gebhart/patrepeval huggingface dataset:
Second harmonic imaging and harmonic Doppler measurements with Albunex (1995)

Gaseous ultrasound contrast agents, such as Albunex, have been shown to be valuable clinically for the better identification of certain anatomic structures and for quantitating organ perfusion. However, the application of a contrast agent sometimes also reduces the image contrast between the blood and the surrounding tissues. This paper presents experimental results to show that this problem may be alleviated by using harmonic signals generated by nonlinear backscattering of these microbubbles. The results show that the second harmonic signal produced by Albunex is significant and that harmonic images in which backscattered echoes from solid tissues were filtered out, but not those from Albunex, can be obtained. In addition, a continuous wave Doppler arrangement has been implemented. It permits quantitative harmonic Doppler measurements at different frequencies, concentrations, and transmitted acoustic pressures. When Albunex was compared to polystyrene microsphere suspensions which possess exclusively linear behavior, Doppler power at second and subharmonic frequencies could only be detected from these microbubbles. A comparison of results on Doppler powers measured at the first harmonic from polystyrene spheres and Albunex indicates that at a transmitting frequency of 2.5 MHz, the Doppler power from Albunex is 12 dB stronger than the polystyrene spheres, whereas at 5 MHz, the Doppler power from Albunex is 3 dB weaker than that from the polystyrene spheres.
Asymmetric Copolymerization of CO2 with meso‐Epoxides Mediated by Dinuclear Cobalt(III) Complexes: Unprecedented Enantioselectivity and Activity (2013)

Unprecedented enantioselectivity and catalytic activity was observed in the asymmetric copolymerization of CO2 with meso-epoxides (including the less reactive cyclopentene oxide) mediated by the dinuclear Co(III) complex (S,S,S,S)-1 under mild conditions. The resultant copolymers possess more than 99 % carbonate linkages and a perfectly isotactic structure.
Melanoma targeting with DOTA-alpha-melanocyte-stimulating hormone analogs: structural parameters affecting tumor uptake and kidney uptake. (2005)

The kidney uptake of DOTA-alpha-MSH analogs could be considerably reduced, without affecting MC1R affinity, by altering (neutralizing) the charge of the Lys(11) residue. Accordingly, the resulting peptides exhibited a high ratio of tumor uptake to kidney uptake that is favorable for diagnostic and therapeutic applications. These structure-activity data may help to improve the performance of DOTA-alpha-MSH analogs and other radiopeptides.
Genome-Wide Association of Familial Late-Onset Alzheimer's Disease Replicates BIN1 and CLU and Nominates CUGBP2 in Interaction with APOE (2011)

Late-onset Alzheimer's disease (LOAD) is the most common form of dementia in the elderly. The National Institute of Aging-Late Onset Alzheimer's Disease Family Study and the National Cell Repository for Alzheimer's Disease conducted a joint genome-wide association study (GWAS) of multiplex LOAD families (3,839 affected and unaffected individuals from 992 families plus additional unrelated neurologically evaluated normal subjects) using the 610 IlluminaQuad panel. This cohort represents the largest family-based GWAS of LOAD to date, with analyses limited here to the European-American subjects. SNPs near APOE gave highly significant results (e.g., rs2075650, p = 3.2×10(-81)), but no other genome-wide significant evidence for association was obtained in the full sample. Analyses that stratified on APOE genotypes identified SNPs on chromosome 10p14 in CUGBP2 with genome-wide significant evidence for association within APOE ε4 homozygotes (e.g., rs201119, p = 1.5×10(-8)). Association in this gene was replicated in an independent sample consisting of three cohorts. There was evidence of association for recently-reported LOAD risk loci, including BIN1 (rs7561528, p = 0.009 with, and p = 0.03 without, APOE adjustment) and CLU (rs11136000, p = 0.023 with, and p = 0.008 without, APOE adjustment), with weaker support for CR1. However, our results provide strong evidence that association with PICALM (rs3851179, p = 0.69 with, and p = 0.039 without, APOE adjustment) and EXOC3L2 is affected by correlation with APOE, and thus may represent spurious association. Our results indicate that genetic structure coupled with ascertainment bias resulting from the strong APOE association affect genome-wide results and interpretation of some recently reported associations. We show that a locus such as APOE, with large effects and strong association with disease, can lead to samples that require appropriate adjustment for this locus to avoid both false positive and false negative evidence of association. We suggest that similar adjustments may also be needed for many other large multi-site studies.
Biomarkers in Triple-Negative Breast Cancer: State-of-the-Art and Future Perspectives (2020)

Triple-negative breast cancer (TNBC) is a heterogeneous group of tumors characterized by aggressive behavior, high risk of distant recurrence, and poor survival. Chemotherapy is still the main therapeutic approach for this subgroup of patients, therefore, progress in the treatment of TNBC remains an important challenge. Data derived from molecular technologies have identified TNBCs with different gene expression and mutation profiles that may help developing targeted therapies. So far, however, only a few of these have shown to improve the prognosis and outcomes of TNBC patients. Robust predictive biomarkers to accelerate clinical progress are needed. Herein, we review prognostic and predictive biomarkers in TNBC, discuss the current evidence supporting their use, and look at the future of this research field.
Susceptibility of human T‐cell leukemia virus type I‐infected cells to humanized anti‐CD30 monoclonal antibodies in vitro and in vivo (2009)

Adult T-cell leukemia (ATL) is an aggressive malignancy of activated CD4(+) T cells associated with human T-cell leukemia virus type I (HTLV-I) infection. No conventional chemotherapy regimen has appeared successful in patients with ATL, thus establishing effective therapy is urgently required. In some cases, ATL tumor cells express CD30 on the cell surface, therefore, a therapy with mAb against CD30 would be beneficial. To investigate the effect of CD30-mediated therapy on ATL, we assessed SGN-30, a chimeric anti-CD30 mAb, and SGN-35, a monomethyl auristatin E-conjugated anti-CD30 mAb, in vitro and in vivo. Three HTLV-I-infected cell lines were co-cultured with SGN-30 or SGN-35, and the growth-inhibitory effects on the HTLV-I-infected cells were evaluated using an in vitro cell proliferation assay and cell cycle analysis. SGN-30 and SGN-35 showed growth-inhibitory activity against the HTLV-I-infected cell lines by apoptosis and/or cell growth arrest in vitro. To further investigate the effects of SGN-30 and SGN-35 on HTLV-I-infected cells in vivo, we used NOD/SCID mice subcutaneously engrafted with HTLV-I-infected cells. Both mAbs significantly inhibited the growth of HTLV-I-infected cell tumors in the NOD/SCID murine xenograft models. These data suggest that CD30-mediated therapy with SGN-30 or SGN-35 would be useful for patients with ATL.
Transcatheter Aortic-Valve Replacement for Inoperable Severe Aortic Stenosis (2012)

Among appropriately selected patients with severe aortic stenosis who were not suitable candidates for surgery, TAVR reduced the rates of death and hospitalization, with a decrease in symptoms and an improvement in valve hemodynamics that were sustained at 2 years of follow-up. The presence of extensive coexisting conditions may attenuate the survival benefit of TAVR. (Funded by Edwards Lifesciences; ClinicalTrials.gov number, NCT00530894.).
Inappropriate Sexual Behaviors in Dementia (2005)

Dementias are the most common type of neurodegenerative disorder. Behavioral disturbances are seen in more than 80% of patients suffering from these disorders. Although sexually inappropriate behaviors are not as common as some of the other behaviors seen in dementia, they can cause immense distress to all those who are affected. There are no randomized trials for the treatment of these behaviors, but the available data suggest efficacy for some commonly used treatment modalities. In this review, we systematically discuss various aspects of these behaviors and available treatments.
NFATp, a cyclosporin-sensitive transcription factor implicated in cytokine gene induction (1995)

The transcription factor NFATp (nuclear factor of activated T cells, preexisting) is likely to regulate the cyclosporin-sensitive transcription of cytokine genes and other activation-associated genes during the immune response. NFATp is the first identified member of a new family of transcription factors, whose DNA binding domains show a weak sequence similarity to those of the Rel (NF-kappa B) family of proteins. NFATp is expressed in several types of immune cells as a cytosolic protein that translocates to the nucleus following activation. The nuclear translocation is regulated by calcium and calcineurin and inhibited by cyclosporin A and FK506. In the nucleus, NFATp cooperates with Fos-Jun dimers and possibly with other transcription factors at composite elements in the regulatory regions of cytokine genes. The potential roles of NFATp and a related family member, NFATc, in cytokine gene transcription are discussed.
Beam Switching for Millimeter Wave Communication to Support High Speed Trains (2015)

This paper considers a millimeter wave (mmWave) system that enables multi-Gbps wireless service for high speed trains. MmWave systems require proper beam alignment to achieve good performance making it difficult to apply to high speed trains due to the need for frequent realignment. In this paper, using the IEEE 802.11ad system parameters, we first show that the channel coherence time will not be enough for communication with wide beams, and thus conventional approaches based on beam sweeping become inefficient if not impossible. Then we consider a beam switching approach that leverages the position information from the train control system for efficient beam alignment. Using this network architecture, we investigate the optimal choice of beamwidth and show that a properly optimized system can achieve multi-Gbps throughput.
The Aging Immune System: Primer and Prospectus (1996)

Changes in T lymphocyte populations underlie much of the age-related decline in the protective immune response. Aging leads to the replacement of virgin T cells by memory T cells and to the accumulation of cells with signal transduction defects. Studies of antibody gene assembly, accessory cell function, post-thymic T cell development, skewed selection of T cell receptor repertoire, and the clinical concomitants of immune senescence will shed new light on the causes and consequences of age-dependent immune failure.
Fluorescence optical detection in situ for real‐time monitoring of cytochrome P450 enzymatic activity of liver cells in multiple microfluidic devices (2009)

We describe an in situ fluorescence optical detection system to demonstrate real-time and non-invasive detection of reaction products in a microfluidic device while under perfusion within a standard incubator. The detection system is designed to be compact and robust for operation inside a mammalian cell culture incubator for quantitative detection of fluorescent signal from microfluidic devices. When compared to a standard plate reader, both systems showed similar biphasic response curves with two linear regions. Such a detection system allows real-time measurements in microfluidic devices with cells without perturbing the culture environment. In a proof-of-concept experiment, the cytochrome P450 1A1/1A2 activity of a hepatoma cell line (HepG2/C3A) was monitored by measuring the enzymatic conversion of ethoxyresorufin to resorufin. The hepatoma cell line was embedded in Matrigel(TM) construct and cultured in a microfluidic device with medium perfusion. The response of the cells, in terms of P450 1A1/1A2 activity, was significantly different in a plate well system and the microfluidic device. Uninduced cells showed almost no activity in the plate assay, while uninduced cells in Matrigel(TM) with perfusion in a microfluidic device showed high activity. Cells in the plate assay showed a significant response to induction with 3-Methylcholanthrene while cells in the microfluidic device did not respond to the inducer. These results demonstrate that the system is a potentially useful method to measure cell response in a microfluidic system.
<title>Retention of tin ethyl etiopurpurin (SnET2) by atheromatous plaques: studies in vitro and in vivo rabbit</title> (1994)

Restenosis remains the greatest limitation to the success of conventional and newer forms of angioplasty for the treatment of coronary artery disease. Since the armamentarium available to the clinician is presently limited to mechanical forms of intervention, invariably causing an acute response to injury, a pharmacologic alternative is sought. Photodynamic therapy has the potential to provide a combined drug/device therapy to significantly reduce the rate of restenosis through selective cytolysis and cytostasis. In this study Tin Ethyl Etiopurpurin, a second generation photosensitizer, demonstrated selective retention in catheter induced atheromatous plaques in a New Zealand White rabbit model in vitro and in vivo.
Stimuli‐Responsive Controlled‐Release Delivery System Based on Mesoporous Silica Nanorods Capped with Magnetic Nanoparticles (2005)

Stand and deliver! The release of pore-encapsulated fluorescein molecules from a core/shell mesoporous silica nanorod/superparamagnetic iron oxide nanoparticle carrier in the presence of an external magnetic field and only in response to cell-produced antioxidants indicates promise for such systems in controlled-release drug delivery. Supporting information for this article is available on the WWW under http://www.wiley-vch.de/contents/jc_2002/2005/z501819_s.pdf or from the author. 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.
Continuous and Discrete Inverse-Scattering Problems in a Stratified Elastic Medium. I. Plane Waves at Normal Incidence (1969)

This paper investigates the problem of obtaining an analytic solution and practical computational procedures for recovering the properties of an unknown elastic medium from waves that have been reflected by or transmitted through the medium. The medium consists of two homogeneous half-spaces in contact with a heterogeneous region. The analytic solution is obtained by transforming the equation of motion for the propagation of plane waves at normal incidence in a stratified elastic medium into a one-dimensional Schrödinger equation for which the inverse-scattering problem has already been solved. The practical computational procedures are obtained by solving the corresponding discrete inverse-scattering problem resulting from approximating the heterogeneous region with a sequence of homogeneous layers such that the travel time through each layer is the same. In both the continuous and discrete inverse scattering problems, the impedance of the medium as a function of travel time is recovered from the impulse response of the medium. A discrete analogy of the continuous solution is also developed. Similar results are obtained for a stratified elastic half space bounded by a free surface.
The Genome Sequence of the Malaria Mosquito Anopheles gambiae (2002)

Anopheles gambiae is the principal vector of malaria, a disease that afflicts more than 500 million people and causes more than 1 million deaths each year. Tenfold shotgun sequence coverage was obtained from the PEST strain of A. gambiae and assembled into scaffolds that span 278 million base pairs. A total of 91% of the genome was organized in 303 scaffolds; the largest scaffold was 23.1 million base pairs. There was substantial genetic variation within this strain, and the apparent existence of two haplotypes of approximately equal frequency ("dual haplotypes") in a substantial fraction of the genome likely reflects the outbred nature of the PEST strain. The sequence produced a conservative inference of more than 400,000 single-nucleotide polymorphisms that showed a markedly bimodal density distribution. Analysis of the genome sequence revealed strong evidence for about 14,000 protein-encoding transcripts. Prominent expansions in specific families of proteins likely involved in cell adhesion and immunity were noted. An expressed sequence tag analysis of genes regulated by blood feeding provided insights into the physiological adaptations of a hematophagous insect.
The theory of signal detectability (1954)

The problem of signal detectability treated in this paper is the following: Suppose an observer is given a voltage varying with time during a prescribed observation interval and is asked to decide whether its source is noise or is signal plus noise. What method should the observer use to make this decision, and what receiver is a realization of that method? After giving a discussion of theoretical aspects of this problem, the paper presents specific derivations of the optimum receiver for a number of cases of practical interest. The receiver whose output is the value of the likelihood ratio of the input voltage over the observation interval is the answer to the second question no matter which of the various optimum methods current in the literature is employed including the Neyman - Pearson observer, Siegert's ideal observer, and Woodward and Davies' "observer." An optimum observer required to give a yes or no answer simply chooses an operating level and concludes that the receiver input arose from signal plus noise only when this level is exceeded by the output of his likelihood ratio receiver. Associated with each such operating level are conditional probabilities that the answer is a false alarm and the conditional probability of detection. Graphs of these quantities called receiver operating characteristic, or ROC, curves are convenient for evaluating a receiver. If the detection problem is changed by varying, for example, the signal power, then a family of ROC curves is generated. Such things as betting curves can easily be obtained from such a family. The operating level to be used in a particular situation must be chosen by the observer. His choice will depend on such factors as the permissable false alarm rate, a priori probabilities, and relative importance of errors. With these theoretical aspects serving as an introduction, attention is devoted to the derivation of explicit formulas for likelihood ratio, and for probability of detection and probability of false alarm, for a number of particular cases. Stationary, band-limited, white Gaussian noise is assumed. The seven special cases which are presented were chosen from the simplest problems in signal detection which closely represent practical situations. Two of the cases form a basis for the best available approximation to the important problem of finding probability of detection when the starting time of the signal, signal frequency, or both, are unknown. Furthermore, in these two cases uncertainty in the signal can be varied, and a quantitative relationship between uncertainty and ability to detect signals is presented for these two rather general cases. The variety of examples presented should serve to suggest methods for attacking other simple signal detection problems and to give insight into problems too complicated to allow a direct solution.
Bedtime H2 blockers improve nocturnal gastric acid control in GERD patients on proton pump inhibitors (2001)

Adding a bedtime H2-blocker to a proton pump inhibitor b.d. regimen should be considered in patients who require continued nocturnal gastric acid control whilst taking proton pump inhibitor b.d.
Design and implementation of an offload engine for internet group messaging protocol multicast snooping (2008)

As internet protocol (IP) networks in the enterprise space continue to mature, with regards to stability and availability, the desire for these networks to deliver multimedia content will grow. Although IP networks have long had enough bandwidth to support multimedia streams, the deployment of this content seems to have been somewhat limited in the enterprise. The control mechanisms for multicast traffic, both at the IP layer and the data link layer, are still the areas that have not been adopted as widely as their more common unicast counterparts. The authors examine the internet group messaging protocol (IGMP) snooping process that currently runs on enterprise switches and propose an offload hardware engine to accelerate it. Currently, many enterprise switches handle this task with a general-purpose processor within the switch. Although this process adds very little to the overall load of systems currently, as multicast transmissions become more commonplace, the need for this process to be offloaded onto specialised hardware will be a necessity, in order to maintain the stability of the switch and the surrounding network. The proposed hardware model simulations reveal significant increase in the number of packets per second that can be handled compared to software implementations.
Three‐dimensional immobilization of β‐galactosidase on a silicon surface (2007)

Many alternative strategies to immobilize and stabilize enzymes have been investigated in recent years for applications in biosensors. The entrapment of enzymes within silica-based nanospheres formed through silicification reactions provides high loading capacities for enzyme immobilization, resulting in high volumetric activity and enhanced mechanical stability. Here we report a strategy for chemically associating silica nanospheres containing entrapped enzyme to a silicon support. beta-galactosidase from E. coli was used as a model enzyme due to its versatility as a biosensor for lactose. The immobilization strategy resulted in a three-dimensional network of silica attached directly at the silicon surface, providing a significant increase in surface area and a corresponding 3.5-fold increase in enzyme loading compared to enzyme attached directly at the surface. The maximum activity recovered for a silicon square sample of 0.5 x 0.5 cm was 0.045 IU using the direct attachment of the enzyme through glutaraldehyde and 0.16 IU when using silica nanospheres. The immobilized beta-galactosidase prepared by silica deposition was stable and retained more than 80% of its initial activity after 10 days at 24 degrees C. The ability to generate three-dimensional structures with enhanced loading capacity for biosensing molecules offers the potential to substantially amplify biosensor sensitivity.