gebhart/patrepeval huggingface dataset:
Supplementary Figure 3 from RapidCaP, a Novel GEM Model for Metastatic Prostate Cancer Analysis and Therapy, Reveals Myc as a Driver of <i>Pten</i>-Mutant Metastasis (2023)

&lt;p&gt;PDF file 152K, Histological analysis reveals characteristics of metastasis in RapidCaP&lt;/p&gt;
Sub-harmonic response from polymer-shelled contrast agents with a 40-MHz excitation (2008)

There is a growing interest in using acoustic contrast agents with high-frequency ultrasound (> 15 MHz) in order to better visualize microcirculation. Experiments were performed with polycaprolactone-shelled agents (POINT Biomedical, San Carlos, CA) having mean diameters of 0.56, 1.1, and 3.4 mum. The agents were heavily diluted in filtered water and injected through a 200 mum channel into the focal zone of a 40-MHz transducer that had a focal length of 12 mm and an outer diameter of 6 mm. Backscatter signals from single agents were digitized using tone bursts of 5 to 20 cycles at peak-negative pressures of 0.6 to 6.3 MPa. 1000 valid single-bubble backscatter events at each exposure condition were digitized and then analyzed for 20-MHz subharmonic content. The data showed that the subharmonic response was initiated between 5 and 10 cycles and the likelihood of a subharmonic event increased as the number of cycles increased. A subharmonic backscatter response was most likely at 3.9 MPa for the 3.4 mum agent and 1.7 MPa for the 0.56 and 1.1 mum agents. The increased pressure for subharmonic activity for larger agent was consistent with its larger size.
Adjuvant Analgesia Reduces Risk of Poor Patient Outcomes in Pediatric Posterior Spinal Fusion (2018)

Purpose: Variation in postoperative pain management for children undergoing posterior spinal fusion (PSF) for adolescent idiopathic (AIS) or neuromuscular (NMS) scoliosis likely impacts outcomes, including adverse events from opioid use or hospital-acquired conditions. Evidence to support strategies that most effectively minimize prolonged intravenous (IV) opioids and hospitalizations is lacking. Our objectives were to describe variation in use of adjuvant therapies for managing postoperative pain in in patients undergoing PSF and determine the association between use of …
Coordinated Load Balancing in Mobile Edge Computing Network: a Multi-Agent DRL Approach (2022)

Mobile edge computing (MEC) networks have been recently adopted to accommodate the fast-growing number of mobile devices performing complicated tasks with limited hardware capability. Recently, edge nodes with communication, computation, and caching capacities are starting to be deployed in MEC networks. Due to the physical separation of these resources, efficient coordination and scheduling are important for efficient resource utilization and optimal network performance. In this paper, we study mobility load balancing for communication, computation, and caching-enabled heterogeneous MEC networks. Specifically, we propose to tackle this problem via a multi-agent deep reinforcement learning-based framework. Users served by overloaded edge nodes are handed over to less loaded ones, to minimize the load in the most loaded base station in the network. In this framework, the handover decision for each user is made based on the user’s own observation which comprises the user’s task at hand and the load status of the MEC network. Simulation results show that our proposed multi-agent deep reinforcement learning-based approach can reduce the time-average maximum load by up to 30% and the end-to-end delay by 50% compared to baseline algorithms.
Pyrolysis of Woody Residue Feedstocks: Upgrading of Bio-oils from Mountain-Pine-Beetle-Killed Trees and Hog Fuel (2014)

Liquid transportation fuel blendstocks were produced by pyrolysis and catalytic upgrading of woody residue biomass. Mountain-pine-beetle-killed (MPBK) wood and hog fuel from a saw mill were pyrolyzed in a 1 kg/h fluidized bed reactor and, subsequently, upgraded to hydrocarbons in a continuous fixed bed hydrotreater. Upgrading was performed by catalytic hydrotreatment in a two-stage bed at 170 and 405 °C with a per bed liquid hourly space velocity between 0.17 and 0.19. The overall yields from biomass to upgraded fuel were similar for both feeds (24–25%), despite the differences in bio-oil (intermediate) mass yield. The pyrolysis bio-oil mass yield was 61% from MPBK wood, and subsequent upgrading of the bio-oil gave an average mass yield of 41% to liquid fuel blend stocks. Hydrogen was consumed at an average of 0.042 g/g of bio-oil fed, with a final oxygen content in the product fuel ranging from 0.3 to 1.6% over the course of the test. Comparatively, for hog fuel, the pyrolysis bio-oil mass yield was lower at 54% because of inorganics in the biomass, but subsequent upgrading of that bio-oil had an average mass yield of 45% to liquid fuel, resulting in a similar final mass yield to fuel compared to the cleaner MPBK wood. Hydrogen consumption for the hog fuel upgrading averaged 0.041 g/g of bio-oil fed, and the final oxygen content of the product fuel ranged from 0.09 to 2.4% over the run. While it was confirmed that inorganic-laden biomass yields less bio-oil, this work demonstrated that the resultant bio-oil can be upgraded to hydrocarbons at a higher yield than bio-oil from clean wood. Thus, the final hydrocarbon yield from clean or residue biomass pyrolysis/upgrading was similar.
2565. A Novel Prognostic Gene Set for the Prediction of Severe Dengue (2018)

Abstract Background There is an urgent need for the identification of biomarkers predictive of severe dengue. Single cohort transcriptomic studies have not yielded a parsimonious gene set predictive of severe dengue. We hypothesized that integration of gene expression data from heterogeneous patient populations with dengue infection would yield a set of conserved genes that is predictive of severe dengue and generalizable across cohorts. Methods Ten dengue gene expression datasets were identified in publicly available microarray repositories. A novel integrated multicohort platform was used to detect differentially expressed gene transcripts between uncomplicated and severe dengue patients and validate the identified putative signature in silico and prospectively in a new cohort of 34 dengue patients in Colombia. Dengue diagnosis was made by NS1 antigen and anti-DENV IgM antibody and confirmed by RT-PCR assays, ELISA, and IgG avidity measurements. The expression level of the signature genes was measured via microfluidic qRT-PCR assays in blood samples collected longitudinally during the course of illness. Results Using the multicohort analysis to analyze 446 peripheral blood samples of patients with dengue infection from 7 publicly available gene expression datasets, we identified a 20 gene set that predicts the development of severe dengue. We in silico validated the diagnostic power of this gene set to separate severe dengue from dengue with or without warning signs in 3 independent datasets composed of 84 samples with a global area under the ROC curve (AUC) of 0.80 [95% CI 0.68–0.88]. We prospectively validated the gene set in a new cohort composed of 34 dengue patients from Colombia with an AUC of 0.89 [95% CI 0.81–0.97]. The severity scores measured in patients with severe dengue progressively declined in longitudinal samples. Conclusion Our data indicate that the identified 20 gene signature predicts the development of severe dengue in patients prior to its onset and suggest that dengue infection itself triggers this host response. These findings may provide new insight into the pathogenesis of severe dengue and have implications for the development of a prognostic molecular assay to identify patients at risk to develop severe dengue. Disclosures T. E. Sweeney, Inflammatix, Inc.: Employee and Shareholder, Salary. P. Khatri, Inflammatix, Inc: Scientific Advisor and Shareholder, Licensing agreement or royalty.
Amulet (2014)

Interest in using mobile technologies for health-related applications (mHealth) has increased. However, none of the available mobile platforms provide the essential properties that are needed by these applications. An mHealth platform must be (i) secure; (ii) provide high availability; and (iii) allow for the deployment of multiple third-party mHealth applications that share access to an individual's devices and data. Smartphones may not be able to provide property (ii) because there are activities and situations in which an individual may not be able to carry them (e.g., while in a contact sport). A low-power wearable device can provide higher availability, remaining attached to the user during most activities. Furthermore, some mHealth applications require integrating multiple on-body or near-body devices, some owned by a single individual, but others shared with multiple individuals. In this paper, we propose a secure system architecture for a low-power bracelet that can run multiple applications and manage access to shared resources in a body-area mHealth network. The wearer can install a personalized mix of third-party applications to support the monitoring of multiple medical conditions or wellness goals, with strong security safeguards. Our preliminary implementation and evaluation supports the hypothesis that our approach allows for the implementation of a resource monitor on far less power than would be consumed by a mobile device running Linux or Android. Our preliminary experiments demonstrate that our secure architecture would enable applications to run for several weeks on a small wearable device without recharging.
Cope Elimination:  Elucidation of Solvent Effects from QM/MM Simulations (2006)

The Cope elimination reactions for threo- and erythro-N,N-dimethyl-3-phenyl-2-butylamine oxide have been investigated using QM/MM calculations in water, THF, and DMSO. The aprotic solvents provide up to million-fold rate accelerations. The effects of solvation on the reactants, transition structures, and rates of reaction are elucidated here using two-dimensional potentials of mean force (PMF) derived from free-energy perturbation calculations in Monte Carlo simulations (MC/FEP). The resultant free energies of activation in solution are in close agreement with experiment. Ab initio calculations at the MP2/6-311+G-(2d,p) level using the PCM continuum solvent model were also carried out; however, only the QM/MM methodology was able to reproduce the large rate increases in proceeding from water to the dipolar aprotic solvents. Solute-solvent interaction energies and radial distribution functions are also analyzed and show that poorer solvation of the reactant in the aprotic solvents is primarily responsible for the observed rate enhancements. It is found that the amine oxide oxygen is the acceptor of three hydrogen bonds from water molecules for the reactant but only one to two weaker ones at the transition state. The overall quantitative success of the computations supports the present QM/MM/MC approach, featuring PDDG/PM3 as the QM method.
The spaceborne infrared atmospheric sounder for geosynchronous earth orbit (SIRAS-G): pathfinder to space (2007)

The Spaceborne Infrared Sounder for Geosynchronous Earth Orbit (SIRAS-G) was developed by Ball Aerospace and Technologies Corp (BATC) under NASA's 2002 Instrument Incubator Program. SIRAS-G is a technology development program focused on next-generation IR imaging spectrometers for sounding of the atmosphere. SIRAS-G is ideally suited for measuring atmospheric temperature and water vapor profiles, trace gases concentrations, land and ocean surface temperatures and the IR mineral dust aerosol signature from satellite, providing high-spectral resolution imaging spectroscopy over a broad IR spectral range and extended field of view. Instrument concepts for future mission in LEO and GEO are discussed, including an instrument concept to be flown in low earth orbit having the potential to provide high spatial resolution, comparable to that of MODIS, along with the high spectral resolution currently being demonstrated by the Atmospheric Infrared Sounder (AIRS). This capability would dramatically improve the yield of cloud-free pixels scenes that can be assimilated into Numerical Weather Prediction (NWP) models. The SIRAS-G dispersive spectrometer module is readily adaptable for missions in LEO, GEO and MEO orbits and can be optimized for spectral resolution over subsets of the total spectral range. We have completed the 3-year SIRAS-G IIP development effort, including successful testing of the SIRAS-G laboratory demonstration spectrometer that utilized the Hawaii 1RG MWIR FPA. Performance testing was conducted at cryogenic temperatures and the performance of the demo instrument has been quantified including measurement of keystone distortion, spectral smile, MTF, and the spectral response function (SRF) to high accuracy. We present the results of the laboratory instrument development including characterization of the demonstration instrument performance. We discuss instrument concepts utilizing SIRAS-G technology for potential future missions including an anticipated airborne flight demonstration.
Effects of contact formulation and bulk processing on the switching performance of Si-doped Cu-compensated GaAs (1992)

The Bulk Optically Controlled Semiconductor Switch (BOSS) is based on GaAs doped with silicon and compensated with diffused copper. The BOSS device can be turned on with a laser pulse of one wavelength and turned off with a second laser pulse of a different wavelength. The resulting electrical pulse duration may be varied depending on the timing between the two, relatively short, laser pulses. Two factors that limit the lifetime of this photoconductive switch are the choice of contact gcometry/formulation, and the conductivity during the "on-state." Diffused copper forms several deep acceptor levels in GaAs:Si, and the two dominant levels are labeled CUA and CuB which are located 0.14 eV and 0.44 eV from the top of the valence band respectively. The BOSS switching concept relies on the CuB level, and therefore the CUA level is considered to be parasitic. The on-state conductivity of the switch can be enhanced by either maximizing the density of CUB acceptors through processing techniques, or by increasing the total donor/acceptor concentrations. The contact formulation must also be considered due to the high currents through these devices. The lifetimes of similar devices have been directly measured using an automated, high-current, pulse circuit. The following paper describes our recent progress related to the bulk processing of BOSS devices, contact geometry/formulations, and experimental lifetime studies.
Serotonin transporter (5‐HTT) gene and bipolar affective disorder (1998)

Interactions with antidepressants, as well as other biochemical evidence, implicate the serotonin transporter 5-HTT in the etiology of affective disorders. However, genetic studies have produced conflicting results concerning an association of 5-HTT with bipolar disorder. We examined a variable number tandem repeat in the regulatory region of this gene to investigate the possible contribution of 5-HTT to bipolar disorder susceptibility in a 22-pedigree series. By affected-sib-pair analysis and the transmission/disequilibrium test, we found no significant linkage or association of 5-HTT to bipolar disorder. During the course of this study, we adapted a PCR technique designed to amplify long templates to replicating long GC stretches with complex structure. We also refined the location of 5-HTT by radiation hybrid mapping, placing the locus between D17S1294 and SHGC-11022 on 17q11.2. Am. J. Med. Genet. (Neuropsychiatr. Genet.) 81:37–40, 1998. © 1998 Wiley-Liss, Inc.
Exact Outage Probability of Opportunistic DF Relay Systems With Interference at Both the Relay and the Destination Over Nakagami-$m$ Fading Channels (2012)

In this paper, we investigate the outage behavior of a dual-hop opportunistic decode-and-forward (DF) relay system with cochannel interference (CCI) at both the relay and the destination. The source–relay and relay–destination channels and the interferers' channels at both the relay and the destination nodes are assumed to follow Nakagami- <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$m$</tex></formula> distribution. Exact closed-form expressions for the outage probability for both independent nonidentically distributed (i.n.d.) and independent identically distributed (i.i.d.) cases of interferers' channels are derived in this paper. Furthermore, the system behavior at high SNR values is studied via deriving the asymptotic outage probability, and hence, the diversity order and the coding gain are characterized. Our results show that the cochannel interferers do not reduce the diversity gain of the system; instead, they degrade the outage performance by affecting the coding gain of the system. The accuracy of the analytical results is supported by Monte Carlo simulations.
Mid-wave infrared narrow bandwidth guided mode resonance notch filter (2017)

We have designed, fabricated, and characterized a guided mode resonance notch filter operating in the technologically vital mid-wave infrared (MWIR) region of the electromagnetic spectrum. The filter provides a bandstop at λ≈4.1 μm, with a 12 dB extinction on resonance. In addition, we demonstrate a high transmission background (>80%), less than 6% transmission on resonance, and an ultra-narrow bandwidth transmission notch (10 cm<sup>-1</sup>). Our filter is optically characterized using angle- and polarization-dependent Fourier transform infrared spectroscopy, and simulated using rigorous coupled-wave analysis (RCWA) with excellent agreement between simulations and our experimental results. Using our RCWA simulations, we are able to identify the optical modes associated with the transmission dips of our filter. The presented structure offers a potential route toward narrow-band laser filters in the MWIR.
Propagation Path Loss Models for 5G Urban Micro- and Macro-Cellular Scenarios (2016)

This paper presents and compares two candidate large-scale propagation path loss models, the alpha-beta-gamma (ABG) model and the close-in (CI) free space reference distance model, for the design of fifth generation (5G) wireless communication systems in urban micro- and macro-cellular scenarios. Comparisons are made using the data obtained from 20 propagation measurement campaigns or ray- tracing studies from 2 GHz to 73.5 GHz over distances ranging from 5 m to 1429 m. The results show that the one-parameter CI model has a very similar goodness of fit (i.e., the shadow fading standard deviation) in both line-of-sight and non-line-of-sight environments, while offering substantial simplicity and more stable behavior across frequencies and distances, as compared to the three-parameter ABG model. Additionally, the CI model needs only one very subtle and simple modification to the existing 3GPP floating-intercept path loss model (replacing a constant with a close-in free space reference value) in order to provide greater simulation accuracy, more simplicity, better repeatability across experiments, and higher stability across a vast range of frequencies.
Multi-Model Validation of Currents in the Chesapeake Bay Region in June 2010 (2012)

In this paper, we discuss the validation of water level and current predictions from three coastal hydrodynamic models and document the resource and operational requirements for each modeling system. The ADvanced CIRCulation Model (ADCIRC), the Navy Coastal Ocean Model (NCOM), and Delft3D have been configured and validated for the Chesapeake Bay region during a Navy exercise. Water level predictions are compared with a NOAA/NOS water level gauge at the Chesapeake Bay Bridge Tunnel location while current predictions are validated with Acoustic Doppler Profiler (ADP) measurement records at three locations in the lower Chesapeake Bay. Statistical metrics such as correlation coefficient and root mean square error (RMSE) are computed. Both the vertically-integrated currents and currents at varying water depths are compared as well. The model-data comparisons for surface elevation indicate all three models agreed well with water level gauge data. The two-dimensional version of ADCIRC, ADCIRC2D, and NCOM yield better statistics, in terms of correlation and RMSE, than Delft3D. For vertically-integrated currents, ADCIRC2D has the smallest RMSE at Thimble Shoal and Naval Station locations while NCOM has the smallest RMSE at Cape Henry. For the horizontal currents over the water column, the fully three-dimensional, baroclinic ADCIRC model, ADCIRC3D, and NCOM both showed better agreement with the ADP measurements.
Low leakage current gate dielectrics prepared by ion beam assisted deposition for organic thin film transistors (2007)

This communication reports on the fabrication of low operating voltage pentacene thin-film transistors with high-k gate dielectrics by ion beam assisted deposition (IBAD). These densely packed dielectric layers by IBAD show a much lower level of leakage current than those created by e-beam evaporation. These results, from the fact that those thin films deposited with low adatom mobility, have an open structure, consisting of spherical grains with pores in between, that acts as a significant path for leakage current. By contrast, our results demonstrate the potential to limit this leakage. The field effect mobility, on/off current ratio, and subthreshold slope obtained from pentacene thin-film transistors (TFTs) were 1.14 cm2/V s, 105, and 0.41 V/dec, respectively. Thus, the high-k gate dielectrics obtained by IBAD show promise in realizing low leakage current, low voltage, and high mobility pentacene TFTs.
Comment on “Structure of Smectic Defect Cores: X-Ray Study of 8CB Liquid Crystal Ultrathin Films” (2006)

International audience
Evaluation of Collision Detection Methods for Virtual Reality Fly-Throughs (1995)

We consider the problem of preprocessing a scene of polyhedral models in order to perform collision detection very efficiently for an object that moves amongst obstacles. This problem is of central importance in virtual reality applications, where it is necessary to check for collisions at real-time rates. We give an algorithm for collision detection that is based on the use of a mesh (tetrahedralization) of the free space that has (hopefully) low stabbing number. The algorithm has been implemented and tested, and we give experimental results comparing its performance against three other algorithms that we implemented, based on standard data structures. A preliminary version of this paper appeared in the proceedings of the 7 th Canad. Conf. Computat. Geometry, Qu&amp;apos;ebec, Aug 10--13, 1995. y held@ams.sunysb.edu; Supported by NSF Grant DMS-9312098. On sabbatical leave from Universitat Salzburg, Salzburg, Austria. z jklosow@ams.sunysb.edu; Supported by NSF grants ECSE-8857642 and C...
Reduction of PFC emissions by gas circulation cleaning in plasma CVD (2002)

A new method for plasma-CVD chamber cleaning using gas circulation has been developed. Unused gas contained in the exhaust gas during chamber cleaning was returned to chamber, and it was reused. Using this method, approximately 50% reduction of the amount of C/sub 2/F/sub 6/ used and net PFC emissions could be achieved without increasing the cleaning endpoint time.