gebhart/patrepeval huggingface dataset:
Label-Free Detection with the Liquid Core Optical Ring Resonator Sensing Platform (2009)

Optical label-free detection prevents the cost and complexity of fluorescence and radio labeling while providing accurate quantitative and kinetic results. We have developed a new optical label-free sensor called the liquid core optical ring resonator (LCORR). The LCORR integrates optical ring resonator sensors into the microfluidic delivery system by using glass capillaries with a thin wall. The LCORR is capable of performing refractive index detection on liquid samples, as well as bio/chemical analyte detection down to detection limits on the scale of pg/mm2 on a sensing surface.
Angiogenesis and angiogenic growth factors in middle ear cholesteatoma. (2000)

Angiogenesis enables and supports the sustained migration of keratinocytes into the middle ear cavity. Therefore, it is a pivotal factor in the destructive behavior of middle ear cholesteatoma.
The Effect of Electrogram Duration on Quantification of Complex Fractionated Atrial Electrograms and Dominant Frequency (2008)

Electrograms of >or=5-second duration are required to accurately characterize CFAE and DF sites for ablation.
The CD2 ligand LFA-3 activates T cells but depends on the expression and function of the antigen receptor. (1988)

The T cell Ag receptor (CD3/Ti) and the sheep E receptor (CD2) expressed on the surface of human T cells are both capable of initiating intracellular signals necessary for T cell activation. CD3/Ti interacts with Ag to initiate cellular immune responses. Although the exact function of CD2 is unknown, lymphocyte function-associated Ag 3 (LFA-3), a 55- to 70-kDa receptor expressed on a broad spectrum of hemopoietic and nonhemopoietic cells, has recently been shown to be its natural ligand. We show here that although purified multimeric LFA-3 is not capable of initiating transmembrane signaling events on its own, the combination of LFA-3 and the anti-CD2 mAb CD2.1 induces intracellular calcium increases, phosphatidylinositol second messenger generation and lymphokine secretion in the T cell leukemic line Jurkat. In order to study the signaling requirements of CD2, we compared the ability of CD2 mAb and LFA-3 to initiate activation signals in Jurkat and in three Jurkat-derived mutants. A CD3-CD2+ mutant failed to increase calcium or exhibit phosphatidylinositol hydrolysis to either the combination of agonist CD2 mAb 9-1 and 9.6 or LFA-3 and CD2.1. Reconstitution of the Ag receptor by transfection of the Ti-beta-chain restored the expression of the CD3/Ti complex and the ability to respond to either combination of CD2 ligands. However, no response to CD2 ligands was detected in a CD3+CD2+ mutant selected for signaling defects to CD3/Ti ligands. Complementation of the CD3/Ti signaling defect by cell fusion also restored competency to respond to CD2 agonists. These results demonstrate that LFA-3 under appropriate conditions can activate T cells via the CD2 complex and that this activation requires not only the cell surface expression of the CD3/Ti complex but also a functional Ag receptor pathway.
Cutting Edge: Repurification of Lipopolysaccharide Eliminates Signaling Through Both Human and Murine Toll-Like Receptor 2 (2000)

Toll-like receptor (TLR) 2 has recently been associated with cellular responses to numerous microbial products, including LPS and bacterial lipoproteins. However, many preparations of LPS contain low concentrations of highly bioactive contaminants described previously as "endotoxin protein," suggesting that these contaminants could be responsible for the TLR2-mediated signaling observed upon LPS stimulation. To test this hypothesis, commercial preparations of LPS were subjected to a modified phenol re-extraction protocol to eliminate endotoxin protein. While it did not influence the ability to stimulate cells from wild-type mice, repurification eliminated the ability of LPS to activate cells from C3H/HeJ (Lpsd) mice. Additionally, only cell lines transfected with human TLR4, but not human or murine TLR2, acquired responsiveness to both re-extracted LPS and to a protein-free, synthetic preparation of lipid A. These results suggest that neither human nor murine TLR2 plays a role in LPS signaling in the absence of contaminating endotoxin protein.
Brain Tumors in Childhood (1979)

A review of the pathology of 689 neuroectodermal tumors occurring over a 30-year period at The Hospital for Sick Children in Toronto has underlined the importance of examining the tissue from each tumor in order to insure consistency and accuracy in histological diagnosis. The age, sex, histology and topographical distribution of this series of tumors is compared with other series and discussed in detail. The high proportion of tumors occurring in early childhood, the striking male preponderance, and the high incidence of astrocytomas, medulloblastomas and ependymomas is emphasized.
Reflectance of conducting polypyrrole: Observation of the metal-insulator transition driven by disorder (1995)

By controlling the extent of disorder through electrochemical synthesis at reduced temperatures, conducting polypyrrole (PPy) can be obtained in the metallic regime, in the insulating regime, and in the critical regime of the disorder-induced metal-insulator (M-I) transition. We present the results of reflectance measurements (0.002--6 eV) of PPy carried out at room temperature on the metallic side and on the insulating side of the M-I transition. While the reflectance spectra obtained from samples on both sides of the M-I transition exhibit spectral features expected for a partially filled conduction band, the electronic states near the Fermi energy (${\mathit{E}}_{\mathit{F}}$) are different in the two regimes. The data obtained from metallic samples indicate delocalized electronic wave functions in the conduction band, whereas the spectral features which characterize the insulating regime indicate that the states near ${\mathit{E}}_{\mathit{F}}$ are localized. Consistent with theoretical predictions for the metallic and insulating regimes, the optical conductivity \ensuremath{\sigma}(\ensuremath{\omega}) and the real part of the dielectric function ${\mathrm{\ensuremath{\varepsilon}}}_{1}$(\ensuremath{\omega}) each show different frequency dependences in the far infrared. In the metallic regime \ensuremath{\sigma}(\ensuremath{\omega})\ensuremath{\propto}${\mathrm{\ensuremath{\omega}}}^{1/2}$ for \ensuremath{\Elzxh}\ensuremath{\omega}600 ${\mathrm{cm}}^{\mathrm{\ensuremath{-}}1}$ and ${\mathrm{\ensuremath{\varepsilon}}}_{1}$(\ensuremath{\omega}) (&gt;0) increases rapidly as \ensuremath{\omega}\ensuremath{\rightarrow}0, as described by the ``localization-modified Drude model,'' leading to the conclusion that metallic polypyrrole is a disordered metal near the M-I transition. In contrast, the insulating regime is characterized as a Fermi glass as confirmed by \ensuremath{\sigma}(\ensuremath{\omega})\ensuremath{\propto}${\mathrm{\ensuremath{\omega}}}^{2}$ for \ensuremath{\Elzxh}\ensuremath{\omega}600 ${\mathrm{cm}}^{\mathrm{\ensuremath{-}}1}$.
Cooperative Control of Swarms of Unmanned Aerial Vehicles (2011)

Potential function based swarm control is a technique using artificial potential functions to generate steering commands resulting in swarming behavior. This means that the vehicles in the swarm autonomously take care of flying in formation, resulting in steering the swarm, instead of all the individual vehicles being tasked separately. This form of cooperative control is very effective for large groups of unmanned aerial vehicles (UAVs). To test this technique, a simulation tool (in SIMULINK) has been developed using a swarm of quadrotors with nonlinear dynamics. Quadrotors are suitable testbeds due to their mechanical simplicity and can be described by reasonably simple dynamical equations of motion. The inner loop control laws for the quadrotor are based on a backstepping like technique with a nested multi-loop structure. After verification of the individual vehicle model, a multi-UAV controller was designed using potential functions to generate the swarming behavior. The results show that the potential function based method is effective in swarm aggregation. The swarm controller is able to cope with inflight changes of the number of agents if, due to communication limits, one or more agents drift in or out of range. The ability to avoid obstacles by adding obstacle avoidance terms to the steering commands is also shown. These terms are sensitive to the velocities of the swarm members and the gains. However, much better results are expected when a path shaping module is added. This will not only add the ability to fly along a path, but it will also solve the problem of saturated velocity commands due to large differences between the quadrotor position and the goal position.
Defect structure and electronic properties of SiOC:H films used for back end of line dielectrics (2014)

Back end of the line dielectrics (BEOL) with low dielectric constants, so called low-k dielectrics, are needed for current and future integrated circuit technology nodes. However, an understanding of the defects which limit reliability and cause leakage currents for these films is not yet developed. We primarily utilize conventional electron paramagnetic resonance (EPR) and leakage current measurements to investigate amorphous hydrogenated carbon doped oxide (a-SiOC:H) dielectrics, the most important in current BEOL technology. The resonance measurements were complemented by transmission Fourier-transform infra-red spectroscopy, x-ray reflectivity, and Rutherford backscattering measurements. Various compositions of a-SiOC:H films were deposited on 300 mm diameter Si (100) wafers. They exhibit a wide range of dielectric constant, composition, and porosity. Variations in deposition method, process chemistry, and post deposition curing were also investigated. We observe a remarkable range of paramagnetic defect populations within the films. In a large subset of the films with similar defect structure, we observe a strong correlation between carbon dangling bond paramagnetic defect densities and leakage currents, especially at lower electric fields. This correspondence strongly suggests that, in this subset, defects observed by EPR are in a large part responsible for the leakage currents at low electric fields. In addition, the results suggest that the observed defects likely limit the dielectric reliability in problems such as time dependent dielectric breakdown and stress induced leakage current in many of these films. However, the EPR results are complex, and a simple universal correspondence between defect populations and leakage does not seem to be present.
Adeno‐associated virus gene repair corrects a mouse model of hereditary tyrosinemia in vivo†‡ (2009)

AAV-mediated gene repair is feasible in vivo and can functionally correct an appropriate selection-based metabolic liver disease in both adults and neonates.
Therapeutic alternatives for hormone-refractory prostatic cancer. (1992)

The currently available prognostic factors allow the identification of patients who are destined to do poorly with primary hormone therapy. Standardization of these factors is required so that they become incorporated into routine practice. For patients who relapse in osseous sites radiolabeled diphosphonates are one therapeutic alternative that can provide palliation. Future use will be directed to optimize treatment schedules, and use earlier in the course of the disease so that more durable palliation of bony metastases can be achieved. Evolving data on the use of PSA show that elevations antedate clinical relapse for most patients. In these cases, sequential changes can be used to assess therapeutic effects, which in turn can allow novel therapies to be screened more rapidly in the clinic. Criteria for the degree of change that is indicative of response must be standardized. Preliminary data suggest a 50% decline be the minimum that is used. The results with agents such as suramin, which interrupts autocrine and paracrine growth factor loops, are a therapeutic strategy that need further study. Future efforts will focus on defining which patients are best suited for specific therapeutic approaches.
In solid localization of finger impacts using acoustic time-reversal process (2005)

Time reversal in acoustics is a very efficient solution to focus sound back to its source in a wide range of materials including reverberating media. It expresses the following properties: A wave still has the memory of its source location. The concept presented in this letter first consists in detecting the acoustic waves in solid objects generated by a slight finger knock. In a second step, the information related to the source location is extracted from a simulated time reversal experiment in the computer. Then, an action (turn on the light or a compact disk player, for example) is associated with each location. Thus, the whole system transforms solid objects into interactive interfaces. Compared to the existing acoustic techniques, it presents the great advantage of being simple and easily applicable to inhomogeneous objects whatever their shapes. The number of possible touch locations at the surface of objects is shown to be directly related to the mean wavelength of the detected acoustic wave.
Two upstream enhancers collaborate to regulate the spatial patterning and timing of MyoD transcription during mouse development (2001)

MyoD is a member of the basic-helix-loop-helix (bHLH) transcription factor family, which regulates muscle determination and differentiation in vertebrates. While it is now well established that the MyoD gene is regulated by Sonic hedgehog, Wnts, and other signals, it is not known how MyoD transcription is initiated and maintained in response to these signals. We have investigated the cis control of MyoD expression to identify and characterize the DNA targets that mediate MyoD transcription in embryos. By monitoring lacZ reporter gene expression in transgenic mice, we show that regulatory information contained in 24 kb of human MyoD 5' flanking sequence is sufficient to accurately control MyoD expression in embryos. Previous studies have identified two muscle-specific regulatory regions upstream of MyoD, a 4-kb region centered at -20 kb (designated fragment 3) that contains a highly conserved 258-bp core enhancer sequence, and a more proximal enhancer at -5 kb, termed the distal regulatory region (DRR), that heretofore has been identified only in mice. Here, we identify DRR-related sequences in humans and show that DRR function is conserved in humans and mice. In addition, transcriptional activity of MyoD 5' flanking sequences in somites and limb buds is largely a composite of the individual specificities of the two enhancers. Deletion of fragment 3 resulted in dramatic but temporary expression defects in the hypaxial myotome and limb buds, suggesting that this regulatory region is essential for proper temporal and spatial patterning of MyoD expression. These data indicate that regulatory sequences in fragment 3 are important targets of embryonic signaling required for the initiation of MyoD expression.
Characterization of transducin from bovine retinal rod outer segments. I. Separation and reconstitution of the subunits. (1983)

Transducin, a guanine nucleotide regulatory protein found in the bovine retinal rod outer segment, mediates the signal coupling between rhodopsin and a cyclic GMP phosphodiesterase. Previous studies have demonstrated that photolyzed rhodopsin catalyzed the exchange of GTP for GDP bound to transducin. The transducin-GTP complex, in turn, activates the phosphodiesterase. Purified transducin (T) has been resolved by omega-amino octylagarose chromatography into two functional subunits: T alpha (Mr approximately 39,000) and T beta gamma (Mr approximately 36,000 and approximately 10,000). The guanine nucleotide binding site is on the T alpha subunit. Neither the T alpha nor the T beta gamma subunit showed significant GTPase activity, Gpp(NH)p-GDP exchange, and ability to bind to rhodopsin when assayed in the presence of reconstituted membranes containing photolyzed rhodopsin. However, all the above activities were restored if the two subunits were recombined. Analysis of the reconstituted GTPase activity as a function of the T alpha subunit concentration revealed a linear relationship. On the other hand, GTPase activity rapidly saturated at T beta gamma concentration much lower than the T alpha concentration, indicating that the two subunits were dissociated during GTP hydrolysis. These findings strongly suggest that the T beta gamma subunit is an activator of the GTPase activity. Its mode of action is to enable the T alpha subunit to interact with rhodopsin effectively.
Structure-Affinity Relationship Studies on 5-HT1A receptor Ligands. 2. Heterobicyclic Phenylpiperazines with N4-Aralkyl Substituents (1994)

Structure-affinity relationship (SAR) studies for 5-HT1A receptor site are presented for two series of heterobicyclic phenylpiperazines with N4-alkyl substituents: 4-alkyl derivatives of 1-(2,3-dihydro-1,4-benzodioxin-5-yl)piperazine (3) and 1-(benzo[b]furan-7-yl)piperazine (4). The linear and branched hydrocarbon chain derivatives up to n-decyl were synthesized and evaluated for their ability to displace [3H]-2-(di-n-propylamino)-8-hydroxytetralin from its specific binding sites in rat frontal cortex homogenates. All compounds displayed a nanomolar affinity for the 5-HT1A receptor. In both series the N-ethyl and N-n-propyl substituted derivatives have similar affinities, being slightly but statistically significantly less active than the N-methyl-substituted derivatives. Elongation of the hydrocarbon chain increases the affinity for the central 5-HT1A receptor site, reaching a local maximum for the N-n-hexyl-substituted phenylpiperazines 23 (Ki = 0.50 nM) and 39 (Ki = 0.54 nM). Assuming that the arylpiperazine derivatives at the 5-HT1A binding site are in the ionic state, ionization constants were determined in order to evaluate the use of the local inhibition constant, Ki+, as a more convenient parameter to study the structure-affinity relationships. However, the Ki+ could not account for the specific N4-substituent effects found.
Increasing morphinan alkaloid production by over‐expressing codeinone reductase in transgenic Papaver somniferum (2006)

Only plants of the Papaver genus (poppies) are able to synthesize morphinan alkaloids, and cultivation of P. somniferum, opium poppy, remains critical for the production and supply of morphine, codeine and various semi-synthetic analgesics. Opium poppy was transformed with constitutively expressed cDNA of codeinone reductase (PsCor1.1), the penultimate step in morphine synthesis. Most transgenic lines showed significant increases in capsule alkaloid content in replicated glasshouse and field trials over 4 years. The morphinan alkaloid contents on a dry weight basis were between 15% and 30% greater than those in control high-yielding genotypes and control non-transgenic segregants. Transgenic leaves had approximately 10-fold greater levels of Cor transcript compared with non-transgenic controls. Two cycles of crossing of the best transgenic line into an elite high-morphine genotype resulted in significant increases in morphine and total alkaloids relative to the elite recurrent parent. No significant changes in alkaloid profiles or quantities were observed in leaf, roots, pollen and seed.
IL-7 is requisite for IL-1-induced thymocyte proliferation. Involvement of IL-7 in the synergistic effects of granulocyte-macrophage colony-stimulating factor or tumor necrosis factor with IL-1 (1992)

In the absence of artificial comitogens murine thymocytes proliferate significantly in response to IL-1 at high but not at low cell densities. This observation has led us to examine a possible indirect mechanism requiring other thymocyte-growth factors, such as IL-2, IL-4, IL-6, and IL-7, in this phenomenon. Our data provide evidence that IL-7 is requisite for the IL-1-induced proliferative response because on the one hand the growth-promoting activity of IL-1 is completely inhibited by an anti-IL-7 mAb, and on the other hand IL-7 synergizes with IL-1 on thymocyte growth. This synergy is observed even at concentrations at which IL-7 is not detected in the pre-B cell proliferation assay, and results, at optimal doses, in TdR incorporation levels similar to those attained in response to IL-1 + IL-2. The anti-IL-7 mAb acts in a dose-dependent manner and does not affect other activities of IL-1, such as its capacity to sustain the growth of the U373 astrocytoma cell line. It is also noteworthy that this mAb does not significantly impair thymocyte growth in response to IL-2 and that the growth-promoting activity of IL-1 is not affected by neutralizing mAb against IL-2, IL-4, and IL-6. In addition, we show that the potentiating effect of granulocyte-macrophage (GM)-CSF and TNF-alpha on IL-1-induced thymocyte growth is dependent on IL-7 because i) the anti-IL-7 mAb abrogates the respective synergistic interactions and ii) both factors potentiate the proliferative response to IL-7. Finally, depletion of thymocyte suspensions for Ia+ Mac-1+ accessory cells results in a considerable decrease in IL-1- and IL-1 + GM-CSF-induced TdR uptake, whereas IL-7-induced growth remains unchanged. Taken together, these results support the notion that, in the absence of artificial comitogens, thymocyte proliferation in response to IL-1 alone or in combination with GM-CSF is dependent on accessory cell-derived IL-7.
Allogeneic and Autologous Melanoma Vaccines: Where Have We Been and Where Are We Going? (2006)

The past three decades have seen substantial research on vaccines for the treatment of metastatic melanoma and the prevention of recurrence following resection. Despite their enormous promise, the actual results have been disappointing, with several high-profile vaccine clinical trials failing to show a benefit. Nonetheless, enthusiasm for melanoma vaccines remains and has increased with our expanding understanding of the immune response to tumor. Cellular vaccines can be divided into autologous, derived from the patient's own tumor and allogeneic vaccines. Autologous vaccines have the advantage of containing all potentially relevant tumor-associated antigens for that particular patient. However, autologous vaccines are difficult to obtain from most patients with advanced disease and impossible to obtain from patients who present after resection of all clinically evident disease. No consensus exists for how tumors should be processed, preserved, modified, and delivered to serve as an effective vaccine. The amount of autologous tumor available is rarely enough to produce more than two or three vaccination doses, and the time between initial tumor harvest and ultimate availability of the vaccine may result in interval tumor progression that diminishes the likelihood of vaccine efficacy. All these drawbacks of autologous tumor vaccination limit its applicability and also limit the ability to test autologous vaccines in prospective trials. Allogeneic vaccines avoid many of these problems, but may not contain all of the tumor-associated antigens present on the patient's own tumor. In particular, neoantigens created by mutations in the patient's tumor would be unlikely to be represented in an allogeneic vaccine. Although allogeneic vaccines can be manufactured in sufficient quantities to allow large-scale trials, there remain significant limiting issues in the manufacture and standardization of the vaccine product.