gebhart/patrepeval huggingface dataset:
Protective Immunoglobulin A and G Antibodies Bind to Overlapping Intersubunit Epitopes in the Head Domain of Type 1 Reovirus Adhesin σ1 (2004)

Nonfusogenic mammalian orthoreovirus (reovirus) is an enteric pathogen of mice and a useful model for studies of how an enteric virus crosses the mucosal barrier of its host and is subject to control by the mucosal immune system. We recently generated and characterized a new murine immunoglobulin A (IgA)-class monoclonal antibody (MAb), 1E1, that binds to the adhesin fiber, sigma1, of reovirus type 1 Lang (T1L) and thereby neutralizes the infectivity of that strain in cell culture. 1E1 is produced in hybridoma cultures as a mixture of monomers, dimers, and higher polymers and is protective against peroral challenges with T1L either when the MAb is passively administered or when it is secreted into the intestines of mice bearing subcutaneous hybridoma tumors. In the present study, selection and analysis of mutants resistant to neutralization by 1E1 identified the region of T1L sigma1 to which the MAb binds. The region bound by a previously characterized type 1 sigma1-specific neutralizing IgG MAb, 5C6, was identified in the same way. Each of the 15 mutants isolated and analyzed was found to be much less sensitive to neutralization by either 1E1 or 5C6, suggesting the two MAbs bind to largely overlapping regions of sigma1. The tested mutants retained the capacity to recognize specific glycoconjugate receptors on rabbit M cells and cultured epithelial cells, even though viral binding to epithelial cells was inhibited by both MAbs. S1 sequence determinations for 12 of the mutants identified sigma1 mutations at four positions between residues 415 and 447, which contribute to forming the receptor-binding head domain. When aligned with the sigma1 sequence of reovirus type 3 Dearing (T3D) and mapped onto the previously reported crystal structure of the T3D sigma1 trimer, the four positions cluster on the side of the sigma1 head, across the interface between two subunits. Three such interface-spanning epitopes are thus present per sigma1 trimer and require the intact quaternary structure of the head domain for MAb binding. Identification of these intersubunit epitopes on sigma1 opens the way for further studies of the mechanisms of antibody-based neutralization and protection with type 1 reoviruses.
The Ogura-Wankel Compressor - Application of Wankel Rotary Concept as Automotive Air Conditioning Compressor (1982)

<div class="htmlview paragraph">A rotary compressor for automotive air conditioners has long been sought to replace the conventional piston compressor. Reciprocating pistons create vibration and noise, that are usually sensed by vehicle passengers. Noise reduction by elimination of the reciprocating motion of the compressor contributes to passenger comfort and more efficient use of engine horsepower.</div> <div class="htmlview paragraph">Today, there are two major types of rotary compressors being used in the automotive market--rotary vane compressors and Ogura-Wankel compressors. The Ogura-Wankel has only recently been introduced to the market. This paper tries to examine the application of the Wankel Rotary concept as an automotive air conditioner compressor.</div>
Collaborative Filtering in a Non-Uniform World: Learning with the Weighted Trace Norm (2010)

We show that matrix completion with trace-norm regularization can be significantly hurt when entries of the matrix are sampled non-uniformly. We introduce a weighted version of the trace-norm regularizer that works well also with non-uniform sampling. Our experimental results demonstrate that the weighted trace-norm regularization indeed yields significant gains on the (highly non-uniformly sampled) Netflix dataset.
Chitosan as scaffold matrix for tissue engineering (2008)

Tissue engineering (TE) is an interdisciplinary field involving principles of engineering and biological sciences to fabricate new tissue and organs using cells and scaffolds. It is expected to play an important role in the therapeutic approach in the current and future medicine. In the coming years, there will be an increased emphasis on the usage of biomaterials that can be integrated forming a renewable interface with prosthetic implants for regenerated medicine and cell based TE on a long term basis. In this regard, significant consideration is being given to natural cationic chitosan as a matrix for TE. Chitosan is a linear polysaccharide, produced from crustacean sources. Recent studies suggest that chitosan based matrixes are promising for TE applications. The authors describe here the uniqueness and versatility of chitosan in bone and cartilage TE in terms of structure–property relationship of chitosan scaffolds.
An integrated RNA and CRISPR/Cas toolkit for multiplexed synthetic circuits and endogenous gene regulation in human cells (2014)

RNA-based regulation, such as RNA interference, and CRISPR/Cas transcription factors (CRISPR-TFs), can enable scalable synthetic gene circuits and the modulation of endogenous networks but have yet to be integrated together. Here, we combined multiple mammalian RNA regulatory strategies, including RNA triple helix structures, introns, microRNAs, and ribozymes, with Cas9-based CRISPR-TFs and Cas6/Csy4-based RNA processing in human cells. We describe three complementary strategies for expressing functional gRNAs from transcripts generated by RNA polymerase II (RNAP II) promoters while allowing the harboring gene to be translated. These architectures enable the multiplexed expression of proteins and multiple gRNAs from a single compact transcript for efficient modulation of synthetic constructs and endogenous human promoters. We used these regulatory tools to implement tunable synthetic gene circuits, including multi-stage transcriptional cascades. Finally, we show that Csy4 can rewire regulatory connections in RNA-dependent gene circuits with multiple outputs and feedback loops to achieve complex functional behaviors. This multiplexable toolkit will be valuable for the construction of scalable gene circuits and the perturbation of natural regulatory networks in human cells for basic biology, therapeutic, and synthetic-biology applications.
Pick one, but be quick: 5′ splice sites and the problems of too many choices (2013)

Splice site selection is fundamental to pre-mRNA splicing and the expansion of genomic coding potential. 5' Splice sites (5'ss) are the critical elements at the 5' end of introns and are extremely diverse, as thousands of different sequences act as bona fide 5'ss in the human transcriptome. Most 5'ss are recognized by base-pairing with the 5' end of the U1 small nuclear RNA (snRNA). Here we review the history of research on 5'ss selection, highlighting the difficulties of establishing how base-pairing strength determines splicing outcomes. We also discuss recent work demonstrating that U1 snRNA:5'ss helices can accommodate noncanonical registers such as bulged duplexes. In addition, we describe the mechanisms by which other snRNAs, regulatory proteins, splicing enhancers, and the relative positions of alternative 5'ss contribute to selection. Moreover, we discuss mechanisms by which the recognition of numerous candidate 5'ss might lead to selection of a single 5'ss and propose that protein complexes propagate along the exon, thereby changing its physical behavior so as to affect 5'ss selection.
A High-Speed and High-Reliability TRNG Based on Analog RRAM for IoT Security Application (2019)

A novel True Random Number Generator (TRNG) based on analog RRAM is developed. For the first time, the proposed TRNG harvests the variation of the pulse number in programming the analog states as the random source, and utilizes the parity of the pulse number to generate random bits. The TRNG throughput reaches >1 Mbit/sec for a single cell. The feasibility for chip-level parallel operation on multiple cells is verified experimentally to further improve the throughput. Excellent stability against temperature variation is also demonstrated. All the generated random bit streams pass the NIST tests across -40 to 125 °C. With an optimized small analog switching window, the endurance problem is significantly relieved as the functionality of TRNG is retained after 10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">11</sup> incremental switching cycles. Our high-speed and high-reliability TRNG design is compatible with the existing memory block and convenient for circuit implementation, making it suitable for future IoT applications.
A specific alkaline phosphatase from<i>Saccharomyces cerevisiae</i>with protein phosphatase activity (1998)

In this paper, specific PHO13 alkaline phosphatase from Saccharomyces cerevisiae was demonstrated to possess phosphoprotein phosphatase activity on the phosphoseryl proteins histone II-A and casein. The enzyme is a monomeric protein with molecular mass of 60 kDa and hydrolyzes p-nitrophenyl phosphate with maximal activity at pH 8.2 with strong dependence on Mg2+ ions and an apparent Km of 3.6 x 10(-5) M. No other substrates tested except phosphorylated histone II-A and casein were hydrolyzed at any significant rate. These data suggest that the physiological role of the p-nitrophenyl phosphate-specific phosphatase may involve participation in reversible protein phosphorylation. 1988 Federation of European Microbiological Societies.
The tumor promoter teleocidin induces IL 2 receptor expression and IL 2-independent proliferation of human peripheral blood T cells. (1985)

In testing the recently discovered tumor promoter teleocidin (TCD), we found that like phorbol esters, TCD was mitogenic to human peripheral blood lymphocytes (PBL) and preferentially stimulated sheep erythrocyte-rosetted (ER) T cell-enriched populations. Stimulation of PBL with TCD induced synthesis and expression of receptors for interleukin 2 (IL 2), as shown by dot-blot analysis with the use of a synthetic oligonucleotide probe, cell surface staining with anti-Tac antibody followed by fluorescence-activated cell sorter analysis, and a functional proliferation assay in which TCD-stimulated cells were washed free of TCD and were recultured with human recombinant IL 2 (rIL 2). Increased expression of cell surface markers after TCD stimulation of PBL is not general, because TCD did not affect the expression of Leu-2a antigen, and it also reduced the density of Leu-3a and Leu-4 antigens. Stimulation of cultured, IL 2 receptor-positive PBL with rIL 2, but not TCD, was blocked by anti-rIL 2 antibodies. Furthermore, IL 2-specific mRNA was not detected in TCD-stimulated PBL, demonstrating that IL 2 was not required for TCD-induced T cell proliferation. In addition, TCD replaced IL 2 in inducing short-term proliferation of IL 2-dependent murine cytotoxic T cell lines. The findings that TCD induced IL 2-independent proliferation of T cells, and TCD and IL 2 synergized in inducing T cell proliferation, suggest that they initiate T cell proliferation via different mechanisms. The IL 2-independent activation of T cells, and the induction of IL 2 receptor expression by TCD, may be related to its ability to activate protein kinase C in cell membrane.
Flexible full‐body tactile sensor of low cost and minimal output connections for service robot (2005)

Purpose This paper aims to design a new full‐body tactile sensor which is essential for the application of personal service robot similar to human skin. Design/methodology/approach The largest difficulty for designing a full‐body tactile sensor is the huge number of output connections. The sensor introduced in this paper is a special multi‐layer structure, which could minimize the output connections while sensing both the position and force information. Since it is made of conductive and non‐conductive textiles, the sensor could be used to cover the curved surface of robot body. Findings With better structure design, output connectors and signal measurement times could be dramatically reduced. Research limitations/implications Sensor area and performance are limited by the sensitivity of the measurement circuits. Originality/value Introduces an innovate design of full‐body tactile sensor.
Efficient generation of Cherenkov-type terahertz radiation from a lithium niobate crystal with a silicon prism output coupler (2006)

We report on the generation of broadband terahertz (THz) pulses using Cherenkov-type generation in magnesium oxide-doped lithium niobate (MgO:LN). The efficiency of the output coupling process of THz radiation at higher frequencies into free space is considerably increased by the use of a properly cut silicon prism. The achieved spectrum is broader compared to the normal Cherenkov-cut geometry. Due to a considerably reduced propagation length in the absorbing MgO:LN, the effective application of longer crystals is possible. Thus, the measured spectral intensity is much higher and the spectrum broader.
Oxygen-Release/Storage Properties of Ce<sub>0.5</sub>M<sub>0.5</sub>O<sub>2</sub> (M = Zr, Hf) Oxides:  Interplay of Crystal Chemistry and Electronic Structure (2007)

Fluorite-type Ce0.5Zr0.5O2 and Ce0.5Hf0.5O2 have been synthesized by a solution combustion route, and their oxygen release and reduction have been investigated up to 850 degrees C. On reduction, the zirconium system forms two pyrochlore phases, Ce2Zr2O7 (pyrochlore-I) and Ce2Zr2O6.2 (pyrochlore-II), while the hafnium system forms only a disordered fluorite phase with the composition Ce0.5Hf0.5O1.77, under the same experimental conditions. The crystal structures of the reduction products have been characterized by powder X-ray diffraction and Rietveld refinement, and their electronic structures have been investigated by photoelectron spectroscopy and electrical conductivity measurements. Pyrochlore-I (a = 10.6727(4) A) is a semiconductor, while pyrochlore-II (a = 10.6463(8) A) is a good conductor (with a nearly temperature independent resistivity of approximately 2.5 ohm.cm in the 400-1000 K range). X-ray photoelectron spectroscopy (XPS) shows an admixture of Ce(5d,6s) with Zr(4d) and O(2p) and a significant density of states near EF in the highly reduced pyrochlore-II phase. The changes have been rationalized in terms of a qualitative energy band scheme that brings out the special role of zirconium vis-à-vis hafnium in the reduction/oxygen release properties of Ce0.5Zr0.5O2 and Ce0.5Hf0.5O2.
Silent Discharge CO<SUB>2</SUB> Laser (1977)

Experiments on silent discharge CO2 laser are described. The discharge power density of 50 wcm-3 was achieved at a frequency of 100 kHz, and small signal gain and its spacial distribution were measured. Small signal gain of more than 0. 1%cm-1 could be easily obtained under the total pres-sure of 100-300 Torr. The efficicncy of laser excitation by silent discharge was found to be nearly the same as that by D. C. glow discharge.After the gain measurements, an optical resonator was arranged and output power up to280 mW was obtained. This is the first success to use silent discharge for cw CO2 laser.
Characterization of the Human OATP-C (SLC21A6) Gene Promoter and Regulation of Liver-specific OATP Genes by Hepatocyte Nuclear Factor 1α (2001)

OATP-C (SLC21A6) is the predominant Na(+)-independent uptake system for bile salts and bilirubin of human liver and is expressed exclusively at the basolateral (sinusoidal) hepatocyte membrane. To investigate the basis of liver-specific expression of OATP-C, we studied promoter function in the two hepatocyte-derived cell lines HepG2 and Huh7 and in nonhepatic HeLa cells. OATP-C promoter constructs containing from 66 to 950 nucleotides of 5'-regulatory sequence were active in HepG2 and Huh7 but not HeLa cells, indicating that determinants of hepatocyte-specific expression reside within the minimal promoter. Deoxyribonuclease I footprint analysis revealed a single region that was protected by HepG2 and Huh7 but not HeLa cell nuclear extracts. The liver-enriched transcription factor hepatocyte nuclear factor 1 alpha (HNF1 alpha) was shown by mobility shift assays to bind within this footprint. Coexpression of HNF1 alpha stimulated OATP-C promoter activity 30-fold in HepG2 and 49-fold in HeLa cells. Mutation of the HNF1 site abolished promoter function, indicating that HNF1 alpha is critical for hepatocyte-specific OATP-C gene expression. The human OATP8 (SLC21A8) and mouse Oatp4 (Slc21a6) promoters were also responsive to HNF1 alpha coexpression in HepG2 cells. These data support a role for HNF1 alpha as a global regulator of liver-specific bile salt and organic anion transporter genes.
Perioperative ischaemia-induced liver injury and protection strategies: An expanding horizon for anaesthesiologists (2013)

Liver resection is an effective modality of treatment in patients with primary liver tumour, metastases from colorectal cancers and selected benign hepatic diseases. Its aim is to resect the grossly visible tumour with clear margins and to ensure that the remnant liver mass has sufficient function which is adequate for survival. With the advent of better preoperative imaging, surgical techniques and perioperative management, there is an improvement in the outcome with decreased mortality. This decline in postoperative mortality after hepatic resection has encouraged surgeons for more radical liver resections, leaving behind smaller liver remnants in a bid to achieve curative surgeries. But despite advances in diagnostic, imaging and surgical techniques, postoperative liver dysfunction of varied severity including death due to liver failure is still a serious problem in such patients. Different surgical and non-surgical techniques like reducing perioperative blood loss and consequent decreased transfusions, vascular occlusion techniques (intermittent portal triad clamping and ischaemic preconditioning), administration of pharmacological agents (dextrose, intraoperative use of methylprednisolone, trimetazidine, ulinastatin and lignocaine) and inhaled anaesthetic agents (sevoflurane) and opioids (remifentanil) have demonstrated the potential benefit and minimised the adverse effects of surgery. In this article, the authors reviewed the surgical and non-surgical measures that could be adopted to minimise the risk of postoperative liver failure following liver surgeries with special emphasis on ischaemic and pharmacological preconditioning which can be easily adapted clinically.
MUSK, a new target for mutations causing congenital myasthenic syndrome (2004)

We report the first case of a human neuromuscular transmission dysfunction due to mutations in the gene encoding the muscle-specific receptor tyrosine kinase (MuSK). Gene analysis identified two heteroallelic mutations, a frameshift mutation (c.220insC) and a missense mutation (V790M). The muscle biopsy showed dramatic pre- and postsynaptic structural abnormalities of the neuromuscular junction and severe decrease in acetylcholine receptor (AChR) epsilon-subunit and MuSK expression. In vitro and in vivo expression experiments were performed using mutant MuSK reproducing the human mutations. The frameshift mutation led to the absence of MuSK expression. The missense mutation did not affect MuSK catalytic kinase activity but diminished expression and stability of MuSK leading to decreased agrin-dependent AChR aggregation, a critical step in the formation of the neuromuscular junction. In electroporated mouse muscle, overexpression of the missense mutation induced, within a week, a phenotype similar to the patient muscle biopsy: a severe decrease in synaptic AChR and an aberrant axonal outgrowth. These results strongly suggest that the missense mutation, in the presence of a null mutation on the other allele, is responsible for the dramatic synaptic changes observed in the patient.
Human hand kinematic data during feeding and cooking tasks (2019)

This work presents a database of human hand kinematics containing data collected during the performance of a wide variety of activities of daily living involving feeding and cooking. The data were recorded using CyberGlove instrumented gloves on both hands measuring 18 degrees of freedom on each. A total of 20 subjects participated in each part of the experiment, and the objects and their arrangement were the same across subjects, although they performed the tasks in a natural non-directed way. This dataset contains a total of 1160 continuous calibrated recordings taken at 100 Hz during the performance of the tasks, with filtered signal. Statistical descriptive analyses from these data are presented. This database can be useful for machine learning purposes and prostheses control, as well as for the characterization of healthy human hand kinematics.
Neonatal cause-of-death estimates for the early and late neonatal periods for 194 countries: 2000–2013 (2014)

The neonatal cause-of-death distribution differs between the early and late periods and varies with neonatal mortality rate level. To reduce neonatal deaths, effective interventions to address these causes must be incorporated into policy decisions.
Principal Component Analysis-Linear Discriminant Analysis Feature Extractor for Pattern Recognition (2012)

Robustness of embedded biometric systems is of prime importance with the emergence of fourth generation communication devices and advancement in security systems This paper presents the realization of such technologies which demands reliable and error-free biometric identity verification systems. High dimensional patterns are not permitted due to eigen-decomposition in high dimensional image space and degeneration of scattering matrices in small size sample. Generalization, dimensionality reduction and maximizing the margins are controlled by minimizing weight vectors. Results show good pattern by multimodal biometric system proposed in this paper. This paper is aimed at investigating a biometric identity system using Principal Component Analysis and Lindear Discriminant Analysis with K-Nearest Neighbor and implementing such system in real-time using SignalWAVE.
Distinctly different thermal decomposition pathways of ultrathin oxide layer on Ge and Si surfaces (2000)

The thermal decomposition pathway of an ultrathin oxide layer on Ge(100) and Si(100) surfaces is examined by synchrotron radiation photoelectron spectroscopy and ultraviolet photoelectron spectroscopy with helium I radiation. The as-prepared oxide layer consists of a mixture of oxides, namely, suboxides and dioxides, on both the surfaces. Upon annealing, the oxide layers decompose and desorb as monoxides. However, we find that the decomposition pathways are different from each other. On annealing Ge oxides, GeO2 species transform to GeO and remain on the surface and desorb at &gt;420 °C. In contrast, annealing of Si oxides results in the transformation of SiO to SiO2 up to temperatures (∼780 °C) close to the desorption. At higher temperatures, SiO2 decomposes and desorbs, implying a reverse transformation to volatile SiO species.