gebhart/patrepeval huggingface dataset:
Amperometric Detection of Quantal Secretion from Patch-clamped Rat Pancreatic β-Cells (1996)

Serotonin (5-HT) is taken up in insulin granules and co-released with insulin on stimulation of pancreatic islet beta-cells. Based on these observations, we have used microcarbon fiber amperometry to examine secretogogue-induced 5-HT release from rat beta-cells preloaded for 4-16 h with 5-HT and then exposed to a bath solution containing 10 microM forskolin. In response to local application of KCl (60 mM) or tolbutamide (50-200 microM), we recorded barrages of amperometric events. Each amperometric event consisted of a short pulse of current measurable at electrode voltages that catalyze 5-HT oxidation. With either secretogogue, release was calcium-dependent. On combining amperometry with perforated patch whole-cell recording, we found that barrages of such events were well coupled in time and graded in intensity with depolarization-induced Ca2+ currents and well correlated with increases in membrane capacitance. In cell-attached patch recording, amperometric events evoked by application of tolbutamide followed the closure of ATP-sensitive K+ channels and coincided with the onset of electrical activity. These experiments suggest that amperometry is a useful technique for studying, in real time, the dynamic aspects of stimulus-secretion coupling in beta-cells. Their performance was facilitated by the design of a new carbon fiber electrode (ProCFE) described within.
Intranasal dexmedetomidine premedication reduces minimum alveolar concentration of sevoflurane for laryngeal mask airway insertion and emergence delirium in children: a prospective, randomized, double‐blind, placebo‐controlled trial (2014)

Intranasal dexmedetomidine premedication produces a dose-dependent decrease in the minimum alveolar concentration for laryngeal mask airway insertion of sevoflurane and emergence delirium in the PACU.
Thermal strain in indium phosphide on silicon obtained by epitaxial lateral overgrowth (2003)

High-resolution x-ray diffraction reciprocal lattice mapping and low-temperature photoluminescence (PL) were used to study the thermal strain in InP layers grown on Si (001) substrate by hydride vapor-phase epitaxial lateral overgrowth (ELO) technique. Good agreement is found between the PL and x-ray measurements. We show that strain in the grown ELO InP/Si layers is affected by the aspect ratio (width to height ratio) of the ELO InP layer. Almost strain-free InP layer with high crystallographic quality is obtained on Si substrate, which is similar to that of a homoepitaxial InP layer.
Microinjection of monoclonal antibody PAb421 into human SW480 colorectal carcinoma cells restores the transcription activation function to mutant p53. (1995)

The p53 tumor suppressor is a transcription factor frequently mutated in human malignancies. Tumor-derived p53 missense mutants are defective in sequence-specific DNA binding and fail to activate p53 target genes. mAb PAb421 was shown previously to restore DNA binding to selected p53 mutants in vitro. Here we show that mAb PAb421 when microinjected into human SW480 colorectal carcinoma cells restores the transcription activation function to the resident mutant p53 (arg to his 273, pro to ser 309). Codon 273 is the second most frequent p53 missense mutant found in human tumors. Our results lend support to the concept of restoring wild-type function to mutant p53 as a strategy for cancer therapy.
7.5% Optical-to-Terahertz Conversion Efficiency Offered by Photoconductive Emitters With Three-Dimensional Plasmonic Contact Electrodes (2014)

We present a photoconductive terahertz emitter that incorporates three-dimensional plasmonic contact electrodes to offer record high optical-to-terahertz power conversion efficiencies. By use of three-dimensional plasmonic contact electrodes the majority of photocarriers are generated within nanoscale distances from the photoconductor contact electrodes and drifted to the terahertz radiating antenna in a sub-picosecond time-scale to efficiently contribute to terahertz radiation. We experimentally demonstrate 105 μW of broadband terahertz radiation in the 0.1-2 THz frequency range in response to a 1.4 mW optical pump, exhibiting a record high optical-to-terahertz power conversion efficiency of 7.5%.
Double-stranded (ds) RNA Binding and Not Dimerization Correlates with the Activation of the dsRNA-dependent Protein Kinase (PKR) (1996)

Upon binding to double-stranded (ds) RNA, the dsRNA-dependent protein kinase (PKR) sequentially undergoes autophosphorylation and activation. Activated PKR may exist as a dimer and phosphorylates the eukaryotic translation initiation factor 2 alpha subunit (cIF-2 alpha) to inhibit polypeptide chain initiation. Transfection of COS-1 cells with a plasmid cDNA expression vector encoding a marker gene, activates endogenous PKR, and selectively inhibits translation of the marker mRNA, dihydrofolate reductase (DHFR). This system was used to study the dsRNA binding and dimerization requirements for over-expressed PKR mutants and subdomains to affect DHFR translation. DHFR translation was rescued by expression of either an ATP hydrolysis defective mutant PKR K296P, the amino-terminal 1-243 fragment containing two dsRNA binding motifs, or the isolated first RNA binding motif (amino acids 1-123). Mutation of K64E within the dsRNA binding motif 1 destroyed dsRNA binding and the ability to rescue DHFR translation. Immunoprecipitation of T7 epitope-tagged PKR derivatives from cell lysates detected interaction between intact PKR and the amino-terminal 1-243 fragment as well as a 1-243 fragment harboring the K64E mutation. Expression of adenovirus VAI RNA, a potent inhibitor of PKR activity, did not disrupt this interaction. In contrast, intact PKR did not interact with fragments containing the first dsRNA binding motif (1-123), the second dsRNA binding motif (98-243), or the isolated PKR kinase catalytic domain (228-551). These results demonstrate that the translational stimulation mediated by the dominant negative PKR mutant does not require dimerization, but requires the ability to bind dsRNA and indicate these mutants act by competition for binding to activators.
Generalized Sphere Packing Bound (2015)

Kulkarni and Kiyavash recently introduced a new method to establish upper bounds on the size of deletion-correcting codes. This method is based upon tools from hypergraph theory. The deletion channel is represented by a hypergraph whose edges are the deletion balls (or spheres), so that a deletion-correcting code becomes a matching in this hypergraph. Consequently, a bound on the size of such a code can be obtained from bounds on the matching number of a hypergraph. Classical results in hypergraph theory are then invoked to compute an upper bound on the matching number as a solution to a linear-programming problem: the problem of finding fractional transversal. The method by Kulkarni and Kiyavash can be applied not only for the deletion channel but also for other error channels. This paper studies this method in its most general setup. First, it is shown that if the error channel is regular and symmetric then the upper bound by this method coincides with the well-known sphere packing bound and thus is called here the generalized sphere packing bound. Even though this bound is explicitly given by a linear programming problem, finding its exact value may still be a challenging task. The art of finding the exact upper bound (or slightly weaker ones) is the assignment of weights to the hypergraph's vertices in a way that they satisfy the constraints in the linear programming problem. In order to simplify the complexity of the linear programming, we present a technique based upon graph automorphisms that in many cases significantly reduces the number of variables and constraints in the problem. We then apply this method on specific examples of error channels. We start with the Z channel and show how to exactly find the generalized sphere packing bound for this setup. Next studied is the nonbinary limited magnitude channel both for symmetric and asymmetric errors, where we focus on the single-error case. We follow up on the deletion channel, which was the original motivation of the work by Kulkarni and Kiyavash, and show how to improve upon their upper bounds for single-deletion-correcting codes. Since the deletion and grain-error channels have a similar structure for a single error, we also improve upon the existing upper bounds on single-grain error-correcting codes. Finally, we apply this method for projective spaces and find its generalized sphere packing bound for the single-error case.
High-resolution and Wide Field-of-view Fourier Ptychographic Microscopy (2013)

I will report on a new computational method for microscopy, Fourier Ptychographic Microscopy. This method performs phase retrieval through illumination angle diversity and allows us to transform a standard microscope with a 0.08 NA objective into a high-performance gigapixel microscope with 0.8 micron resolution, field-of-view of 120 mm2 and a long depth-of-field of 0.3 mm. This method transform the general challenge of standard microscopy from one coupled to the physical limitations of the system’s optics to one that is computationally solvable. The method can significantly simplify digital pathology procedures.
Peptide and Protein Analysis Using Ion Mobility–Mass Spectrometry (2011)

This chapter contains sections titled: Ion Mobility–Mass Spectrometry: Instrumentation and Separation Selectivity Characterizing and Interpreting Peptide and Protein Structures Applications of IM-MS to Peptide and Protein Characterizations Future Directions Acknowledgments References
Does Imagery Work? Effects on Performance and Mental Skills (2008)

This paper provides a review of the literature on the relationship between imagery and sport performance as well as between imagery and the development of mental skills. First, the many anecdotal reports of imagery effectiveness are noted and a definition is provided focusing on the multidimensional nature of imagery. The evidence of the enhancing influence of imagery on sport performance is then examined by looking at the early studies (mental practice), case studies, preparatory imagery, imagery used as part of a mental training package, and the use of imagery by successful athletes. After discussing the limitations in research imagery relating to performance, the focus turned to the relationship of imagery and the development of mental skills (e.g., confidence, dealing with pressure, motivation). Factors affecting imagery effectiveness were highlighted including imagery perspective, type of task, positive versus negative imagery, and timing of imagery. The paper concluded with future directions for research including such areas as amount of time to image, imagery and children, imagery ability, and imagery and performance expertise.
Behavioral and autonomic correlates of the tactile evoked allodynia produced by spinal glycine inhibition: effects of modulatory receptor systems and excitatory amino acid antagonists (1989)

Intrathecal administration of glycine (strychnine) or GABA (bicuculline) but not opioid (naloxone), adrenergic (phentolamine) or serotonin (methysergide) receptor antagonists resulted in a dose-dependent organized agitation response to light tactile stimulation. This effect was maximally evoked by oscillating but not continuous stimulation applied to a dermatome corresponding to the levels of spinal cord acted upon by the intrathecal antagonist. Similar results were observed in chloralose-urethane anesthetized rats in which tactile stimulation evoked hypertensive responses following local tactile stimuli. The effects were only mildly depressed by even high doses of spinal morphine or DADL and not at all by ST-91 or baclofen. In contrast, intrathecal injections of glutamate receptor antagonists resulted in a dose-dependent depression of the strychnine evoked hyperesthesia with the ordering of activity being MK-801, AP-5, kynurenic acid, SKF10047 and ketamine. At doses below those which produced motor dysfunction, however, these agents had no effects on the hot-plate response latency. These data emphasize that low threshold afferent input is likely subject to an ongoing modulation, the loss of which results in a miscoding of the afferent stimulus yielding a pain relevant message. The lack of effect of agents having a powerful effect on somatic pain stimuli and the converse effects of glutamate receptor antagonists on the strychnine hyperesthesia at doses which do not affect the somatic pain response indicate discriminable processing systems, the characteristics of which resemble the clinical phenomenon observed in patients suffering from sensory dysesthesia following central and peripheral horn injury.
Carbonic Anhydrases Fused to Anion Transporters of the SulP Family: Evidence for a Novel Type of Bicarbonate Transporter (2004)

The sulfate permease (SulP) family of secondary carriers (TC #2.A.53) includes functionally characterized members that are inorganic anion:H+ symporters and anion:anion antiporters. We here describe members of this family that are fused to non-transporter domains, a relatively rare occurrence in prokaryotes. One subfamily includes members that are either fused to or are encoded within operons that also encode homologues of carbonic anhydrases, suggesting that these carriers function to take up bicarbonate or carbonate. Within another subfamily, a SulP homologue is fused to rhodanese, a thiosulfate:cyanide sulfotransferase, suggesting that this carrier functions in sulfate uptake. Some homologues are encoded in operons that also encode putative Na+/H+ antiporters of the NhaD family (TC #2.A.62) or putative Na+:HCO3- symporters of the SBT family (TC #2.A.83). SulP homologues present in fungi and some bacteria are fused to cyclic AMP-binding domains and STAS domains that presumably function in regulation or targeting. Phylogenetic analyses reveal the relationships of these proteins and protein domains to each other and show that in some cases, but not in others, the hydrophilic domains/proteins have coevolved with the transporters.
Retinal vascular permeability suppression by topical application of a novel VEGFR2/Src kinase inhibitor in mice and rabbits (2008)

Retinal and choroidal vascular diseases, with their associated abnormalities in vascular permeability, account for the majority of patients with vision loss in industrialized nations. VEGF is upregulated in ischemic retinopathies such as diabetes and is known to dramatically alter vascular permeability in a number of nonocular tissues via Src kinase-regulated signaling pathways. VEGF antagonists are currently in clinical use for treating the new blood vessels and retinal edema associated with neovascular eye diseases, but such therapies require repeated intraocular injections. We have found that vascular leakage following intravitreal administration of VEGF in mice was abolished by systemic or topical delivery of what we believe is a novel VEGFR2/Src kinase inhibitor; this was confirmed in rabbits. The relevance of Src inhibition to VEGF-associated alterations in vascular permeability was further substantiated by genetic studies in which VEGF injection or laser-induced vascular permeability failed to augment retinal vascular permeability in Src-/- and Yes-/- mice (Src and Yes are ubiquitously expressed Src kinase family members; Src-/- and Yes-/- mice lacking expression of these kinases show no vascular leak in response to VEGF). These findings establish a role for Src kinase in VEGF-mediated retinal vascular permeability and establish a potentially safe and painless topically applied therapeutic option for treating vision loss due to neovascular-associated retinal edema.
Directions in gene therapy. (1991)

Retroviral mediated gene transfer has proven to be an effective method of transferring genetic material into many different mammalian cells. Presented in this short review is a history of retroviral-mediated gene transfer as it relates to hematopoietic- and blood-derived cells. Gene transfer into mouse, primate, and fetal sheep and primate hematopoietic stem cells is discussed. Gene transfer into lymphocytes, in particular tumor-infiltrating lymphocytes, is also addressed. The use of such lymphocytes in ongoing and submitted clinical protocols utilizing retroviral-mediated gene transfer are presented.
Design of dispersive optomechanical coupling and cooling in ultrahigh-Q/V slot-type photonic crystal cavities (2010)

We describe the strong optomechanical dynamical interactions in ultrahigh-Q/V slot-type photonic crystal cavities. The dispersive coupling is based on mode-gap photonic crystal cavities with light localization in an air mode with 0.02(λ/n)3 modal volumes while preserving optical cavity Q up to 5×10(6). The mechanical mode is modeled to have fundamental resonance Ωm/2π of 460 MHz and a quality factor Qm estimated at 12,000. For this slot-type optomechanical cavity, the dispersive coupling gom is numerically computed at up to 940 GHz/nm (Lom of 202 nm) for the fundamental optomechanical mode. Dynamical parametric oscillations for both cooling and amplification, in the resolved and unresolved sideband limit, are examined numerically, along with the displacement spectral density and cooling rates for various operating parameters.
Lipoxygenase modulation to reverse carcinogenesis. (2001)

New studies of the relationship between polyunsaturated fatty acid metabolismand carcinogenesis have led to novel molecular targets for cancer chemoprevention research. These targets include procarcinogenic lipoxygenases (LOXs), including 5-, 8-, and 12-LOX, and anticarcinogenic LOXs, including 15-LOX-1 and possibly 15-LOX-2. Recent studies indicate that 15-LOX-1 is down-regulated in colorectal cancer cells and that the ability of nonsteroidal anti-inflammatory drugs, a class of clinically active cancer chemopreventive agents, to induce apoptosis and growth inhibition in these cells was dependent on the induction of 15-LOX-1 and its metabolic product 13-S-hydroxyoctadecadienoic acid. Consistent with the colorectal studies, 15-LOX very recently has shown anticarcinogenic activity in esophageal and prostatic carcinogenesis. Inhibitors of other LOXs (e.g., 5-LOX) have preclinical anticarcinogenic activity and are being developed for clinical chemoprevention study. These and other LOX data led us to propose that the various LOX pathways exist in a dynamic balance that shifts during carcinogenesis toward 5-, 8-, and 12-LOX (and cyclooxygenase-2) and away from 15-LOX. A novel approach for cancer chemoprevention would involve LOX modulators, i.e., agents that can induce the anticarcinogenic and/or inhibit the procarcinogenic LOXs, thereby shifting the balance of LOX activities from procarcinogenic to anticarcinogenic metabolism of polyunsaturated fatty acids.
Pro-inflammatory signaling by Jun-N-terminal kinase in inflammatory bowel disease (2006)

Since Jun-N-terminal kinase participates in intracellular signaling cascades resulting in inflammatory responses, inhibiting this pathway may represent a new treatment for inflammatory bowel disease including ulcerative colitis and Crohn's disease. However, the functional significance of the activation of this kinase in inflammatory bowel disease remains unclear. We investigated whether Jun-N-terminal kinase activation is increased in inflammatory bowel disease and analyzed the effects of SP600125, which decreases inflammatory cytokine synthesis by inhibiting the phosphorylation of this kinase. Phosphorylation of the kinase was examined in affected human colon using an enzyme-linked immunosorbent assay and immunohistochemistry. The effect of SP600125 on cytokine production was examined in cultures of patients' leukocytes and colonic tissue. Finally, rats received injection of SP600125 (30 mg/kg, s.c.) or vehicle twice daily 2 h before the induction of colitis with dextran sulfate sodium. SP600125 effects were determined observationally and histologically. Colonic tissue contained increased phosphorylated kinase in patients with inflammatory bowel disease with expression localized to the nucleus of epithelial and lamina propria mononuclear cells in lesions. Culturing mononuclear cells or colonic tissue with SP600125 down-regulated inflammatory cytokine production. Prophylactic treatment with SP600125 significantly reduced clinical and pathological scores in dextran sulfate sodium-treated rats. This first demonstration of the pathogenetic role of Jun-N-terminal kinase in the development of intestinal inflammation suggests that inhibiting its phosphorylation could benefit patients with inflammatory bowel disease.
Real-Time Impulse-Based Simulation of Rigid Body Systems for Haptic Display (1997)

Abstract To date, haptic interfaces have rarely been used to display complex virtual environments such as those involving 3D mechanical assembly operations, or the use of hand tools. Of the limitations which have been encountered, one is the absence of suitable simulation techniques which provide a general, user-defined virtual environment. This paper discusses the use of an impulse-based simulation as a general purpose multibody simulator for haptic display. This technique uses Poisson’s hypothesis in conjunction with Coulomb friction as the basis of the contact model. Since haptic displays are required to run in real time with a constant step size and high update rate, changes to the algorithm are required. We identify the “impact state” as a critical feature of the contact model, and outline the various ways it can be chosen. Finally, we describe the implementation of a planar multibody simulator on one and two-axis haptic displays.
Whose America?: Contesting the Meaning of America in the 1930s () (2005)

Unlike a geometric object whose definition does not change, the definitions of “America” and “American” vary by time and space. Historically, responses to the question of what it means to be American have been fluid and contested and—although some would wish it otherwise—no single definition of the term exists. Our nation's history is replete, indeed, with examples of conflict over exactly how to (re)define the meaning of “America” and the parameters of citizenship (2). America projected this debate abroad in the first half of the twentieth century during two world wars, with Woodrow Wilson's support for self-determination and a “world safe for democracy” and later Franklin Roosevelfs Atlantic Charter. The period between the wars, though, is rarely seen in high school history courses as a struggle over the meaning of democracy. In actuality, the 1930s witnessed tremendous struggles over the definition and extent of democratic practices and...
[Endocrinology]. (2006)

There is now convincing evidence that the risks of hormone replacement therapy in post-menopausal women exceed its benefits. Similarly, it has now been shown that the current use of low-dose oral contraceptives significantly increases the risk for cardiac and arterial thrombotic events. With regard to hypothyroidism, it is now clearly established that the adjunction of T3 to T4 does not offer any benefits. Furthermore, a study has now demonstrated that patients with no symptoms of coronary heart disease can be started safely on the full replacement dose of T4 rather than titrating the dose over a prolong period of time. Finally, several theses are now well documented where chinese herbal products contain thyroid hormones or glucocorticoids potentially leading to serious side effects and our patients should be informed about these dangers.