gebhart/patrepeval huggingface dataset:
White matter alterations over the course of two consecutive high‐school football seasons and the effect of a jugular compression collar: A preliminary longitudinal diffusion tensor imaging study (2017)

The cumulative effects of repetitive subclinical head impacts during sports may result in chronic white matter (WM) changes and possibly, neurodegenerative sequelae. In this pilot study, we investigated the longitudinal WM changes over the course of two consecutive high-school football seasons and explored the long-term effects of a jugular vein compression collar on these WM alterations. Diffusion tensor imaging data were prospectively collected both pre- and postseason in the two consecutive seasons. Participants were assigned into either collar or noncollar groups. Tract-based spatial statistics (TBSS) approach and region of interest-based approach were used to quantify changes in WM diffusion properties. Despite comparable exposure to repetitive head impacts, significant reductions in mean, axial, and/or radial diffusivity were identified in Season 1 in multiple WM regions in the noncollar group but not in the collar group. After an 8- to 9-month long off-season, these changes observed in the noncollar group partially and significantly reversed but also remained significantly different from the baseline. In Season 2, trend level WM alterations in the noncollar group were found but located in spatially different regions than Season 1. Last, the WM integrity in the collar group remained unchanged throughout the four time points. In conclusion, we quantitatively assessed the WM structural changes and partial reversal over the course of two consecutive high-school football seasons. In addition, the mitigated WM alterations in athletes in the collar group might indicate potential effect of the collar in ameliorating the changes against repetitive head impacts. Hum Brain Mapp 39:491-508, 2018. © 2017 Wiley Periodicals, Inc.
Particle Distribution in Low‐Volume Capillary‐Loaded Chambers (2005)

Accurate determination of sperm concentration in fluid suspension is a critical component in a semen analysis. Inaccurate estimations can lead to misinterpretation of the spermiogram and, in the case of livestock production, can lead to faulty insemination doses, which can adversely affect stud power, fertility, fecundity, and cost effectiveness of breeding programs. Capillary-loaded slides, like the hemacytometer, have been the standard for calibration of other concentration estimation modalities such as photometry, Coulter counter, flow cytometry, and computer-automated semen analysis (CASA). Single-use capillary-loaded slides, much smaller than the hemacytometer, are frequently used by many of the current CASA systems. As the use of CASA increases, more field reports are suggesting differences between CASA results and hemacytometry. In this article, we establish that these differences are, in large part, due to the Segre-Silberberg effect, which occurs during Poiseuille flow in high-gradient fluid flow in thin capillary-loaded slides. We develop the theory of this phenomenon and derive the scaling and significance of the effect. Finally, we graphically provide a means for predicting the necessary compensation factor when using capillary-loaded slides to determine sperm concentration.
Intersection algorithms for lines and circles (1988)

This paper presents a unified representation scheme for the implicit equations of points, lines, and circles. An associated set of geometric algorithms operates successfully on degenerate and nearly degenerate geometry, and when necessary produces degenerate geometric results. Computation errors are interpreted geometrically in order to establish preconditions for reliable results and requirements on the resolution of computer arithmetic. The algorithms thus provide a basis for the wide range of geometric constructions required by computer-aided drafting and design systems.
Hierarchical 3D fully convolutional networks for multi-organ segmentation (2017)

Recent advances in 3D fully convolutional networks (FCN) have made it feasible to produce dense voxel-wise predictions of full volumetric images. In this work, we show that a multi-class 3D FCN trained on manually labeled CT scans of seven abdominal structures (artery, vein, liver, spleen, stomach, gallbladder, and pancreas) can achieve competitive segmentation results, while avoiding the need for handcrafting features or training organ-specific models. To this end, we propose a two-stage, coarse-to-fine approach that trains an FCN model to roughly delineate the organs of interest in the first stage (seeing $\sim$40% of the voxels within a simple, automatically generated binary mask of the patient's body). We then use these predictions of the first-stage FCN to define a candidate region that will be used to train a second FCN. This step reduces the number of voxels the FCN has to classify to $\sim$10% while maintaining a recall high of $>$99%. This second-stage FCN can now focus on more detailed segmentation of the organs. We respectively utilize training and validation sets consisting of 281 and 50 clinical CT images. Our hierarchical approach provides an improved Dice score of 7.5 percentage points per organ on average in our validation set. We furthermore test our models on a completely unseen data collection acquired at a different hospital that includes 150 CT scans with three anatomical labels (liver, spleen, and pancreas). In such challenging organs as the pancreas, our hierarchical approach improves the mean Dice score from 68.5 to 82.2%, achieving the highest reported average score on this dataset.
A phase 2 study with a daily regimen of the oral mTOR inhibitor RAD001 (everolimus) in patients with metastatic clear cell renal cell cancer (2009)

In the current study, everolimus demonstrated encouraging antitumor activity against metastatic RCC as indicated by a PFS >or= 6 months for approximately 70% of patients.
Cofabrication of Electromagnets and Microfluidic Systems in Poly(dimethylsiloxane) (2006)

Durch diese hohle Gasse …︁: Mikrometergroße Elektromagnete aus Lötmetall können in Poly(dimethylsiloxan) (PDMS) direkt neben Mikrofluidikkanälen (ca. 10 μm Abstand; siehe Aufsicht und Querschnitt) durch vier Schritte binnen 10 min erzeugt werden. Ein elektrischer Strom durch die Magnete führt zu Magnetfeldern, sodass Magnetfeldgradienten in den Mikrofluidikkanälen auftreten. Die Elektromagnete können superparamagnetische Kügelchen in den Mikrofluidikkanälen einfangen und wieder freisetzen. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2001/2006/z602273_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.
Thulium YAG laser operation at 2.01 microns (1989)

Variable temperature laser experiments were performed with two compositions of Tm:Cr:YAG (5.0:1.0 and 1.5:2.0 percent substitutions), with special attention given to the spectroscopic details of energy transfer and quasi-3 level lasing. Differences in laser threshold and flashlamp degradation were found in lasing the two compositions, and it is suggested that the difference is due to the 1.5:2.0 rod having much less efficient energy transfer than the 5.0:1.0 Tm:Cr crystals. To first order, the thermal occupation factor is found to dominate laser threshold determination at temperatures betwen 120 and 240 K.
The Pertussis Toxin S1 Subunit Is a Thermally Unstable Protein Susceptible to Degradation by the 20S Proteasome (2006)

Pertussis toxin (PT) is an AB-type protein toxin that consists of a catalytic A subunit (PT S1) and an oligomeric, cell-binding B subunit. It belongs to a subset of AB toxins that move from the cell surface to the endoplasmic reticulum (ER) before the A chain passes into the cytosol. Toxin translocation is thought to involve A chain unfolding in the ER and the quality control mechanism of ER-associated degradation (ERAD). The absence of lysine residues in PT S1 may allow the translocated toxin to avoid ubiquitin-dependent degradation by the 26S proteasome, which is the usual fate of exported ERAD substrates. As the conformation of PT S1 appears to play an important role in toxin translocation, we used biophysical and biochemical methods to examine the structural properties of PT S1. Our in vitro studies found that the isolated PT S1 subunit is a thermally unstable protein that can be degraded in a ubiquitin-independent fashion by the core 20S proteasome. The thermal denaturation of PT S1 was inhibited by its interaction with NAD, a donor molecule used by PT S1 for the ADP ribosylation of target G proteins. These observations support a model of intoxication in which toxin translocation, degradation, and activity are all influenced by the heat-labile nature of the isolated toxin A chain.
HiPEC: A Hybrid P2P Model for Electronic Commerce (2008)

Decentralized and unstructured peer-to-peer (P2P) network system is becoming one of the most popular file sharing systems on the Internet. Due to its prominent merit, a P2P network becomes an effective distribution channel for selling digital products on the Internet. But there are still many constraints curbing electronic commerce on P2P networks. The main problem is that peers can not get cost-efficient earnings equal to their contributions in traditional P2P system. In this paper, we construct a hybrid P2P system by introducing index peers into pure P2P system, HiPEC. It computes earnings for every peer according to its contribution using a profit model. Firstly, we define peer role model by analyzing peers' behaviors. Secondly, we define logical P2P system via using role model. Finally, we propose a profit model and its calculation algorithm. The algorithm runs in every peer independently and ensures global earnings equal to global payments dynamically. The main contributions of this paper include: 1) providing a P2P electronic commerce model that can deal with multi-participant transactions based on peers' contribution. Earning or payment is calculated per byte; 2) maintaining global profit balance dynamically without whole network information.
Fluorescence based explosive detection: from mechanisms to sensory materials (2015)

The detection of explosives is one of the current pressing concerns in global security. In the past few decades, a large number of emissive sensing materials have been developed for the detection of explosives in vapor, solution, and solid states through fluorescence methods. In recent years, great efforts have been devoted to develop new fluorescent materials with various sensing mechanisms for detecting explosives in order to achieve super-sensitivity, ultra-selectivity, as well as fast response time. This review article starts with a brief introduction on various sensing mechanisms for fluorescence based explosive detection, and then summarizes in an exhaustive and systematic way the state-of-the-art of fluorescent materials for explosive detection with a focus on the research in the recent 5 years. A wide range of fluorescent materials, such as conjugated polymers, small fluorophores, supramolecular systems, bio-inspired materials and aggregation induced emission-active materials, and their sensing performance and sensing mechanism are the centerpiece of this review. Finally, conclusions and future outlook are presented and discussed.
Measurement of ultrasound attenuation by laser ultrasonics (1989)

Laser ultrasonics is a technique which uses lasers to generate and detect ultrasound. Determination of the absolute ultrasonic attenuation is difficult since the diffraction corrections cannot be precisely calculated because of the poor knowledge of the laser beam’s intensity distributions. We show that there are two cases where this knowledge is not generally required, which allows precise determination of the attenuation. When the spherical wave approximation holds, i.e., for small laser spot sizes, thick samples, or low ultrasonic frequencies, the diffraction corrections can be precisely calculated. When the plane wave approximation holds, i.e., large laser spot sizes, thin samples, or high ultrasonic frequencies, the diffraction corrections are negligible. Both cases are illustrated with experimental data taken on ceramic and steel samples.
Workstations and mainframe computers working together (1986)

The history and design philosophy of a research project that produced a prototype software package are described. The package provides cooperation between large-scale mainframe computing systems and personal desktop workstations. Also discussed are the features of PC/VM Bond, the product that grew out of the research project.
EVENT HORIZON TELESCOPE EVIDENCE FOR ALIGNMENT OF THE BLACK HOLE IN THE CENTER OF THE MILKY WAY WITH THE INNER STELLAR DISK (2014)

Observations of the black hole in the center of the Milky Way with the Event Horizon Telescope at 1.3 mm have revealed a size of the emitting region that is smaller than the size of the black-hole shadow. This can be reconciled with the spectral properties of the source, if the accretion flow is seen at a relatively high inclination (50◦–60◦). Such an inclination makes the angular momentum of the flow, and perhaps of the black hole, nearly aligned with the angular momenta of the orbits of stars that lie within 3 from the black hole. We discuss the implications of such an alignment for the properties of the black hole and of its accretion flow. We argue that future Event Horizon Telescope observations will not only refine the inclination of Sgr A∗ but also measure precisely its orientation on the plane of the sky.
Understanding the Role of Gallium as a Promoter of Magnesium Silicate Catalysts for the Conversion of Ethanol into Butadiene (2017)

Abstract In this study we explore the use of Ga as a new component in MgO‐SiO 2 catalysts for the Lebedev reaction (the one‐pot conversion of ethanol to butadiene). Several characterisation techniques (XRD, temperature‐programmed desorption of NH 3 , BET measurements, IR spectroscopy) and in situ spectroscopic studies (DRIFTS‐MS) were performed with the aim to correlate the properties of the modified materials with the catalytic results. We concluded that the wet impregnation of Ga 3+ on the MgO‐SiO 2 catalyst creates new Ga−O(H)−Si sites. These sites interact strongly with alcohol and not only facilitate its dehydrogenation to acetaldehyde and its transformation into the intermediate crotyl alcohol but also enhance the dehydration of the latter because of an improved acidity. However, an appropriate amount of gallium oxide is needed to avoid excessive acidity, which is conducive to an increased selectivity to ethylene.
Selective Transition State Stabilization via Hyperconjugative and Conjugative Assistance: Stereoelectronic Concept for Copper-Free Click Chemistry (2011)

Dissection of stereoelectronic effects in the transition states (TSs) for noncatalyzed azide-alkyne cycloadditions suggests two approaches to selective transition state stabilization in this reaction. First, the formation of both 1,4- and 1,5-isomers is facilitated via hyperconjugative assistance to alkyne bending and C···N bond formation provided by antiperiplanar σ-acceptors at the propargylic carbons. In addition, the 1,5-TS can be stabilized via attractive C-H···F interactions. Although the two effects cannot stabilize the same transition state for the cycloaddition to α,α-difluorocyclooctyne (DIFO), they can act in a complementary, rather than competing, fashion in acyclic alkynes where B3LYP calculations predict up to ∼1 million-fold rate increase relative to 2-butyne. This analysis of stereoelectronic effects is complemented by the distortion analysis, which provides another clear evidence of selective TS stabilization. Changes in electrostatic potential along the reaction path revealed that azide polarization may create unfavorable electrostatic interactions (i.e., for the 1,5-regioisomer formation from 1-fluoro-2-butyne and methyl azide). This observation suggests that more reactive azides can be designed via manipulation of charge distribution in the azide moiety. Combination of these effects with the other activation strategies should lead to the rational design of robust acyclic and cyclic alkyne reagents for fast and tunable "click chemistry". Further computational and experimental studies confirmed the generality of the above accelerating effects and compared them with the conjugative TS stabilization by π-acceptors.
Small Nuclear Ribonucleoprotein Remodeling During Catalytic Activation of the Spliceosome (2002)

Major structural changes occur in the spliceosome during its activation just before catalyzing the splicing of pre-messenger RNAs (pre-mRNAs). Whereas changes in small nuclear RNA (snRNA) conformation are well documented, little is known about remodeling of small nuclear ribonucleoprotein (snRNP) structures during spliceosome activation. Here, human 45S activated spliceosomes and a previously unknown 35S U5 snRNP were isolated by immunoaffinity selection and were characterized by mass spectrometry. Comparison of their protein components with those of other snRNP and spliceosomal complexes revealed a major change in protein composition during spliceosome activation. Our data also suggest that the U5 snRNP is dramatically remodeled at this stage, with the Prp19 complex and other factors tightly associating, possibly in exchange for other U5 proteins, and suggest that after catalysis the remodeled U5 is eventually released from the postsplicing complex as a 35S snRNP particle.
Low-temperature organometallic epitaxy and its application to superlattice structures in thermoelectrics (1999)

We describe a simple, yet phenomenologically very different, low-temperature modification to the conventional metal–organic chemical vapor deposition. It has been applied to the epitaxy of hexagonal-phased Bi2Te3/Sb2Te3 superlattices on zinc-blende GaAs substrates. The modification enables a two-dimensional, layer-by-layer, epitaxy instead of a three-dimensional islanded growth. Therefore, this approach is of generic importance to the epitaxy of many electronic and magnetic materials and their superlattices. High-resolution transmission electron microscopy studies indicate that the interface between the GaAs substrate and Bi2Te3 film is qualitatively defect free and that periodic structures are formed in the Bi2Te3/Sb2Te3 superlattices, with one of the individual layers as small as 10 Å. Such ultra-short-period superlattices offer significantly higher carrier mobilities than their respective solid-solution alloys, apparently due to the elimination of alloy scattering and the minimal effects of random interface scattering on carrier transport. This represents one of the successful observations of enhanced carrier mobilities in monolayer-range superlattices.
Properties of chymotrypsin bound covalently to dextran. (1988)

The kinetic properties dextran-chymotrypsin conjugate were studied by means of low molecular weight substrates. It was found that KM, kcat and kcat/KM of dextran chymotrypsin for the hydrolysis of benzoyl-L-tyrosine-ethyl-ester did not differ substantially from those of the free enzyme. However, the data found for kcat of dextran-chymotrypsin and free chymotrypsin assayed for the hydrolysis of three tripeptidyl-p-nitroanilide D-Arg-Val-Trp-pNA, D-Arg-Val-Tyr-pNA, Z-Phe-Pro-Phe-pNA, were definitely different. The inhibition of the modified chymotrypsin with soybean trypsin inhibitor was found to be less pronounced than that with the free enzyme. The effect of potassium and magnesium salts on the inactivation of both enzymes was also studied. The effect of dextran matrix on the catalytic properties and the conformational stability of modified chymotrypsin is discussed.
Synthesis and calcium ion antagonistic activity of 2-[2-[(aminoalkyl)oxy]-5-methoxyphenyl]-3,4-dihydro-4-methyl-3-oxo-2H-1,4-benzothiazines (1990)

As an extension of the previous investigation (J. Med. Chem. 1988, 31, 919), we synthesized a series of 2-[2-[(aminoalkyl)oxy]-5-methoxyphenyl]-3,4-dihydro-4-methyl-3-oxo-2H- 1,4-benzothiazines (3) and evaluated their Ca2+ antagonistic activities. Ca2+ antagonistic activity was measured with isolated depolarized guinea pig taenia cecum. On the basis of their potent Ca2+ antagonistic activity, six benzothiazines were selected and further evaluated for their vasocardioselectivity. Among these six compounds, the key compound 15 [3,4-dihydro-2-[5-methoxy-2-[3-[N-methyl-N-[2-[3,4- (methylenedioxy)phenoxy]ethyl]amino]propoxy]phenyl]-4-methyl-3-oxo- 2H-1,4-benzothiazine hydrogen fumarate] was recognized as having the lowest cardioselectivity. Following optical resolution, the absolute configuration of the compound's optically active enantiomer was determined by means of X-ray crystallography of a synthetic precursor (+)-4a. The Ca2+ antagonistic activity of 15 was found to reside primarily in (+)-15 (which was about 7 times more potent than (-)-15). The in vitro study showed that (+)-15 had a low cardioselectivity compared to verapamil and diltiazem. This result suggests that (+)-15 would exhibit less adverse effects due to cardiac inhibition than diltiazem and verapamil in therapeutic use.
Energy Efficient Sleep/Wake Scheduling for Multi-Hop Sensor Networks: Non-Convexity and Approximation Algorithm (2007)

We study sleep/wake scheduling for low duty cycle sensor networks. Our work is different from prior work in that we explicitly consider the effect of synchronization error in the design of the sleep/wake scheduling algorithm. In our previous work, we have studied sleep/wake scheduling for single hop communications, e.g., intra-cluster communications between a cluster head and cluster members. We showed that the there is an inherent trade-off between energy consumption and message delivery performance (defined as the message capture probability). We proposed an optimal sleep/wake scheduling algorithm, which satisfies a message capture probability threshold (assumed to be given) with minimum energy consumption. In this work, we consider multi-hop communications. We remove the previous assumption that the capture probability threshold is already given, and study how to decide the per-hop capture probability thresholds to meet the quality of services (QoS) requirements of the application. In many sensor network applications, the QoS is decided by the amount of data delivered to the base station(s), i.e., the multi-hop delivery performance. We formulate an optimization problem, which aims to set the capture probability threshold at each hop such that the network lifetime is maximized, while the multi-hop delivery performance is guaranteed. The problem turns out to be non-convex and hard to solve exactly. By investigating the unique structure of the problem and using approximation techniques, we obtain a solution that achieves at least 0.73 of the optimal performance.
Charge carrier mobility of mixed-layer organic light-emitting diodes (2007)

The authors report the investigation of the charge transport behaviors in mixed thin films of N,N′-diphenyl-N,N′-bis(1-napthyl)-1,1′-biphenyl-4,4′-diamine and tris(8-hydroxyquinoline) aluminum. The extracted electron and hole drift mobility were found to be sensitive to the compositional fraction and interpreted by energy levels, charge mobilities of neat compounds, and microscopic networks within the mixed systems. The carrier conduction characteristics, therefore, were used to illustrate the electrical and optical properties of the organic light emitting devices with a mixed layer and present direct evidences on the role of the mixed layer in these devices.