gebhart/patrepeval huggingface dataset:
In vivo validation of high frequency ultrasound-guided fluorescence tomography system to improve delivery of photodynamic therapy (2011)

Photodynamic therapy (PDT) for skin cancer is sometimes only partially effective, due to inadequate levels of the fluorescent drug (photosensitizer, PS) and due to heterogeneous distribution of PS within the tissue. To image the PS distribution within skin tumors, we have developed a fluorescence tomography system (FTS) that combines a fluorescence detection array with a high frequency ultrasound (HFUS) transducer. In this paper we describe in vitro and in vivo validation of this new system. The target fluorophore for detection was Protoporphyrin IX (PPIX). Validation experiments were performed in vivo using a subcutaneous tumor model in which A431 tumor-bearing mice were treated with 5-aminolevulinic acid to induce production of PPIX. FTS reconstructions were compared with standard histology and with data from bulk tumor slices imaged ex vivo on a fluorescence scanner. Reconstructed images obtained from the FTS were correlated with the histology and the ex vivo scans, confirming several-fold increases in PPIX fluorescence in the skin and in the tumor relative to the surrounding tissues. Our data demonstrate the feasibility of using the FTS for subsurface imaging of PPIX in skin carcinoma in vivo. Future aims are to use this device for individualized treatment planning, in order to improve overall patient responses to PDT.
Compressive distilled sensing: Sparse recovery using adaptivity in compressive measurements (2009)

The recently-proposed theory of distilled sensing establishes that adaptivity in sampling can dramatically improve the performance of sparse recovery in noisy settings. In particular, it is now known that adaptive point sampling enables the detection and/or support recovery of sparse signals that are otherwise too weak to be recovered using any method based on non-adaptive point sampling. In this paper the theory of distilled sensing is extended to highly-undersampled regimes, as in compressive sensing. A simple adaptive sampling-and-refinement procedure called compressive distilled sensing is proposed, where each step of the procedure utilizes information from previous observations to focus subsequent measurements into the proper signal subspace, resulting in a significant improvement in effective measurement SNR on the signal subspace. As a result, for the same budget of sensing resources, compressive distilled sensing can result in significantly improved error bounds compared to those for traditional compressive sensing.
A series of tubes (2014)

Figure 1. A collection of interactive objects designed using our tool. All have electronic sensing or actuation components routed through their interior. Left: a radio
Gigantic resistivity and band gap changes in GdOyHx thin films (2000)

In this letter we show that GdOyHx thin films allow one to tailor the electric and the optical properties by controlling the hydrogen and oxygen content. By changing the O/H ratio, one can shift the optical band gap from 2.4 eV in the trihydride to 5.4 eV in the pure oxide. The GdOxHy (x&amp;lt;1.5, y&amp;lt;2) thin films are insulating, and a resistivity as high as 1010 Ω cm, as compared to 10−4 Ω cm in the metallic state, is obtained. The thermal stability of the films depends strongly on the oxygen concentration. Samples with low oxygen content can be switched between the insulating and conducting state by reducing the hydrogen content. A reversible resistivity change of 106 Ω cm is demonstrated.
Alleviating memory bottlenecks by software-controlled data transfers in a data-parallel wavelet transform on a multicore DSP (2005)

info:eu-repo/semantics/published
Inflammatory responses increase secretion of MD-1 protein (2016)

Radioprotective 105 (RP105) is a type I transmembrane protein, which associates with a glycoprotein, MD-1. Monoclonal antibody (mAb)-mediated ligation of RP105/MD-1 robustly activates B cells. RP105/MD-1 is structurally similar to Toll-like receptor 4 (TLR4)/MD-2. B-cell responses to TLR2 and TLR4/MD-2 ligands are impaired in the absence of RP105 or MD-1. In addition to RP105/MD-1, MD-1 alone is secreted. The structure of MD-1 shows that MD-1 has a hydrophobic cavity that directly binds to phospholipids. Little is known, however, about a ligand for MD-1 and the role of MD-1 in vivo To study the role of RP105/MD-1 and MD-1 alone, specific mAbs against MD-1 are needed. Here, we report the establishment and characterization of two anti-MD-1 mAbs (JR2G9, JR7G1). JR2G9 detects soluble MD-1, whereas JR7G1 binds both soluble MD-1 and the cell surface RP105/MD-1 complex. With these mAbs, soluble MD-1 was detected in the serum and urine. The MD-1 concentration was altered by infection, diet and reperfusion injury. Serum MD-1 was rapidly elevated by TLR ligand injection in mice. The quantitative PCR and supernatant-precipitated data indicate that macrophages are one of the sources of serum soluble MD-1. These results suggest that soluble MD-1 is a valuable biomarker for inflammatory diseases.
HMG-CoA reductase inhibitor mobilizes bone marrow–derived endothelial progenitor cells (2001)

Endothelial progenitor cells (EPCs) have been isolated from circulating mononuclear cells in peripheral blood and shown to incorporate into foci of neovascularization, consistent with postnatal vasculogenesis. These circulating EPCs are derived from bone marrow and are mobilized endogenously in response to tissue ischemia or exogenously by cytokine stimulation. We show here, using a chemotaxis assay of bone marrow mononuclear cells in vitro and EPC culture assay of peripheral blood from simvastatin-treated animals in vivo, that the HMG-CoA reductase inhibitor, simvastatin, augments the circulating population of EPCs. Direct evidence that this increased pool of circulating EPCs originates from bone marrow and may enhance neovascularization was demonstrated in simvastatin-treated mice transplanted with bone marrow from transgenic donors expressing beta-galactosidase transcriptionally regulated by the endothelial cell-specific Tie-2 promoter. The role of Akt signaling in mediating effects of statin on EPCs is suggested by the observation that simvastatin rapidly activates Akt protein kinase in EPCs, enhancing proliferative and migratory activities and cell survival. Furthermore, dominant negative Akt overexpression leads to functional blocking of EPC bioactivity. These findings establish that augmented mobilization of bone marrow-derived EPCs through stimulation of the Akt signaling pathway constitutes a novel function for HMG-CoA reductase inhibitors.
PREVALENCE OF EXTRACOLONIC FINDINGS AT VIRTUAL COLONOSCOPY (2003)

s Submitted for the 68th Annual Scientific Meeting of the American College of Gastroenterology October 10-15, 2003, Baltimore, Maryland: COLON: PDF Only
Blastic plasmacytoid dendritic cell neoplasm frequently shows occult central nervous system involvement at diagnosis and benefits from intrathecal therapy (2016)

Blastic plasmacytoid dendritic cell neoplasm (BPDCN) is a rare aggressive myeloid neoplasm which shows a high rate of central nervous system (CNS) recurrence and overall survival (OS) of <1 year. Despite this, screening for CNS involvement is not routinely performed at diagnosis and intrathecal (IT) prophylaxis is not regularly administered in BPDCN. Here, we prospectively evaluated 13 consecutive BPDCN patients for the presence of CNS involvement by flow cytometry. Despite none of the patients presented with neurological symptoms, occult CNS involvement was detected in 6/10 cases evaluated at diagnosis and 3/3 studied at relapse/progression. BPDCN patients evaluated at diagnosis received IT treatment -either CNS prophylaxis (n = 4) or active therapy (n = 6)- and all but one remain alive (median follow-up of 20 months). In contrast, all three patients assessed at relapse/progression died. The potential benefit of IT treatment administered early at diagnosis on OS and CNS recurrence-free survival of BPDCN was further confirmed in a retrospective cohort of another 23 BPDCN patients. Our results show that BPDCN patients studied at diagnosis frequently display occult CNS involvement; moreover, they also indicate that treatment of occult CNS disease might lead to a dramatically improved outcome of BPDCN.
Molecular Layer‐by‐Layer Assembled Thin‐Film Composite Membranes for Water Desalination (2013)

Molecular layer-by-layer (mLbL) assembled thin-film composite membranes fabricated by alternating deposition of reactive monomers on porous supports exhibit both improved salt rejection and enhanced water flux compared to traditional reverse osmosis membranes prepared by interfacial polymerization. Additionally, the well-controlled structures achieved by mLbL deposition further lead to improved antifouling performance.
Mapping ESTs by fiber-FISH. (1999)

A visual transcript map of six genes was constructed on the chromosome 21q22.3 by high resolution fluorescence in situ hybridization (FISH). Expressed sequence tags (ESTs) from six genes-PWP2, KNP1, AIRE, C21orf3, SMT3A, and C21orf1-were successfully localized by fiber-FISH by use of sensitive tyramide-based detection. The sizes of the ESTs varied between 315 to 956 bp and most of them map within the 3'-untranslated region. The ESTs were assigned to and subsequently ordered within cosmid, PAC, and BAC clones hybridized on DNA fibers. Physical distances between ESTs and known markers were determined. Our results demonstrate the feasibility and accuracy of visual mapping EST sequences in relation to known markers. The main advantage of this approach is that it can be applied to finely map any of the database ESTs for positional cloning efforts. The sensitivity, specificity, and reproducibility of this high-resolution EST mapping technique is evaluated.
<title>Composite propagation experiments on pulsed microwaves</title> (1994)

This paper describes a series of experiments and calibration techniques aimed at a better understanding of observed anomalous pulsed microwave composite propagation phenomena. It is demonstrated that early wavefront contributions, associated with the precursor of pulsed microwaves propagating in air-waveguide structures, and observed slightly above the noise level of the system, exhibit small propagation times corresponding to the phase velocity of the pulsed microwave in the dispersive medium. On the other hand, lack of detection sensitivity, can lead to the observation of unphysical large time delays, and be interpreted based on the intuition of the observer, or in the worst of the cases, as noise.
Surface operating optoelectronic devices and applications to optical parallel processing (1994)

Abstract Since, in surface operating semiconductor optoelectronic devices, signal reception and transmission are carried out in the direction perpendicular to the device surface, numerous parallel processes can be achieved using two‐dimensional arrays of these devices. To realize image processing systems, massively parallel computing systems and high‐speed/high‐capacity communication systems, there has been considerable research on surface operating optoelectronic devices. This paper describes the operating principles and present status of typical surface operating optoelectronic devices and discusses the electrical and optical connections in a three‐dimensional (3‐D) parallel optoelectronic system using two‐dimensional operating optoelectronic device arrays. Finally, applications to optical switching networks, direct image processes and optical neural networks will be introduced.
Dynamic model generation for application of compressed sensing to cryo-electron tomography reconstruction (2015)

Cryo-electron tomography (cryo-ET), which produces three dimensional images at molecular resolution, is one of many applications that requires image reconstruction from projection measurements acquired with irregular measurement geometry. Although Fourier transform based reconstruction methods have been widely and successfully used in medical imaging for over 25 years, assumptions of regular measurement geometry and a band limited source cause direction sensitive artifacts when applied to cryo-ET. Iterative space domain methods such as compressed sensing could be applied to this severely underdetermined system with a limited range of projection angles and projection length, but progress has been hindered by the computational and storage requirements of the very large projection matrix of observation partials. In this paper we derive a method of dynamically computing the elements of the projection matrix accurately for continuous basis functions of limited extent with arbitrary beam width. Storage requirements are reduced by a factor of order 107 and there is no access overhead. This approach for limited angle and limited view measurement geometries is posed to enable dramatically improved reconstruction performance and is easily adapted to parallel computing architectures.
Improving Fluid Loss Control During Well Intervention; A Case Study on the Use of Innovative Salt System (2022)

Abstract Kuwait heavy oil development target reservoir is a shallow, sub-hydrostatic and unconsolidated sandstone with relatively high porosity and permeability. Due to nature of this reservoir, well intervention operations in North Kuwait Heavy Oil Asset exhibit a higher risk of significant fluid loss that causes wellbore impairment, incremental operational costs, excess brine volume usage, and more importantly a significant impact on production deferment. The latter is due to formation damage and the time required to produce the completion fluid that is lost to the reservoir during any well intervention. The objective of using a cost-effective and less non-damaging fluid is achieved by the application of a novel customized salt system that was successfully trialed in the field. A systematic research was employed to find a suitable product/system that could be used in sub- hydrostatic conditions, able to effectively control fluid loss while retaining as near the original permeability. This new system and subsequent formulation adhered to the following criteria: Readily available Cost effective Easy to formulate and pump Easy to circulate out No long-term formation damage thus retaining original formation permeability The success of this fluid loss control material is indicated by a constant fluid level at surface after application thereby confirming its effectiveness in meeting the desired objectives. This salt system application was successfully field tested, and the results were satisfactory. During well intervention operations, the system effectively arrested fluid loss as confirmed by the fluid level measured at surface. Post operation, the well was brought back immediately to its original rate thereby confirming little to no permanent reduction to reservoir permeability. Historically, during well interventions in Kuwait Heavy Oil field, dynamic loss rates measured were in the 100 to 120 bbl per hour range. Post application of this salt system showed fluid loss rates ranging from 3 to 4 bbl per hour. To date no post acid stimulations were required to restore well production to original levels. This system was readily adapted for thermal application and compatibility with existing fluids, good bridging characteristics, as well as flow-back enhancement. This approach eliminated additional AFE costs by minimizing dynamic losses.
Multiplexed Nanomaterial-Based Sensor Array for Detection of COVID-19 in Exhaled Breath (2020)

This article reports on a noninvasive approach in detecting and following-up individuals who are at-risk or have an existing COVID-19 infection, with a potential ability to serve as an epidemic control tool. The proposed method uses a developed breath device composed of a nanomaterial-based hybrid sensor array with multiplexed detection capabilities that can detect disease-specific biomarkers from exhaled breath, thus enabling rapid and accurate diagnosis. An exploratory clinical study with this approach was examined in Wuhan, China, during March 2020. The study cohort included 49 confirmed COVID-19 patients, 58 healthy controls, and 33 non-COVID lung infection controls. When applicable, positive COVID-19 patients were sampled twice: during the active disease and after recovery. Discriminant analysis of the obtained signals from the nanomaterial-based sensors achieved very good test discriminations between the different groups. The training and test set data exhibited respectively 94% and 76% accuracy in differentiating patients from controls as well as 90% and 95% accuracy in differentiating between patients with COVID-19 and patients with other lung infections. While further validation studies are needed, the results may serve as a base for technology that would lead to a reduction in the number of unneeded confirmatory tests and lower the burden on hospitals, while allowing individuals a screening solution that can be performed in PoC facilities. The proposed method can be considered as a platform that could be applied for any other disease infection with proper modifications to the artificial intelligence and would therefore be available to serve as a diagnostic tool in case of a new disease outbreak.
The Frictional Coefficient of the Temporomandibular Joint and Its Dependency on the Magnitude and Duration of Joint Loading (2004)

In synovial joints, friction between articular surfaces leads to shear stress within the cartilaginous tissue, which might result in tissue rupture and failure. Joint friction depends on synovial lubrication of the articular surfaces, which can be altered due to compressive loading. Therefore, we hypothesized that the frictional coefficient of the temporomandibular joint (TMJ) is affected by the magnitude and duration of loading. We tested this by measuring the frictional coefficient in 20 intact porcine TMJs using a pendulum-type friction tester. The mean frictional coefficient was 0.0145 (SD 0.0027) after a constant loading of 50 N during 5 sec. The frictional coefficient increased with the length of the preceding loading duration and exceeded 0.0220 (SD 0.0014) after 1 hr. Application of larger loading (80 N) resulted in significantly larger frictional coefficients. In conclusion, the frictional coefficient in the TMJ was proportional to the magnitude and duration of joint loading.
Control flow guided lock address prefetch and filtering (2023)

A method of prefetching target data includes, in response to detecting a lock-prefixed instruction for execution in a processor, determining a predicted target memory location for the lock-prefixed instruction based on control flow information associating the lock-prefixed instruction with the predicted target memory location. Target data is prefetched from the predicted target memory location to a cache coupled with the processor, and after completion of the prefetching, the lock-prefixed instruction is executed in the processor using the prefetched target data.
A three-dimensional model of endothelin-converting enzyme (ECE) based on the X-ray structure of neutral endopeptidase 24.11 (NEP) (2001)

Endothelin-converting enzyme 1 (ECE-1, EC 3.4.24.71) is a zinc-dependent type II mammalian membrane protein comprising the active site in the ectodomain. It exists in multiple splice variants that all catalyze the last and rate-limiting step in the activation of preproendothelin to the highly potent vasoconstrictor endothelin. There is high interest in finding small and potent inhibitors for this enzyme that could be used in numerous indications, e.g. hypertension. Since there is no structural information available for this important enzyme, we built a model of the complete ectodomain using the recently solved structure of human NEP as template. The naturally derived metalloproteinase inhibitor phosphoramidon was docked in the active site of this model and comparisons with the respective NEP complex were made.
Performance of a three dimensional transformation-optical-flattened Lüneburg lens (2012)

We demonstrate both the beam-forming and imaging capabilities of an X-band (8-12 GHz) operational Lüneburg lens, one side of which has been flattened via a coordinate transformation optimized using quasi-conformal transformation optics (QCTO) procedures. Our experimental investigation includes benchmark performance comparisons between the QCTO Lüneburg lens and a commensurate conventional Lüneburg lens. The QCTO Lüneburg lens is made from a metamaterial comprised of inexpensive plastic and fiberglass, and manufactured using fast and versatile numerically controlled water-jet machining. Looking forward towards the future and advanced TO designs, we discuss inevitable design trade-offs between affordable scalable manufacturing and rigorous adherence to the full TO solution, as well as possible paths to mitigate performance degradation in realizable designs.
Mundticin KS: Characterization and Production Method (2021)

The paper aims to develop a method for the single-stage purification of mundticin KS and to study its physicochemical and antimicrobial properties. Mundticin produced by strain Enterococcus mundtii B-8398 and belonging to class IIa bacteriocins was obtained by adding 10% of the CM Sephadex C-25 sorbent to the culture medium before cultivation. At the end of cultivation, the sorbent was collected and packed into a column followed by a one-step elution. As a result, a fraction containing mundticin KS was obtained with a purification quality of about 70%. The activity of mundticin KS remained stable over a wide range of pH and temperatures. It is completely inactivated by such enzymes as proteinase K and Î±-chymotrypsin and partially by trypsin; however, such enzymes as amylase, lipase, and papain do not have any effect on its activity. Mass spectral analysis, electrophoresis, and DNA sequencing showed the high range similarity of mundticin KS produced by strains E. mundtii B-8398 to other previously studied mundticins. The antibacterial activity of mundticin KS was recorded ageist all tested strains of Listeria spp., Enterococcus spp., and Clostridium perfringens in nanomolar concentrations. In addition, mundticin KS inhibits the growth of most tested Gram-positive food-borne pathogens. By the sorbent cultivation method, it was possible to increase the yield of mundticin KS by 2,9 times compared to the control.
A Comparison of On-Engine Surge Detection Algorithms using Knock Accelerometers (2017)

&lt;div class="section abstract"&gt;&lt;div class="htmlview paragraph"&gt;On-engine surge detection could help in reducing the safety margin towards surge, thus allowing higher boost pressures and ultimately low-end torque. In this paper, experimental data from a truck turbocharger compressor mounted on the engine is investigated. A short period of compressor surge is provoked through a sudden, large drop in engine load. The compressor housing is equipped with knock accelerometers. Different signal treatments are evaluated for their suitability with respect to on-engine surge detection: the signal root mean square, the power spectral density in the surge frequency band, the recently proposed Hurst exponent, and a closely related concept optimized to detect changes in the underlying scaling behavior of the signal. For validation purposes, a judgement by the test cell operator by visual observation of the air filter vibrations and audible noises, as well as inlet temperature increase, are also used to diagnose surge. The four signal treatments are compared with respect to their reliability as surge indicator and the time delay between surge onset and indication. Results show that the signal power in the surge frequency band has reasonably good properties as surge indicator. The normal Hurst exponent is problematic, since periodic vibrations from engine firing dominate the scaling behavior. Root mean square and the above mentioned scaling exponent do not measure vibrations caused by surge directly, but rather the reduction in housing vibrations due to the engine load drop. Nevertheless, it was found to be possible to design an indicator that gives good results based on the change in scaling behavior.&lt;/div&gt;&lt;/div&gt;