gebhart/patrepeval huggingface dataset:
P203 Development Of An Optimal F/hn Pseudotyped Siv Vector For Cf Gene Therapy (2014)

<h3></h3> We are developing lung gene transfer vectors to treat acquired and inherited lung disorders such as cystic fibrosis, and have identified two platforms for efficient respiratory gene delivery: one non-viral system based on CpG-free plasmid DNA combined with cationic lipids (pDNA/GL67A), which has recently completed evaluation in a Phase IIb clinical study; and one novel viral system based on a recombinant simian immunodeficiency virus pseudotyped with the F/HN proteins of Sendai virus (rSIV. F/HN) to promote airway cell uptake. Here we report on the development of a “third generation” rSIV. F/HN vector suitable for use in the clinic. The vector is manufactured by transient transfection of cultured human cells using five producer plasmids, all of which have been engineered to be pharmacopoeia compliant. A variety of vector configurations, including a range of enhancers/promoters and transgenes, were evaluated in a panel of airway models. rSIV. F/HN vectors directed high-level, robust gene expression in fully differentiated human airway cells, human nasal brushings and human and sheep lung slices. In the mouse nose and lung, the preferred configuration directed up to x500-fold higher transgene expression than the non-viral platform, for the lifetime of the animal. Transgene expression was observed in 14.1% of lung epithelial cells (p < 0.0001 compared to controls). Repeated monthly administration (3X) was possible without loss of expression or significant histological inflammatory reactivity. Reassuringly, insertion site profiling from transduced cell lines and mouse nose/lung samples reveals a pattern of integration comparable to those reported for other lentiviral vectors in clinical development, with no evidence for enrichment of insertion at undesirable loci. The stability of rSIV. F/HN vectors was evaluated in two bronchoscope catheters and two aerosol generation devices. Encouragingly for clinical translation, no significant loss of transduction activity was noted with any of these clinically relevant delivery devices (p = 0.64). Delivery of rSIV. F/HN expressing CFTR to sheep lung resulted in CFTR mRNA at ∼30% the levels of endogenous ovine CFTR (p < 0.0001 compared to non-treated lobes), exceeding presumed therapeutic levels. With the majority of translational hurdles addressed, we are now entering toxicology studies and the final stages of pharmaceutical development prior to entering clinical trials.
Pediatric Perimeter—A Novel Device to Measure Visual Fields in Infants and Patients with Special Needs (2017)

Quantifiable parameters obtained with this device can be used as outcome measures in clinical examination of infants and patients with special needs. This device can be used in pediatric, neurology, and ophthalmology clinics.
Visible Light Positioning with Diffusing Lamps Using an Extended Kalman Filter (2017)

The desire to obtain accurate location-based services has increased with the use of mobile devices. In this study, a visible light based indoor localization method that works with both diffusing and nondiffusing lamps is proposed. The received power from the light emitting diodes (LEDs) is used as sensor input, and an extended Kalman filter (EKF) is used for state estimation. The algorithm relies on knowledge of the expected power distribution in the room. The proposed method is robust to low SNR, nonuniform power distributions, and intermittent measurements. The results show that a tracking error around 1 centimeter can be achieved.
2‐Aminobenzimidazole Derivatives Strongly Inhibit and Disperse <i>Pseudomonas aeruginosa</i> Biofilms (2012)

Bacterial biofilms are exceptionally difficult to clear using traditional antibiotics and constitute a significant health threat. 2-Aminobenzimidazole derivatives (see scheme) are capable of strongly inhibiting the growth of and dispersing Pseudomonas aeruginosa biofilms. These molecules were found to modulate quorum sensing in reporter strains, and represent some of strongest P. aeruginosa biofilm inhibitors known. Detailed facts of importance to specialist readers are published as ”Supporting Information”. Such documents are peer-reviewed, but not copy-edited or typeset. They are made available as submitted by the authors. 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.
3D microfluidic perfuison cell culture system with linear concentration gradient and air bubble trapping (2017)

This paper presents a 3D microfluidic perfusion cell culture system to mimic microenvironments. The perfusion system is integrated with bubble trapping reservoir, linear concentration generator and meandered microchannel mixer. The sudden expansion reservoir to prevent incoming of air bubbles by using buoyancy is examined. Also, for high throughput screening, the linear concentration gradient generator connected with efficient meandered channel mixer is developed. We evaluate the performance of key components numerically and experimentally. Finally, the 3D perfusion system with linear gradient of concentration of H <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> O <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> examines cytotoxicity of muscle cells with Ewing's sarcoma.
Enterprise Communications Platform Support for Integrated Location-Based Applications (2008)

Location-based services can be used by enterprises to enhance the customer experience and improve workforce operational efficiency. The focus of our work is to provide a scalable architecture for location-based services which integrates into the enterprise communications platform to support new types of converged communications services involving real-time location processing. Unlike prior work in location servers and middleware, we separate application-level processing and raw location event stream processing into two separate components. We show analytically that this leads to performance advantage. By leveraging existing event driven architecture technologies, our approach integrates with the enterprise event bus, is highly scalable, and permits other real-time event streams to be used by location-based applications. We have implemented a prototype to demonstrate the generality and validity of this approach.
Modified Cyclodextrins – A New Generation of Chiral Stationary Phases for Capillary Gas Chromatographie (1988)

Abstract 2,3,6‐Tri‐ O ‐pentylated and 2, 6‐di‐ O ‐pentylated/3‐ O ‐acetylated α‐ and β‐cyclodextrin derivatives are prepared and applied as chiral stationary phases for enantiomer separation by capillary gas chromatography. The cyclodextrin derivatives can be used over a temperature range from below room temperature to above 200°C for the separation of a large variety of chiral substrates.
A 16Mb MRAM featuring bootstrapped write drivers (2004)

A 16Mb Magnetic Random Access Memory (MRAM) is demonstrated in 0.18 /spl mu/m three-Cu-level CMOS with a three-level MRAM process adder. The chip, the highest density MRAM reported to date, utilizes a 1.42 /spl mu/m/sup 2/ 1-Transistor 1-Magnetic Tunnel Junction (1T1MTJ) cell, measures 79mm/sup 2/ and features a /spl times/16 asynchronous SRAM-like interface. The paper describes the cell, architecture, and circuit techniques unique to multi-Mb MRAM design, including a novel bootstrapped write driver circuit. Hardware results are presented.
A 2.34μJ/scan acoustic power scalable charge-redistribution pMUT interface system with on-chip aberration compensation for portable ultrasonic applications (2016)

A 1- to 8-ch scalable pMUT interface system with on-chip aberration compensation is presented for portable ultrasonic imaging applications. The system overcomes the necessity of area and power reduction for large ultrasonic arrays and presents the first hardware implementation on-chip calibration to improve the signal quality. The Charge Redistribution Transmitter (CR-TX) saves power by 32.8% while driving pMUT array at a wide range from 100 kHz to 5MHz. The CR-TX drives up to 500pF/channel load, which is 33× of the state-of-the-art ultrasonic driver reported to date. The on-chip adaptive beamformer supports five different media scans, has channel scalability and features the first demonstration of on-chip aberration compensation. The 8-ch system fabricated in 65nm CMOS occupies the core area of 700×1490μm, TX drives up to 6V while consuming 2.34μJ/scan.
Phosphoglucan-bound structure of starch phosphatase Starch Excess4 reveals the mechanism for C6 specificity (2014)

Plants use the insoluble polyglucan starch as their primary glucose storage molecule. Reversible phosphorylation, at the C6 and C3 positions of glucose moieties, is the only known natural modification of starch and is the key regulatory mechanism controlling its diurnal breakdown in plant leaves. The glucan phosphatase Starch Excess4 (SEX4) is a position-specific starch phosphatase that is essential for reversible starch phosphorylation; its absence leads to a dramatic accumulation of starch in Arabidopsis, but the basis for its function is unknown. Here we describe the crystal structure of SEX4 bound to maltoheptaose and phosphate to a resolution of 1.65 Å. SEX4 binds maltoheptaose via a continuous binding pocket and active site that spans both the carbohydrate-binding module (CBM) and the dual-specificity phosphatase (DSP) domain. This extended interface is composed of aromatic and hydrophilic residues that form a specific glucan-interacting platform. SEX4 contains a uniquely adapted DSP active site that accommodates a glucan polymer and is responsible for positioning maltoheptaose in a C6-specific orientation. We identified two DSP domain residues that are responsible for SEX4 site-specific activity and, using these insights, we engineered a SEX4 double mutant that completely reversed specificity from the C6 to the C3 position. Our data demonstrate that the two domains act in consort, with the CBM primarily responsible for engaging glucan chains, whereas the DSP integrates them in the catalytic site for position-specific dephosphorylation. These data provide important insights into the structural basis of glucan phosphatase site-specific activity and open new avenues for their biotechnological utilization.
2π ambiguity-free optical distance measurement with subnanometer precision with a novel phase-crossing low-coherence interferometer (2002)

We report a highly accurate phase-based technique for measuring arbitrarily long optical distance with subnanometer precision. The method employs a Michelson interferometer with a pair of harmonically related light sources, one cw and the other low coherence. By slightly detuning (~2 nm) the center wavelength of the low-coherence source between scans of the target sample, we can use the phase relationship between the heterodyne signals of the cw and the low-coherence light to measure the separation between reflecting interfaces with subnanometer precision. As this technique is completely free of 2pi ambiguity, an issue that plagues most phase-based techniques, it can be used to measure arbitrarily long optical distances without loss of precision. We demonstrate one application of this technique, the high-precision determination of the differential refractive index.
Operational Regimes and Physics Present in Optoelectronic Tweezers (2008)

Optoelectronic tweezers (OET) are a powerful light-based technique for the manipulation of micro- and nanoscopic particles. In addition to an optically patterned dielectrophoresis (DEP) force, other light-induced electrokinetic and thermal effects occur in the OET device. In this paper, we present a comprehensive theoretical and experimental investigation of various fluidic, optical, and electrical effects present during OET operation. These effects include DEP, light-induced ac electroosmosis, electrothermal flow, and buoyancy-driven flow. We present finite-element modeling of these effects to establish the dominant mode for a given set of device parameters and bias conditions. These results are confirmed experimentally and present a comprehensive outline of the operational regimes of the OET device.
Automated detection of pulmonary nodules from whole lung helical CT scans: performance comparison for isolated and attached nodules (2004)

The objective of this research is to evaluate and compare the performance of our automated detection algorithm on isolated and attached nodules in whole lung CT scans. Isolated nodules are surrounded by the lung parenchyma with no attachment to large solid structures such as the chest wall or mediastinum surface, while attached nodules are adjacent to these structures. The detection algorithm involves three major stages. First, the region of the image space where pulmonary nodules are to be found is identified. This involves segmenting the lung region and generating the pleural surface. In the second stage, which is the hypothesis generation stage, nodule candidate locations are identified and their sizes are estimated. The nodule candidates are successively refined in the third stage a sequence of filters of increasing complexity. The algorithm was tested on a dataset containing 250 low-dose whole lung CT scans with 2.5mm slice thickness. A scan is composed of images covering the whole lung region for a single person. The dataset was partitioned into 200 and 50 scans for training and testing the algorithm. Only solid nodules were considered in this study. Experienced chest radiologists identified a total of 447 solid nodules. 345 and 102 of the nodules were from the training and testing datasets respectively. 126(28.2%) of the nodules in the dataset were attached nodules. The detection performance was then evaluated separately for isolated and attached nodule types considering different size ranges. For nodules 3mm and larger, the algorithm achieved a sensitivity of 97.8% with 2.0 false positives (FPs) per scan and 95.7% with 19.3 FPs per scan for isolated and attached nodules respectively. For nodules 4mm and larger, a sensitivity of 96.6% with 1.5 FP per scan and a 100% sensitivity with 13 FPs per scan were obtained for isolated and attached nodule types respectively. The results show that our algorithm detects isolated and attached nodules with comparable sensitivity but differing number of false positives per scan. The high number of false positives for attached nodule detection was mainly due to the complexity of the mediastinum lung surface.
Decision selection and learning for an 'all-solutions ATPG engine' (2005)

'All-solutions ATPG' based methods have found applications in model checking sequential circuits, and they can also improve the defect coverage of a test-suite, by generating distinct multiple-detect patterns. Conventional decision selection heuristics and learning techniques for an ATPG engine were originally developed to 'quickly' find any available (single) solution. Such decision selection heuristics may not be the best for an 'all-solutions ATPG' engine, where all the solutions need to be found. In this paper, we explore new techniques to guide an 'all-solutions ATPG engine'. We first present a new decision selection heuristic that makes use of the 'connectivity of gates' in the circuit in order to obtain a compact solution-set. Next, we analyze the 'symmetry in search-states' that was exploited in 'success-driven learning' and extend it to prune conflict sub-spaces as well. Finally, we propose a new metric that determines the use of learnt information a priori. This information is stored and used efficiently during 'success driven learning'. Experimental results show that we can compute the complete solution-set with our new heuristics for large ISCAS'89 and ITC'99 circuits, where conventional guidance heuristics fail.
Interband cascade photovoltaic devices (2010)

A photovoltaic (PV) device based on an interband cascade (IC) structure is proposed for efficiently converting solar and thermal energy to electricity. These IC PV devices employ absorption and transport regions with characteristics that are favorable for achieving high open-circuit voltage and thus possibly improving conversion efficiency over conventional PV devices. Preliminary experiments carried out using IC infrared photodetectors (seven stages) and lasers (11 stages) showed open-circuit voltages that exceed the single-band gap voltage from these devices under infrared illumination. The observed open-circuit voltage demonstrates multiple stages operating in series and provides an initial proof of concept for IC PV devices.
Optical Scanning Holography: Principles and Applications (2002)

The chapter on covers the principles and applications of optical scanning holography, including optical heterodyne scanning technique, three-dimensional (3-D) holographic fluorescence microscopy, 3-D optical image recognition, and pre-processing of holographic information.
High specific heat metals for use in superconducting composites (1977)

In an effort to enhance adiabatic stability, copper containing percentage amounts of Gd <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</inf> O <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</inf> powder was prepared. The specific heat (C <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">v</inf> ) of the resulting material was measured at temperatures from 2 to 12 K in zero and 2.4 T applied magnetic field. Below 5 K the C <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">y</inf> is one to two orders of magnitude higher than that of ordinary copper. For example, at 3.7 K in zero field the C <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">v</inf> of 2.4% GdAlO <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</inf> is 1.5 mJ/g-K and for 7.2% Gd <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</inf> O <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">3</inf> C <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">v</inf> is 3.7 mJ/g-K. These results are only weakly dependent on the magnetic field. Resistance ratios (room temperature to 4 K) of 99 to 46 are obtained, depending on the method of preparation. Mechanical properties of the copper seem good; photomicrographs of the material are shown. Additional cost for materials is $1.20 per pound for 3% oxide in copper. In superconducting applications a fault which reduces the magnetic field on the copper will actually lower the temperature through adiabatic demagnetization unless there is an appreciable heat imput. At 4 K, for example, a 3% oxide material could absorb the heat required to raise pure copper to 11 K, with no change in temperature. It is hoped that this "doped" copper will provide more adiabatic stability for composite superconductor-copper wires than pure copper alone.
Competitive and Considerate Congestion Control for Bulk Data Transfers (2007)

We propose a novel transport control protocol, Competitive and Considerate Congestion Control (4CP). This yields a fixed per-flow bandwidth to other connections (e.g. TCP) if the network can support this and uses the residual bandwidth for 4CP. The main contribution is a novel window based congestion controller that combines congestion phase detection and congestion window control to achieve the stated bandwidth sharing objective. 4CP may be viewed as a non strict low priority emulator. Consequently, 4CP does not suffer from bandwidth starvation when competing with a single TCP connection. Furthermore, when congestion is low, 4CP can utilise residual bandwidth. When congestion is high, 4CP will back-off. The properties of 4CP described above, suggest its applicability for bulk data transfer applications that must be considerate of competing traffic whilst still making transfer progress themselves. We present analytical results, simulation findings and Internet experiments that demonstrate validity of 4CP in addition to guidance on parameter setting.
A Major Role of p95/611-CTF, a Carboxy-Terminal Fragment of HER2, in the Down-modulation of the Estrogen Receptor in HER2-Positive Breast Cancers (2010)

Current classification of breast cancers depends in great part on the expression of human epidermal growth factor receptor 2 (HER2), a cell surface tyrosine kinase receptor, and estrogen receptor (ER), the nuclear receptor for estrogen. In addition to reliable biomarkers, these receptors are targets of effective and widely used antitumor drugs. During malignant progression, HER2 and ER can establish an intricate cross-talk. In some cases, HER2 overexpression leads to the downregulation of ER and undermining of anti-ER therapies. A subgroup of HER2-positive breast cancer patients with poor prognosis expresses a heterogeneous collection of HER2 carboxy-terminal fragments (CTF) collectively known as p95HER2. One of these fragments, 611-CTF, is oncogenic in a variety of preclinical models. However, because of the lack of an appropriate tool to specifically analyze its levels in the clinical setting, the value of 611-CTF as a biomarker has not been established yet. Here, we show that 611-CTF induces resistance to antiestrogen therapy and a more pronounced down-modulation of ER than that induced by full-length HER2. To validate this effect in breast cancer samples, we developed specific anti-611-CTF antibodies. With these antibodies, we showed that, whereas the frequency of ER positivity in HER2-positive/611-CTF-negative tumors (72.6%) is similar to that reported for HER2-negative tumors (70-80%), the number of ER-positive tumors in the 611-CTF-positive subgroup is very low (31.2%). These results reveal a mechanism of ER regulation mediated by HER2, which suggests a new strategy to improve responses to endocrine therapy in breast cancer.
Multiuser Scheduling in Mixed RF/FSO Relaying with Outdated Channel Estimation (2014)

This paper investigates the performance of multiuser mixed radio frequency (RF)/free space optical (FSO) relay network with transmit opportunistic scheduling. The outdated channel information (OCI) on the first relaying hop and its effect on the system performance is also studied. Furthermore, a power allocation scheme is proposed. The considered system includes K sources (users) that communicate with the relay node through RF links and the relay is connected with the destination through an FSO link. In the analysis, the first hop channels are assumed to follow Rayleigh fading model and the second hop channel is assumed to follow Gamma-Gamma fading model with pointing errors. Closed-form expressions are derived for the outage probability, average symbol error probability (ASEP) and ergodic channel capacity. Furthermore, the system performance is studied at high signal-to-noise ratio (SNR) regime. Using the asymptotic results, the power of users and relay are determined to minimize the system outage probability under a total power constraint. Monte-Carlo simulations are provided to validate the achieved exact and asymptotic results.
Numerical simulation of hyper-spectral volume holographic imaging using the slice-and-cascade method (2005)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text Z. Xu, W. Sun, K. Tian, and G. Barbastathis, "Numerical simulation of hyper-spectral volume holographic imaging using the slice-and-cascade method," in Adaptive Optics: Analysis and Methods/Computational Optical Sensing and Imaging/Information Photonics/Signal Recovery and Synthesis Topical Meetings on CD-ROM, Technical Digest (Optica Publishing Group, 2005), paper JTuA4. Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article