gebhart/patrepeval huggingface dataset:
The semantics of clustering (2012)

Analyzing complex textual datasets consists of identifying connections and relationships within the data based on users' intuition and domain expertise. In a spatial workspace, users can do so implicitly by spatially arranging documents into clusters to convey similarity or relationships. Algorithms exist that spatialize and cluster such information mathematically based on similarity metrics. However, analysts often find inconsistencies in these generated clusters based on their expertise. Therefore, to support sensemaking, layouts must be co-created by the user and the model. In this paper, we present the results of a study observing individual users performing a sensemaking task in a spatial workspace. We examine the users' interactions during their analytic process, and also the clusters the users manually created. We found that specific interactions can act as valuable indicators of important structure within a dataset. Further, we analyze and characterize the structure of the user-generated clusters to identify useful metrics to guide future algorithms. Through a deeper understanding of how users spatially cluster information, we can inform the design of interactive algorithms to generate more meaningful spatializations for text analysis tasks, to better respond to user interactions during the analytics process, and ultimately to allow analysts to more rapidly gain insight.
Drug Interactions Due to Cytochrome P450 (2000)

Cytochrome P450 is a family of isozymes responsible for the biotransformation of several drugs. Drug metabolism via the cytochrome P450 system has emerged as an important determinant in the occurrence of several drug interactions that can result in drug toxicities, reduced pharmacological effect, and adverse drug reactions. Recognizing whether the drugs involved act as enzyme substrates, inducers, or inhibitors can prevent clinically significant interactions from occurring. Avoiding coadministration or anticipating potential problems and adjusting a patient's drug regimen early in the course of therapy can provide optimal response with minimal adverse effects.
Inhibition of Hypertension by Peripheral Administration of Antisense Oligodeoxynucleotides (1996)

We administered liposome-encapsulated antisense oligodeoxynucleotide targeted to angiotensinogen mRNA peripherally to spontaneously hypertensive rats to test whether peripheral angiotensinogen reduction would lower their hypertensive blood pressures and to determine the role of peripheral angiotensinogen in the modulation of hypertension. Using in vitro translation techniques, we tested the sequence specificity of the antisense sequence. The selected antisense sequence decreased angiotensinogen production in vitro, enabling us to distinguish between specific and nonspecific effects. To increase the efficiency of peripheral and hepatic antisense delivery, oligonucleotides were liposome encapsulated and intra-arterial administration. Confocal microscopy was used for determination of the hepatic distribution of fluorescently labeled antisense. Encapsulated antisense molecules were seen to be distributed within liver tissue 1 hour after injection; however, little or no uptake was observed with the unencapsulated oligonucleotides. We also determined the physiological effects of antisense oligodeoxynucleotide targeted to liver angiotensinogen mRNA. Administration of liposome-encapsulated antisense significantly decreased hypertensive blood pressures to normotensive levels compared with scrambled control oligonucleotides, unencapsulated antisense, and empty liposomes (P = .013). These data were supported by biochemical changes elicited by the antisense treatment. Rats receiving liposome-encapsulated antisense had significantly lowered peripheral angiotensinogen and angiotensin II levels compared with control groups (P < .05). No significant heart rate changes were observed in the antisense or control groups. These results suggest that peripheral angiotensinogen plays a role in the maintenance of hypertensive blood pressure in this model of hypertension and that peripheral administration of antisense molecules is possible with organ-targeted delivery mechanisms.
[Reducing the maize amylopectin content through RNA interference manipulation]. (2005)

To regulate the biosynthesis of maize starch, gene segment of starch branch enzyme (SBE) in maize was cloned and an expression vector of small interference RNA with the fragment of antisense gene + sense gene (pCJSBE2b, Fig.1) was constructed. The expression vector of pCJSBE2b was transformed into maize inbred lines by using pollen-tube pathway. Results of PCR amplification and Southern blotting indicated that the aimed gene with the fragment of antisense gene + sense gene had integrated into receptor maize genome (Fig.4,5) and inherited steadily in the transgenic plants (Table 1). Northern hybridization analysis showed that the aimed gene transcribed normally in the transgenic plants, which resulted in a reduction of endogenous SBE mRNA (Fig.6). The analysis of the activity of starch branching enzyme showed that the enzyme activity decreased obviously in the transgenic plants and maximum decrease was 85% compared to the control plants (Fig.7a). Although the total starch content of transgenic plants showed no change compared to the control plants but the amylose content increased to 50% (Fig.7b) in transgenic plants about 27% higher than receptor maize plants.
Acoustic positioning using multiple microphone arrays (2005)

Passive acoustic techniques are presented to solve the localization problem of a sound source in three-dimensional space using off-the-shelf hardware. Multiple microphone arrays are employed, which operate independently, in estimating the direction of arrival of sound, or, equivalently, a direction vector from the array's geometric center towards the source. Direction vectors and array centers are communicated to a central processor, where the source is localized by finding the intersection of the direction lines defined by the direction vectors and the associated array centers. The performance of the method in the air is demonstrated experimentally and compared with a state-of-the-art method that requires centralized digitization of the signals from the microphones of all the arrays.
The basic science of anterior cruciate ligament surgery. (1993)

Surgery for ligamentous injuries of the knee continues to be one of the most common procedures performed by orthopaedists. Anterior cruciate ligament (ACL) reconstructions are addressed specifically. Basic science and laboratory research have had a dramatic effect on our understanding of the underlying pathology of the injury, and this information has been used in the development of the clinical procedures most commonly used today. The classic stages of ligament healing are contrasted with the limited potential of the ACL. Surgical options using autografts, allografts, augmentation devices, and primary repair are discussed. Present research is examined for possible future directions in the treatment of ligament injuries.
The case for antenna cancellation for scalable full-duplex wireless communications (2011)

Recent works have considered the feasibility of full duplex (FD) wireless communications in practice. While the first FD system by Choi et.al. relied on a specific antenna cancellation technique to achieve a significant portion of self-interference cancellation, the various limitations of this technique prompted latter works to move away from antenna cancellation and rely on analog cancellation achieved through channel estimation. However, the latter systems in turn require the use of variable attenuator and delay elements that need to be automatically tuned to compensate for the self-interference channel. This not only adds complexity to the overall system but also makes the performance sensitive to wide-band channels. More importantly, none of the existing FD schemes can be readily scaled to MIMO systems.
Structure-Based Discovery of Glycolipids for CD1d-Mediated NKT Cell Activation:  Tuning the Adjuvant versus Immunosuppression Activity (2006)

Introduction of an aromatic group into the fatty acyl chain of alpha-GalCer modulates the activity and selectivity of IFN-gamma/IL-4 secretion through CD1d-mediated activation of NKT cells. Compound 14-16 are more potent than alpha-Galcer and biased for IFN-gamma than for IL-4. These new glycolipids may find use as adjuvants or as antimetastatic agents.
Estimation of Noise Levels for Models of Chaotic Dynamical Systems (2000)

We investigate how far it is possible to identify and separate dynamical noise from measurement noise in observed nonlinear time series. Using Bayesian methods, we derive estimates for the two noise levels, and find that, given a good model of the dynamics, these can give accurate results even if the dynamical noise level is orders of magnitude smaller than the measurement noise level, whereas a simple calculation of root mean square error badly understates the dynamical noise. We argue that this allows better estimates of the underlying dynamical time series, and so better predictions of its future and of its fundamental dynamical properties.
Research on Peer-to-Peer Network Model Based on Layer Structure (2007)

Gnutella application layer protocol simply adopts the flooding algorithm to route peer's querying,which is just implemented on the application layer searching forward blindly instead of using down-layer's information routing.Therefore it has poor expandability.This paper proposes the models of multi-layers on the basis of layer and region of logic manage-unit,and studies the stress and stretch with the models which takes account of route strategy and multi-broadcast protocol.The model can solve expandability problem effectively.
An X-Band Microwave Life-Detection System (1986)

An X-band microwave life-detection system has been developed for detecting the heartbeat and breathing of human subjects lying on the ground at a distance of about 30 m or located behind a cinder block wall. The basic principle of the system is to illuminate the subject with a low-intensity microwave beam, and then from the back-scattered microwave signal, extract the heart and breathing signals that modulate it. The circuit description of the system and some experimental results are presented. Potential applications of the system are noted.
Development of a dedicated two-dimensional gel electrophoresis system that provides optimal pattern reproducibility and polypeptide resolution. (1990)

The development of a dedicated two-dimensional gel electrophoresis system is described that provides superior performance in terms of high resolving power and enhanced gel-to-gel reproducibility. Isoelectric focusing is performed in a 1-mm capillary tube with a 0.08-mm thread, optimized for this application, incorporated along its length prior to polymerization of the gel matrix. The isoelectric focusing gel is 4% T, 2.6% C to minimize sieving of proteins and promote adhesion of the gel to the thread. The thread incorporated in the isoelectric focusing matrix prevents gel stretching and breakage during its application to the second dimension. An optimum ampholyte pH range has been defined based on 1600 polypeptides present in a transformed fibroblast cell lysate and verified using a variety of other cell types. The length of time required to complete an electrophoretic separation in the second dimension was found to depend on buffer conductivity establishing the importance of high quality electrophoresis grade reagents devoid of contaminating salts. To ensure reproducibility of electrophoretic separations, it is critical to maintain a strict control of temperature during the second dimension separation. This prevents altered migration of some polypeptides relative to neighboring polypeptides that have constant Rfs over a broad temperature range. It was also determined that to obtain the maximum information from a complex protein mixture it is critical to use a large format 22- x 22-cm two-dimensional electrophoretic system. Using the optimized two-dimensional electrophoretic system and computerized gel analysis, it was determined that molecular weight estimates of polypeptides differed by approximately 350 daltons between gels, while isoelectric point estimates differed by approximately 0.03 pH units between gels. Using the two-dimensional electrophoresis system described, approximately 1000 polypeptides can be routinely detected from silver-stained 10% polyacrylamide gels or 1600 polypeptides from autoradiographs of 35S-methionine-labeled polypeptides.
Antimicrobial Leucocin Analogues with a Disulfide Bridge Replaced by a Carbocycle or by Noncovalent Interactions of Allyl Glycine Residues (2006)

The type IIa bacteriocins are antimicrobial peptides isolated from lactic acid bacteria that act as food preservation agents and have nanomolar activity against pathogens such as Listeria monocytogenes. Previous reports with mutant bacteriocins indicate that the conserved disulfide bridge between cysteine residues 9 and 14 in bacteriocins such as leucocin A (1) is critical for antibiotic properties, which are mediated by target membrane receptor proteins belonging to the mannose phosphotransferase (mpt) system. To examine whether the disulfide can be replaced by an olefin moiety, [9,14]-dicarba leucocin A (4) was made by on-resin ring closing metathesis of allyl glycine residues using a new protocol suitable for larger hydrophobic peptides. Carbocyclic analogue 4 still displays nanomolar activity but is about 10-fold less potent than 1. Surprisingly, the acyclic [9,14]-diallyl leucocin A (5) displays even higher antibiotic activity than 4 and is as effective as the parent, leucocin A (1). We attribute this activity to hydrophobic intermolecular interactions of the diallyl side chains of the acyclic bacteriocin 5 that assist realization of the correct conformation at the receptor active site. Such substitutions in other systems may allow linear acyclic peptides to mimic the biological activity of natural disulfide ring-containing parents.
Temperature-compensated film bulk acoustic resonator above 2 GHz (2005)

Two different types of temperature-compensated film bulk acoustic resonators (FBARs) are designed, fabricated, and tested. One is formed by integrating FBAR with a surface-micromachined air-gap capacitor, which passively reduces the FBAR's temperature coefficient of frequency (TCF) by about 40 ppm//spl deg/C at 2.8 GHz. With this approach, zero TCF would easily have been achieved if the FBARs were built on AlN rather than ZnO. The other type of temperature compensated FBAR is built on a surface-micromachined SiO/sub 2/ cantilever that is released by XeF/sub 2/ vapor etching of silicon. The Al-ZnO-Al-SiO/sub 2/ FBAR is measured to have a TCF of -0.45 ppm//spl deg/C (between 85/spl deg/C and 110/spl deg/C) at 4.4 GHz.
Highly accumulated electron layer at a semiconductor/electrolyte interface (1985)

We present studies on accumulated electron layers realized on the silicon/acetonitrile interface at room temperature. This interface has a behavior qualitatively similar to that of the Si/${\mathrm{SiO}}_{2}$ interface, but has allowed us to observe electron densities as high as 8\ifmmode\times\else\texttimes\fi{}${10}^{13}$ ${\mathrm{cm}}^{\mathrm{\ensuremath{-}}2}$. The interface is realized in an electrochemical cell, and electric measurements are performed with a three-electrode arrangement. The electron density is determined by capacitance-voltage measurements. Conductivity measurements allow determination of the mean scattering time of the two-dimensional electron gas, which can be as short as ${10}^{\mathrm{\ensuremath{-}}14}$ s. The special sample design also allows one to perform infrared-absorption measurements of the interface, in the (1.1--10)-\ensuremath{\mu}m region, using the attenuated-total-reflection-spectroscopy technique. This absorption is about 4% per reflection at 10 \ensuremath{\mu}m and varies as ${\ensuremath{\omega}}^{\mathrm{\ensuremath{-}}3/2}$. We have extended the existing theory to the case of highly concentrated accumulation layers and we find a satisfactory agreement with our experimental results. The comparison between theory and experiment allows one to deduce a value of 0.22 F ${\mathrm{m}}^{\mathrm{\ensuremath{-}}2}$ for the capacitance of the Helmholtz layer and a flat-band potential in good agreement with that determined from a Schottky-Mott plot. The mobility of electrons in the accumulation layer is determined as a function of electron density. It varies as \ensuremath{\sim}${n}_{s}^{\mathrm{\ensuremath{-}}1/2}$ at very high concentrations. From comparison with earlier works, it can be inferred that phonon scattering is the limiting mechanism for the mobility at high accumulations, and can account for the magnitude and the ${\ensuremath{\omega}}^{\mathrm{\ensuremath{-}}3/2}$ dependence of the optical absorption.
Creutzfeldt-Jakob disease in England and Wales, 1980-1984: a case-control study of potential risk factors. (1988)

An attempt was made to ascertain all cases of Creutzfeldt-Jakob disease occurring in England and Wales during the 5 year period 1980-1984. The mean annual mortality rate was 0.49/million; women were more frequently affected than men. The age-specific mortality rate reached a peak in the seventh decade. A case-control study involving 92 of the 122 definite and probable cases ascertained failed to confirm the reality of previously suspected aetiological agents in the environment. Although there was no confirmed instance of familial Creutzfeldt-Jakob disease in the case-control study, dementia in close relatives was significantly more common than in controls.
Fusion properties of cells infected with human parainfluenza virus type 3: receptor requirements for viral spread and virus-mediated membrane fusion (1992)

Cells can be persistently infected with human parainfluenza virus type 3 (HPF3) by using a high multiplicity of infection (MOI) (> or = 5 PFU per cell). The persistently infected cells exhibit no cytopathic effects and do not fuse with each other, yet they readily fuse with uninfected cells. We have previously shown that the failure of the persistently infected cells to fuse with each other is due to the lack of a receptor on these cells for the viral hemagglutinin-neuraminidase glycoprotein, and we have established that both fusion and hemagglutinin-neuraminidase proteins are needed for cell fusion mediated by HPF3. We then postulated that the generation of persistent infection and the failure of cells infected with HPF3 at high MOI to form syncytia are both due to the action of viral neuraminidase in the high-MOI inoculum. In this report, we describe experiments to test this hypothesis and further investigate the receptor requirements for HPF3 infection and cell fusion. A normally cytopathic low-MOI HPF3 infection can be converted into a noncytopathic infection by the addition of exogenous neuraminidase, either in the form of a purified enzyme or as UV-inactivated HPF3 virions. Evidence is presented that the receptor requirements for an HPF3 virus particle to infect a cell are different from those for fusion between cells. By treating infected cells in culture with various doses of neuraminidase, we demonstrate that virus spreads from cell to cell in the complete absence of cell-cell fusion. We compare the outcome of HPF3 infection in the presence of excess neuraminidase with that of another paramyxovirus (simian virus 5) and provide evidence that these two viruses differ in their receptor requirements for mediating fusion.
Managing energy and server resources in hosting centers (2001)

Internet hosting centers serve multiple service sites from a common hardware base. This paper presents the design and implementation of an architecture for resource management in a hosting center operating system, with an emphasis on energy as a driving resource management issue for large server clusters. The goals are to provision server resources for co-hosted services in a way that automatically adapts to offered load, improve the energy efficiency of server clusters by dynamically resizing the active server set, and respond to power supply disruptions or thermal events by degrading service in accordance with negotiated Service Level Agreements (SLAs).Our system is based on an economic approach to managing shared server resources, in which services "bid" for resources as a function of delivered performance. The system continuously monitors load and plans resource allotments by estimating the value of their effects on service performance. A greedy resource allocation algorithm adjusts resource prices to balance supply and demand, allocating resources to their most efficient use. A reconfigurable server switching infrastructure directs request traffic to the servers assigned to each service. Experimental results from a prototype confirm that the system adapts to offered load and resource availability, and can reduce server energy usage by 29% or more for a typical Web workload.
A state space model for interconnected rigid bodies (1982)

A state space model of interconnected rigid bodies is developed that is conceptually simple, employs a relatively small number of parameters for the representation of each link, and allows connection of an arbitrary number of elements in open or closed chains. The connection to other elements may be at arbitrary locations and with arbitrary joint constraints. Further, it allows for easy insertion of muscle-like actuators. The model involves three nonlinear feedback loops for each rigid body: local angular velocity, state feedback for connection and joint constraints, and finally, output muscle feedback. This model is most suitable for computer simulation of large natural and man-made systems. The basic characteristics of this model and two examples are presented.
Shape Quantization and Recognition with Randomized Trees (1997)

We explore a new approach to shape recognition based on a virtually infinite family of binary features (queries) of the image data, designed to accommodate prior information about shape invariance and regularity. Each query corresponds to a spatial arrangement of several local topographic codes (or tags), which are in themselves too primitive and common to be informative about shape. All the discriminating power derives from relative angles and distances among the tags. The important attributes of the queries are a natural partial ordering corresponding to increasing structure and complexity; semi-invariance, meaning that most shapes of a given class will answer the same way to two queries that are successive in the ordering; and stability, since the queries are not based on distinguished points and substructures. No classifier based on the full feature set can be evaluated, and it is impossible to determine a priori which arrangements are informative. Our approach is to select informative features and build tree classifiers at the same time by inductive learning. In effect, each tree provides an approximation to the full posterior where the features chosen depend on the branch that is traversed. Due to the number and nature of the queries, standard decision tree construction based on a fixed-length feature vector is not feasible. Instead we entertain only a small random sample of queries at each node, constrain their complexity to increase with tree depth, and grow multiple trees. The terminal nodes are labeled by estimates of the corresponding posterior distribution over shape classes. An image is classified by sending it down every tree and aggregating the resulting distributions. The method is applied to classifying handwritten digits and synthetic linear and nonlinear deformations of three hundred [Formula: see text] symbols. State-of-the-art error rates are achieved on the National Institute of Standards and Technology database of digits. The principal goal of the experiments on [Formula: see text] symbols is to analyze invariance, generalization error and related issues, and a comparison with artificial neural networks methods is presented in this context. [Figure: see text]