gebhart/patrepeval huggingface dataset:
Passive network tomography using EM algorithms (2002)

The paper presents a new method for characterizing communication network performance based solely on passive traffic monitoring at the network edge. More specifically, we devise a novel expectation-maximization (EM) algorithm to infer internal packet loss rates (at routers inside the network) using only observed end-to-end (source to receiver) loss rates. The major contributions of this paper are three-fold: we formulate a passive monitoring procedure for network loss inference based on end-to-end packet pair observations, we develop a statistical modeling and computation framework for inferring internal network loss characteristics, and we evaluate the performance with realistic network simulations.
Universal Light-Sheet Generation with Field Synthesis (2018)

Abstract We introduce Field Synthesis, a theorem that can be used to synthesize any scanned or dithered light-sheet, including those used in lattice light-sheet microscopy (LLSM), from an incoherent superposition of one-dimensional intensity distributions. This user-friendly and modular approach offers a drastically simplified optical design, higher light-throughput, simultaneous multicolor illumination, and a 100% spatial duty cycle, thereby providing uncompromised biological imaging with decreased rates of photobleaching.
Characterization of the major glycoproteins of equine herpesviruses 4 and 1 and asinine herpesvirus 3 using monoclonal antibodies (1991)

A panel of 14 monoclonal antibodies (MAbs) was used to characterize the high abundance glycoproteins of equine herpesviruses 4 (EHV-4) and 1 (EHV-1), and asinine herpesvirus 3 (AHV-3). The specificities of the MAbs, which had been determined previously for strains of EHV-4 and -1 from the U.S.A., in general were confirmed by ELISA for Australian strains of these viruses. Of the 14 MAbs seven were EHV-4 and -1 type-common and cross-reacted with AHV-3. Of the five MAbs that were EHV-1 type-specific, four cross-reacted with AHV-3, whereas neither of the EHV-4 type-specific MAbs reacted with AHV-3, providing further evidence for a closer evolutionary relationship between EHV-1 and AHV-3 than that between either of these viruses and EHV-4. By Western blot and immunoprecipitation analyses, the identity of the six major glycoproteins, gp2, gp10, gp13, gp14, gp18 and gp21/22a, of an Australian EHV-1 isolate was verified, and it was shown that AHV-3 had cross-reactive glycoproteins of very similar Mr to those of EHV-1; five homologous glycoproteins of EHV-4 were also identified. It was determined that the EHV-4 gp13 homologue had a much reduced Mr (67K) when the virus was grown in a continuous cell line than when grown in equine foetal kidney cells (95K). It is suggested that altered glycosylation by the cell line is responsible for this change in Mr. Those glycoproteins acting as major immunogens in the naturally infected host, at least in their ability to elicit antibody, were identified. It was found that gp2, gp13, gp14, gp18 and a glycoprotein at 120K (EHV-1) or 116K (EHV-4) were all important immunogens in mares following EHV-1-induced abortion, and in a specific pathogen-free foal experimentally infected with EHV-1 and later cross-challenged with EHV-4. Gp2, gp14 and gp18 were the major immunogens in the donkey in response to AHV-3 infection. The type specificity associated with these glycoproteins was also examined and it was found that although most if not all contain type-specific epitopes, gp2 and a glycoprotein at 120K, and to a lesser extent gp13 and gp18, were significantly type-specific in the serum from a mare following natural EHV-1 infection and abortion.
Transport of Ions and Molecules in Nanofluidic Devices (2008)

Interesting transport phenomena arise when fluids are confined to nanoscale dimensions in the range of 1–100 nm. We examine three distinct effects that influence ionic and molecular transport as the size of fluidic channels is decreased to the nanoscale. First, the length scale of electrostatic interactions in aqueous solutions becomes comparable to nanochannel size and the number of surface charges becomes comparable to the number of ions in the channel. Second, the size of the channel becomes comparable to the size of biomolecules such as proteins and DNA. Third, large surface area-to-volume ratios result in rapid rates of surface reactions and can dramatically affect transport of molecules through the channel. These phenomena enable us to control transport of ions and molecules in unique ways that are not possible in larger channels. Electrostatic interactions enable local control of ionic concentrations and transport inside nanochannels through field effect in a nanofluidic transistor, which is analogous to the metal-oxide-semiconductor field effect transistor. Furthermore, by controlling surface charge in nanochannels, it is possible to create a nanofluidic diode that rectifies ionic transport through the channel. Biological binding events result in partial blockage of the channel, and can thus be sensed by a decrease in nanochannel conductance. At low ionic concentrations, the effect of biomolecular charge is dominant and it can lead to an increase in conductance. Surface reactions can also be used to control transport of molecules though the channel due to the large surface area-to-volume ratios. Rapid surface reactions enable a new technique of diffusion-limited patterning (DLP), which is useful for patterning of biomolecules and surface charge in nanochannels. These examples illustrate how electrostatic interactions, biomolecular size, and surface reactions can be used for controlling ionic and molecular transport through nanochannels. These phenomena may be useful for operations such as analyte focusing, pH and ionic concentration control, and biosensing in micro- and nanofluidic devices.
A Noncovalent Complex Vaccine Prepared with Detoxified Escherichia coli J5 (Rc Chemotype) Lipopolysaccharide and Neisseria meningitidis Group B Outer Membrane Protein Produces Protective Antibodies against Gram-Negative Bacteremia (1996)

Earlier studies showed that purified IgG from sera of rabbits immunized with a boiled Escherichia coli J5 (Rc chemotype) whole cell vaccine protected neutropenic rats against gram-negative bacterial sepsis. In the present study, de-O-acylated J5 lipopolysaccharide (J5 DLPS) as a noncovalent complex with Neisseria meningitidis group B outer membrane protein (GBOMP) elicited anti-J5 LPS antibodies in rabbits. IgG prepared from immune rabbit sera protected neutropenic rats against lethal challenge with Pseudomonas aeruginosa 12:4:4 (Fisher Devlin immunotype 6). Sixteen of 26 rats treated with the postimmune serum IgG were protected compared with none of 20 rats treated with the control rabbit serum IgG (P < .001). In vitro binding studies showed binding of anti-J5 IgG to several gram-negative bacteria. These results indicate that a subunit vaccine made of J5 DLPS as a noncovalent complex with GBOMP may protect against gram-negative bacteremia.
An enzyme-linked immunosorbent assay for cancer procoagulant and its potential as a new tumor marker. (1990)

Cancer procoagulant (CP) is a Mr 68,000 cysteine proteinase that initiates blood coagulation and is expressed by a variety of malignant cells but not by normally differentiated cells. Polyclonal immunoglobulin G and monoclonal immunoglobulin M antibodies were developed to purified CP and used to develop an enzyme-linked immunosorbent assay to analyze the antigen in human serum samples. The purpose of this preliminary study was to determine whether or not the analysis of CP in the serum might be a useful tumor marker. Pure CP was added to normal serum to establish a quantitative standard curve; the correlation coefficient of seven standard curves was 0.99. The upper limit of the normal range was established with 46 normal sera (mean +/- 2 SD = 0.57 microgram/ml). A total of 128 blinded serum samples were analyzed: 54 were from cancer patients (29 with gastrointestinal cancer, 22 with lung cancer, and three with urogenital cancer); 20 were from benign disease patients; and 54 were from normal individuals. All of the 13 early stage cancers were greater than 0.57 microgram/ml (positive), 31 of 41 (76%) of the late stage cancers were positive; overall, 44 of the 54 cancers (81%) were positive. Forty-nine of 54 (91%) of the normal sera and 16 of 20 (80%) of the benign disease sera were negative. Overall, the assay had a sensitivity of 81% and a specificity of 88%.
Dietary Management of Labrador Retrievers with Subclinical Hepatic Copper Accumulation (2015)

Feeding a low-copper, high-zinc diet resulted in a decrease in hepatic copper concentrations in a subset of clinically normal Labrador retrievers with previous hepatic copper accumulation. A positive response to diet may be influenced by genetic background. Determination of clinical benefit requires further study.
A new three-level soft-switched converter (2004)

A three-level, constant-frequency, isolated converter which employs a coupled inductor to achieve zero-voltage switching (ZVS) of the primary switches in the entire line and load range is described. Because the coupled inductor does not appear as a series inductance in the load current path, it does not cause a loss of duty cycle or severe voltage ringing across the output rectifiers. The operation and performance of the proposed converter was verified on a 1-kW prototype.
Flash Carbonization of Biomass (2003)

We describe the ignition and control of a flash fire at elevated pressure (≈1 MPa) within a packed bed of biomass. The fire moves upward through the bed, against the downward flow of air, triggering the transformation of biomass into gas at elevated pressure, and charcoal with fixed-carbon yields that reach the thermochemical equilibrium “limit” in <30 min of reaction time. In a typical experiment 65% of the moist feedstock mass is converted into a combustible gas at 1 MPa, and 40% of the dry mass remains as charcoal, retaining as much as 66% of the energy content of the feedstock. Biomass feedstocks included woods (Leucaena and oak) and agricultural byproducts (macadamia nut shells and corncob). In the case of corncob, the fixed-carbon yield attained the theoretical limit (28%), and the bed was fully carbonized after 20 min. Some of these findings were unexpected. For example, thermochemical equilibrium calculations predicted a negligible influence of pressure on charcoal yields, but we observed considerable improvements at modest elevated pressures (e.g., 1 MPa). Furthermore, the fixed-carbon yields for oak wood and corncob in this work exceeded the yields obtained at similar elevated pressures in the absence of air within an electrically heated autoclave. Some qualitative kinetic explanations are offered to explain these unexpected results.
Regression of advanced rat and human gliomas by local or systemic treatment with oncolytic parvovirus H-1 in rat models (2010)

Oncolytic virotherapy is a potential treatment modality under investigation for various malignancies including malignant brain tumors. Unlike some other natural or modified viruses that show oncolytic activity against cerebral neoplasms, the rodent parvovirus H-1 (H-1PV) is completely apathogenic in humans. H-1PV efficiently kills a number of tumor cells without harm to corresponding normal ones. In this study, the concept of H-1PV-based virotherapy of glioma was tested for rat (RG-2 cell-derived) and for human (U87 cell-derived) gliomas in immunocompetent and immunodeficient rat models, respectively. Large orthotopic rat and human glioma cell-derived tumors were treated with either single stereotactic intratumoral or multiple intravenous (iv) H-1PV injections. Oncolysis was monitored by magnetic resonance imaging and proven by histology. Virus distribution and replication were determined in brain and organs. In immunocompetent rats bearing RG-2-derived tumors, a single stereotactic intratumoral injection of H-1PV and multiple systemic (iv) applications of the virus were sufficient for remission of advanced and even symptomatic intracranial gliomas without damaging normal brain tissue or other organs. H-1PV therapy resulted in significantly improved survival (Kaplan-Meier analysis) in both the rat and human glioma models. Virus replication in tumors indicated a contribution of secondary infection by progeny virus to the efficiency of oncolysis. Virus replication was restricted to tumors, although H-1PV DNA could be detected transiently in adjacent or remote normal brain tissue and in noncerebral tissues. The results presented here and the innocuousness of H-1PV for humans argue for the use of H-1PV as a powerful means to perform oncolytic therapy of malignant gliomas.
Incorporating signal history into transfer logic for two-path echo cancelers (2015)

Two-path echo cancelers offer an effective mechanism to deal with the double-talk problem. A fixed foreground (FG) filter cancels echo while an adaptive background (BG) filter learns the echo path response. The coefficients of the BG filter are transfered to the FG filter when a set of fitness conditions are satisfied. Whereas previous works used memoryless metrics in the coefficient transfer logic, this paper demonstrates that historical information gives a more complete picture about the convergence and non-convergence of the BG filter. History- based transfer logic yields robust performance during double- talk and barge-in events.
Inhibition of Human Immunodeficiency Virus Type 1 Infection in SCID-hu Thy/Liv Mice by the G-Quartet-Forming Oligonucleotide, ISIS 5320 (1998)

Viral replication was inhibited in a dose-dependent manner after administration of the phosphorothioate oligonucleotide TTGGGGTT (ISIS 5320) to human immunodeficiency virus type 1 (HIV-1)-infected SCID-hu Thy/Liv mice. Potent in vivo antiviral activity was observed against the T-cell-tropic molecular clone NL4-3; the agent was found to have weak activity against one primary HIV-1 isolate, and the agent was inactive against a second primary isolate.
High-speed interferometric spectrally encoded flow cytometry (2012)

Spectrally encoded flow cytometry (SEFC) is a promising technique for noninvasive in vivo microscopy of blood cells. Here, we introduce a novel SEFC system for label-free confocal imaging of blood cells flowing at velocities of up to 10 mm/s within 65 μm-diameter vessels. The new system employs interferometric Fourier-domain detection and a high-speed wavelength-swept source, allowing 100 kHz line rate, sufficient for sampling the rapidly flowing cells 80 μm below the tissue surface. The large data sets obtained by this technique would improve diagnosis accuracy, reduce imaging time, and open new possibilities for noninvasive monitoring of blood in patients.
Self-tracking solar concentration: Improvements to the demonstrator (2014)

Solar concentration requires tracking to function effectively by following the sun’s position. The proposed self-tracking system greatly reduces the constraints on tracking. We built a demonstration device and report on the results and improvements.
Iterative equalization in non-linear satellite channels (2012)

The nonlinear distortion in efficiently operated wide bandwidth and high power amplifiers often limits the throughput and performance of satellite communications. Volterra series decomposition provides an efficient and analytically tractable way to represent the nonlinear satellite communication channel. Realizing that only a few dominant terms in the Volterra series are needed to accurately describe the channel, this paper proposes a computationally efficient nonlinear soft interference cancellation (SIC) minimum mean square error (MMSE) equalizer. Simulation demonstrates that the nonlinear SIC MMSE equalizer outperforms its linear counter part in performance while achieving an 80% computational complexity reduction.
Practical implementation of compressive sensing to UWB signals (2012)

Compressive sensing (CS) is proposed by many researchers as a solution to the formidable sampling requirements of the promising Ultra wideband technology (UWB). Previous research was evaluated by simulating the IEEE UWB channel model. This paper studies the behavior of compressive sensing for practical UWB signals and proposes approaches to enhance the signal reconstruction performance. Four practically-based dictionaries are proposed to increase the sparsity of the realistic UWB signals. Those dictionaries accounts for the practical effects of the channel like pulse dispersion and the unavoidable effects of the antenna directivity. Both measured data and a more practical directional model are used for evaluation. It is shown that CS based on the new dictionaries is able to reconstruct the practical UWB signals more efficiently with reasonable complexity.
Mice Deficient for Both Corticotropin-Releasing Factor Receptor 1 (CRFR1) and CRFR2 Have an Impaired Stress Response and Display Sexually Dichotomous Anxiety-Like Behavior (2002)

Corticotropin-releasing factor (CRF) and its family of peptides are critical coordinators of homeostasis whose actions are mediated through their receptors, CRF receptor 1 (CRFR1) and CRFR2, found throughout the CNS and periphery. The phenotypes of mice deficient in either CRFR1 or CRFR2 demonstrate the critical role these receptors play. CRFR1-mutant mice have an impaired stress response and display decreased anxiety-like behavior, whereas CRFR2-mutant mice are hypersensitive to stress and display increased anxiety-like behavior. To further elucidate the roles of both CRF receptors and determine their interaction in behaviors, we have generated mice deficient in both CRFR1 and CRFR2. The behavioral phenotype of these mice demonstrates a novel role of the mother's genotype on development of pup anxiety. We have found that although the female double-mutant mice display anxiolytic-like behavior, the male double-mutant mice show significantly more anxiety-like behavior compared with the females. We have also determined that the dam's CRFR2 genotype affects the anxiety-like behavior of the male mice, such that a pup born to a heterozygous or mutant dam displays significantly more anxiety-like behavior regardless of that pup's genotype. Double-mutant mice also display an even greater impairment of their hypothalamic-pituitary-adrenal axis response to stress than that of the CRFR1-mutant mice. CRF mRNA levels are elevated in CRFR1- and double-mutant mice, and urocortin III and vasopressin mRNA levels are increased in CRFR2- and double-mutant mice. These results indicate that both CRFR1 and CRFR2 have critical roles in gene regulation and the maintenance of homeostasis in response to stress.
High-Performance Cementitious Matrix using Carbon Nanofibers (2017)

Graphite nanomaterials would realize their reinforcement potential within cement-based materials when they are thoroughly dispersed and effectively bonded to cement hydrates. Thorough dispersion of graphite nanomaterials in the fresh cementitious matrix encounters challenges associated with the hydrophobic nature of nanomaterial surfaces and their strong tendency towards agglomeration via attractive van der Waals forces. Effective interfacial interactions with cement hydrates are further challenged by the relatively inert nature of nanomaterial surfaces. An experimental program was conducted with the objective of effectively utilizing both acid-oxidized and pristine carbon nanofibers towards reinforcement of high-performance cementitious pastes. Hybrid reinforcement systems comprising optimum volume fraction of carbon nanofibers and micro-scale fibers were also evaluated in cementitious matrices. The improvements in nanofiber dispersion and interfacial interactions resulting from acid-oxidation and use of proper dispersion techniques were found to bring about significant gains in the engineering properties of high-performance cementitious materials.
Energy-efficient interconnect via Router Parking (2013)

The increase in on-chip core counts in Chip Multi Processors (CMPs) has led to the adoption of interconnects such as Mesh and Torus, which consume an increasing fraction of the chip power. Moreover, as technology and voltage continue to scale down, static power consumes a larger fraction of the total power; reducing it is increasingly important for energy proportional computing. Currently, processor designers strive to send under-utilized cores into deep sleep states in order to reduce idling power and improve overall energy efficiency. However, even in state-of-the-art CMP designs, when a core goes to sleep the router attached to it remains active in order to continue packet forwarding. In this paper, we propose Router Parking - selectively power-gating routers attached to parked cores. Router Parking ensures that network connectivity is maintained, and limits the average interconnect latency impact of packet detouring around parked routers. We present two Router Parking algorithms - an aggressive approach to park as many routers as possible, and a conservative approach that parks a limited set of routers in order to keep the impact on latency increase minimal. Further, we propose an adaptive policy to choose between the two algorithms at run-time. We evaluate our algorithms using both synthetic traffic as well as real workloads taken from SPEC CPU2006 and PARSEC 2.1 benchmark suites. Our evaluation results show that Router Parking can achieve significant savings in the total interconnect energy (average of 32%, 40% and 41% for the synthetic, SPEC CPU2006, and PARSEC 2.1 workloads, respectively).
A CMOS compatible back end MEMS switch for logic functions (2010)

In this paper we show that by shrinking MEMS switches to sub-micron thickness and a few microns in lateral dimension, they can be encapsulated in the dielectric spacer between the metallization of a back end CMOS process. By making zero restoring force rocker switches in addition to more traditional cantilever based switches we demonstrate that by coupling several switches together logic functions can be performed. We discuss how coupled MEMS switches could be used for logic and FPGA functions and show that these switches work up to 400°C.
Positive end-expiratory pressure optimization with forced oscillation technique reduces ventilator induced lung injury: a controlled experimental study in pigs with saline lavage lung injury (2011)

In a lavage model of lung injury a PEEP optimization strategy based on maximizing Xrs attenuated the signs of ventilator induced lung injury. The respiratory system reactance measured by FOT could thus be an important component in a strategy for delivering protective ventilation to patients with ARDS/acute lung injury.
Water Pretreatment and Alkaline Treatment for Extraction of Fibers from Sugar Cane Rind (1996)

Fiber bundles from the rind of sugar cane are extracted and characterized. Cane rind is separated from the pith using the Tilby process, and the separated rind is submitted to a high temperature water pretreatment followed by extraction with sodium hydroxide. Water pretreatment affects the amount of lignin removed from cane fiber bundles as well as the physical and mechanical properties of the fibers. Higher temperature pretreatment and longer treatment times produced finer, shorter fiber bundles with higher tenacity. The most severe treatments, however, reduced the bundles to ultimate fibers that are too short for textile uses. Extracted fibers were stiffer than other textile fibers but could be formed into nonwoven geotextile mats.
Growth of an Ordered Crystalline Organic Heterojunction (2007)

A several-hundred Ångstrom thick ordered crystalline organic heterojunction consisting of copper phthalocyanine (CuPc) and 3,4,9,10-perylenetetracarboxylic dianhydride (PTCDA) is grown by organic vapor phase deposition (OVPD) on a template alkali- halide substrate. This method of low-temperature thin-film templating combines the control of film growth with crystalline ordering approaching that of organic single crystals, producing potentially useful heterojunctions for high efficiency organic thin-film devices.