undergraduate or post-graduate students from either VLSI design or signal processing backgrounds. New and experienced engineers in industry working on algorithms or hardware for wireless communications devices will also find this book to be a key reference.
Design and Control of a Methyl Methacrylate Separation Process with a Middle Decanter (2011)

In an industrial process to produce methyl methacrylate, a mixture including methyl methacrylate, methanol, and water needs to be separated. The methyl methacrylate and water are designed to be drawn out of this separation process as two product streams while methanol as an excess reactant should be recycled back to the esterification reactor. An industrial feasible design flowsheet includes three columns, a decanter and two internal recycle streams. In this work, a simple design flowsheet is devised with a distillation column, a bottom decanter, and a stripper. This column/decanter/stripper design can further be simplified into an even simpler design flowsheet with only one distillation column with sidedraw and a middle decanter. Optimal design and dynamic control of this simplified separation process are investigated in this paper. It is shown that the product purity specifications can be maintained despite feed disturbances by holding a tray temperature above the sidedraw location and another one below the sidedraw location.
A trench MOSFET with surface source/drain contacts (1985)

A trench MOSFET with surface source/drain contacts (T-MOS) has been newly proposed to increase the performance and density of future VLSIs. T-MOSs with trench depth of 0.8 um and 1.3 um are fabricated. Electrical characteristics of T-MOS are scarcely affected by the operation direction and trench depth. The threshold voltage of 0.45 V, the subthreshold swing of 90 mV/decade and the transconductance of 50 mS/mm are obtained for T-MOS with boron ion implantation dose of <tex xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">4\times10^{12}</tex> cm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-2</sup> .