gebhart/patrepeval huggingface dataset:
Genetic regulation of galactokinase in Tetrahymena by cyclic AMP, glucose, and epinephrine (1978)

We have found evidence that transcription of the galactokinase (ATP:D-galactose 1-phosphotransferase; EC 2.7.1.6) gene is inhibited, in the animal-like protozoan Tetrahymena, by dibutyryl adenosine 3':5'-cyclic monophosphate, glucose, and epinephrine. The specific activities of galactokinase in Tetrahymena cells grown in defined media with galactose or glycerol as the principal carbon source are equivalent; the specific activity in glucose minimal medium is [unk] the value. Thus, while there seems to be no specific induction of the enzyme by the substrate, galactose, there is a strong "repression" by glucose. This repression by glucose is mimicked, in glycerol-grown cells, by the addition of millimolar amounts of dibutyryl adenosine 3':5'-cyclic monophosphate or phosphodiesterase inhibitors such as caffeine and theophylline. When glucose-grown cells are washed and resuspended in carbohydrate-free medium, the galactokinase specific activity increases by as much as 10-fold within 12 hr. This increase is blocked by dibutyryl adenosine 3':5'-cyclic monophosphate and by epinephrine (synthesized by Tetrahymena, and previously shown to activate a membrane-bound adenylate cyclase in extracts of this organism), as well as by inhibitors of mRNA synthesis, maturation, and translation. Our results suggest that glucose and epinephrine can regulate transcription of the galactokinase gene by modulation of cyclic nucleotide levels. The observation that the nonmetabolized sugars 2-deoxyglucose, 2-deoxygalactose, and alpha-methylglucoside are as effective as glucose suggests that the sugar itself, or an immediate metabolite such as the 1-phosphate derivative, may be the effector.
Gamma Scintigraphic Evaluation of a Miniaturized AERx® Pulmonary Delivery System for Aerosol Delivery to Anesthetized Animals Using a Positive Pressure Ventilation System (2005)

The purpose of this study was to characterize performance of a miniaturized AERx((R)) Pulmonary Delivery System designed for aerosol administration to large animal models. The miniaturized AERx System was developed through a systematic scaling down of the AERx System used for humans to allow for operation in certain animal models with lower inspiratory flow rates and inhaled volumes than those used for humans. We used gamma scintigraphy to characterize the in vivo particle deposition achieved with the miniaturized AERx System in two dogs. The dogs were 3-4 years old, and weighed 10.4 kg and 13.6 kg. Acepromazine was used as pre-anesthetic medication. Anesthesia was induced with 5% isoflurane. The trachea was intubated using an endotracheal tube (internal diameter 8.5 mm), and the dogs were ventilated using positive pressure during the exposure using the LRRI puff generator. An inhalation of aerosol was initiated by activation of the puff generator though the computer-controlled interface. Each dog inhaled approximately 0.8 L per puff, of which the aerosol volume comprised approximately 0.25 L, at a target flow rate of 15 L/min. The dogs were exposed to 10 AERx Strips in 10 puffs. The mass median aerodynamic diameter of the aerosolized formulation was approximately 1.25 microm with a fine particle fraction <3.5 microm of 0.976. The scintigraphic images showed uniform bilateral lung deposition following aerosol delivery with the AERx System. Total lung deposition for the two dogs was 10.7% and 18% of the loaded dose from the AERx Strip. The corresponding peripheral lung: inner lung (P/I) ratios were 0.83 and 0.75, suggestive of deposition in the deep lung. Only 0.1% to 0.2% of the loaded dose was exhaled. These results show the miniature AERx System can efficiently deliver aerosols to the deep lung of dogs. The miniaturized AERx System would be a valuable tool for conducting proof-of-concept studies as well as safety and tolerability analysis of inhaled drug candidates in large animal models.
Improving data quality on low level mercury wastewater analysis (2011)

In order to compare treatability test results evaluating low-level mercury (Hg) removal from oil refinery wastewater, improvements in Hg analytical methods were conducted at two US EPA certified analytical labs. The revisions in the analytical protocols improved Hg recoveries and hence enabled more reliable data interpretation and comparison for the specific wastewater tested. Nevertheless, significant differences between results from the two laboratories were identified in a split-sample experiment.
Porting: SwitchBoard to the VoiceMail task (2003)

The paper examines techniques that allow a well-trained source system built on one task to be rapidly adapted, or ported, to another target task. The two tasks considered are Hub5, or SwitchBoard, as the source system and VoiceMail as the target task. The two tasks are acoustically similar, both being telephone-bandwidth speech tasks, but differ in speaking style. SwitchBoard is conversational speech, VoiceMail is a set of voicemail messages. Various porting schemes for acoustic models are examined, including discriminative MAP and heteroscedastic LDA. Using around 28 hours of data, the error rate on VoiceMail was reduced by 42% relative compared to the baseline SwitchBoard performance.
Combining the Antimesothelin Immunotoxin SS1P With the BH3-mimetic ABT-737 Induces Cell Death in SS1P-resistant Pancreatic Cancer Cells (2013)

SS1P is an antimesothelin recombinant immunotoxin (RIT). Pancreatic ductal adenocarcinoma (PDAC) cell lines are resistant to SS1P, despite high mesothelin expression. The aim of this study is to examine whether combining SS1P and BH3-mimetic ABT-737 induces cell death in a panel of PDAC cell lines. ABT-737 binds and neutralizes several antiapoptotic BCL2 family proteins, but has a low affinity for the short-lived MCL1 and BCL2A1. SS1P inhibits protein synthesis, which has shown to downregulate MCL1. PDAC cell lines KLM-1, BxPc-3, and Panc 3.014 were resistant to SS1P or ABT-737 alone. Combining both compounds led to a significant increase in cell death. After 48 hours of treatment, cell death was observed in 92% of KLM-1, 55% of BxPc-3, and 23% of Panc 3.014 cells. Panc 3.014 had the highest number of mesothelin-binding sites (92×10(3)), followed by KLM-1 (58×10(3)) and BxPc-3 (3×10(3)). ABT-737 had no effect on SS1P internalization, but enhanced SS1P-induced protein synthesis inhibition significantly in KLM-1, to a lesser extent in BxPc-3, and very little in Panc 3.014. SS1P alone or in combination with ABT-737 downregulated MCL1 in KLM-1 and BxPc-3, but not in Panc 3.014. Similar observations were made for BCL2A1, which had the highest levels in Panc 3.014. Compared with KLM-1, Panc 3.014, and BxPc-3 also had lower proapoptotic BAK and a trend toward higher MCL1. Proapoptotic BAX was similar in KLM-1 and BxPc-3, but lower in Panc 3.014. In conclusion, combining SS1P with ABT-737 overcomes SS1P-resistance in PDAC, although to a variable extent. The efficacy of the combination is mainly associated with the RIT-associated inhibition of protein synthesis and the ability to downregulate MCL1 and BCL2A1, while levels of other key apoptotic proteins may also be important. Our data support the combination of an RIT and a BH3-mimetic, and identify factors that potentially limit the efficacy of such therapeutic approach.
Concurrent Pump Scheduling and Storage Level Optimization Using Meta-models and Evolutionary Algorithms (2014)

In spite of the growing computational power offered by the commodity hardware, fast pump scheduling of complex water distribu- tion systems is still a challenge. In this paper, the Artificial Neural Network (ANN) meta-modeling technique has been employed with a Genetic Algorithm (GA) for simultaneously optimizing the pump operation and the tank levels at the ends of the cycle. The generalized GA+ANN algorithm has been tested on a real system in the UK. Comparing to the existing operation, the daily cost is reduced by about 10 − 15%, while the number of pump switches are kept below 4 switches-per-day. In addition, tank levels are optimized ensure a periodic behavior, which results in a predictable and stable performance over repeated cycles.
The effect of L-DOPA onCryptococcus neoformansgrowth and gene expression (2011)

Cryptococcus neoformans is unusual among melanotic fungi in that it requires an exogenous supply of precursor to synthesize melanin. C. neoformans melanizes during mammalian infection in a process that presumably uses host-supplied compounds such as catecholamines. L-3,4-dihydroxyphenylalanine (L-DOPA) is a natural catecholamine that is frequently used to induce melanization in C. neoformans and L-DOPA-melanized cryptococci manifest resistance to radiation, phagocytosis, detergents and heavy metals. Given that C. neoformans needs exogenous substrate for melanization one question in the field is the extent to which melanin-associated phenotypes reflect the presence of melanin or metabolic changes in response to substrates. In this study we analyze the response of C. neoformans to L-DOPA with respect to melanization, gene expression and metabolic incorporation. Increasing the concentration of L-DOPA promotes melanin formation up to concentrations > 1 mM, after which toxicity is apparent as manifested by reduced growth. The timing of C. neoformans cells to melanization is affected by growth phase and cell density. Remarkably, growth of C. neoformans in the presence of L-DOPA results in the induction of relatively few genes, most of which could be related to stress metabolism. We interpret these results to suggest that the biological effects associated with melanization after growth in L-DOPA are largely due to the presence of the pigment. This in turn provides strong support for the view that melanin contributes to virulence directly through its presence in the cell wall.
Controlling multibody dynamics via browsing and time reversal (2008)

Animation techniques for controlling passive simulation are commonly based on an optimization paradigm: the user provides goals a priori, and sophisticated numerical methods minimize a cost function that represents these goals. Unfortunately, for multibody systems with discontinuous contact events these optimization problems can be highly nontrivial to solve, and many-hour offline optimizations, unintuitive parameters, and convergence failures can frustrate end-users and limit usage. On the other hand, users are quite adaptable, and systems which provide interactive feedback via an intuitive interface can leverage the user's own abilities to quickly produce interesting animations. However, the online computation necessary for interactivity limits scene complexity in practice.
This thesis presents two methods for controlling the rigid body simulations. The first is Many-Worlds Browsing, a method which exploits the speed of multibody simulators to compute numerous simulations in parallel (offline and online), and allow the user to browse and modify them interactively. By bolting responsive, powerful, intuitive interfaces onto relatively simple sampling techniques we get a method that enables animators to produce compelling results with a minimum of effort. The second method is time-reversed simulation: we provide only the final resting configuration of the system and run the simulator backwards in time. During the development of this method we encountered a number of surprisingly counter-intuitive results, which can be elucidated using a combination of numerical simulation and thought experiments.
New Materials Using Atom Transfer Radical Polymerization: Microcapsules Containing Polar Core Oil (2003)

A technique for encapsulation of polar organic solvents using Atom Transfer Radical Polymerization (ATRP) by suspension polymerization is presented. ATRP was used to synthesize crosslinked amphiphilic copolymers based on oil soluble and water soluble comonomers by suspension polymerization. We demonstrate that the slow rate of ATRP crosslinking reactions allows enough time for polymer to migrate in the oil droplets from the interior to the oil-water interface, yielding the thermodynamically favored capsular morphology. This finding is relevant for the encapsulation of polar core oils where the driving force for polymer migration to the oil-water interface is weak. Using less polar xylene as core oil we have shown that polymer architecture can strongly influence its solubility in the oil phase and therefore the morphology of the suspension polymer particles.
Adhesion Characteristics of Magnetron-Sputter-Deposited Copper on Smooth Cycloolefin for Realizing Wiring with High-Frequency Signal Propagation (2012)

Copper wiring formation on a resin material with a low dielectric constant, a low dielectric loss and a smooth surface is indispensable to realize high-frequency signal propagation with fine wiring patterns. Cycloolefin polymer (COP) resin is a promising material to meet these requirements. We propose adhesive copper seed layer formation on the COP by magnetron sputtering as an alternative to the electroless deposition which usually requires an intentional roughness-induced process to obtain practical adhesion between the resin and the metal. The proposed process steps include plasma nitridation of the COP surface, thin CuN film deposition and Cu film deposition before the electroplating. Excellent adhesion strength between the COP and the metal, greater than 1 kN/m, can be obtained while maintaining a smooth surface, which is attributed to the strong chemical bond generated between the nitrided COP surface and the CuN film. The coplanar transmission line was fabricated using the proposed process steps with semi-additive processes, and we found that the introduction of relatively high-resistive CuN film does not cause degradation of the propagation characteristics.
A simple, compact and robust phase and fluorescence microscope for cell cycle study (Conference Presentation) (2020)

We designed a simple, compact and robust microscope for phase and fluorescent imaging. No mechanical movement of neither sample nor objective or any other part of the system is needed to change between the phase-contrast and fluorescence modality. We can observe a thousand cells in parallel in a single field of view with resolution down to 2 µm. We demonstrate the system on a FUCCI marked HeLa cell culture observed over several days directly in the standard incubator. We compare the obtained statistics to the flow cytometer data and show that we can produce a statistically relevant time-resolved measurement
Resting fMRI-guided TMS evokes subgenual anterior cingulate response in depression (2022)

ABSTRACT Depression alleviation following treatment with repetitive transcranial magnetic stimulation (rTMS) tends to be more effective when TMS is targeted to cortical areas with high resting state functional connectivity (rsFC) with the subgenual anterior cingulate cortex (sgACC). However, it has not yet been confirmed that rsFC-guided TMS coil placement leads to TMS modulation of the sgACC. For each participant (N=115, 34 depressed patients), a peak rsFC cortical ‘hotspot’ for the sgACC and control targets were prospectively identified. Single pulses of TMS interleaved with fMRI readouts were then administered to these targets and established significant downstream fMRI BOLD responses in the sgACC. We then marked an association between TMS-evoked BOLD responses in the sgACC and rsFC between the stimulation site and sgACC. This effect was qualified by a difference between healthy and patient participants: only in depressed patients, positively connected sites of stimulation led to the strongest evoked responses in the sgACC. Our results highlight rsFC-based targeting as a viable strategy to causally modulate sgACC subcortical targets and further suggest that cortical sites with high positive rsFC to the sgACC might represent an alternative target for the treatment of depression.
Dendritic Cell Interactions with Bacteria (2007)

Emerging evidence suggests that dendritic cells play a major role in the orchestration of the immune response to bacteria. This volume introduces the reader to the complex world of dendritic cells and describes how the intimate interplay between dendritic cells, bacteria and the environment dictates either the induction of immunity or tolerance to the encountered microorganisms. It discusses how this can allow organisms to tolerate beneficial bacteria and to react against pathogens, as well as the strategies pathogenic bacteria have evolved to escape dendritic cell patrolling. Expert contributors discuss everything from bacterial capture and recognition to their killing, processing and the induction of adaptive immunity. Particular focus is on the tissue context in which bacteria are handled by dendritic cells and on possible defects therein, which may potentially lead to chronic infection or inflammation. Graduate students and researchers will find this an invaluable overview of current dendritic cell biology research.
Early Weight-Bearing Improves Cartilage Repair in an in vitro Model of Microfracture: Comparison of Two Mechanical Loading Regimens on Simulated Microfracture Based onFibrin Gel Scaffolds Encapsulating Bone Marrow Mesenchymal Stem Cells (2020)

Microfracture of focal chondral defects produces fibrocartilage, which inconsistently integrates with the surrounding native tissue and possesses inferior mechanical properties compared to hyaline cartilage. Mechanical loading modulates cartilage during development, but it remains unclear how loads produced in the course of postoperative rehabilitation affect the formation of the new fibrocartilaginous tissue. The purpose of this study was to assess the influence of different mechanical loading regimens simulating weight-bearing or passive motion exercises on an in vitro model of microfracture repair based on fibrin gel scaffolds encapsulating mesenchymal stem cells (MSCs).
An agile and efficient MIMO system for small terminals (2013)

A novel multiple-input-multiple-output (MIMO) system for the high LTE bands is <br/>proposed. The system is comprised of four small loop antennas, each having one communication and one control port. The antennas exhibit impressive frequency agility and a good level of inherent isolation over the different frequency bands. The performance of the MIMO system is evaluated by the spectral efficiency versus frequency and by the newly defined information bandwidth metric.
Estrogenic Potential of 2-Alkyl-4-(thio)chromenone 6-O-Sulfamates:  Potent Inhibitors of Human Steroid Sulfatase (2003)

2-Alkylchromen-4-one 6-O-sulfamates, a new class of potent steroid sulfatase (STS) inhibitors, were evaluated for their estrogenic potential. Structure-activity relationships for estrogenic activity were identified; however, no correlation with STS inhibition was found. Estrogenicity is favored by bulky side chains and can be effectively abrogated by an (additional) linear substituent. Compound 2g, which lacks estrogenicity while potently inhibiting STS, has an ideal in vitro profile for the treatment of breast cancer.
Multiprotocol Label Switching (2001)

Multiprotocol label switching (MPLS) techniques are developed to support, with a single network, different kinds of network protocols. Chapter 10 discusses this emerging network technology. It includes the basic concepts, such as shim label, label stack, penultimate hop popping, label switched path (LSP) tunnel, label distribution protocol, resource reservation protocol (RSVP), constraint-based routing protocol, and support of differentiated services in a MPLS network. Two important applications, traffic engineering and virtual private networks (VPNs), are also presented.
In vivo differentiation of N‐acetyl aspartyl glutamate from N‐acetyl aspartate at 3 Tesla (2007)

A method is described that allows the in vivo differentiation of N-acetyl aspartate (NAA) from N-acetyl aspartyl glutamate (NAAG) by in vivo MR spectroscopy (MRS) at 3 Tesla (3T). The method, which is based on MEGA-point-resolved spectroscopy (PRESS) editing, selectively targets the aspartyl spin system of one species while deliberately removing the other species from the spectrum. This allows quantitative measurements of NAA and NAAG without the need for fitting of unresolved peaks. White matter concentrations of NAA (6.7 +/- 0.3 mM) and NAAG (2.2 +/- 0.3 mM) were measured in 10 healthy volunteers to demonstrate the method.
Sensitization to Airborne Molds and Its Health Effects in Peat Moss Processing Plant Workers (2006)

The goal of this study was to evaluate the incidence of sensitization to the major molds found in peat dust in workers exposed to stored peat moss and the health impact of this sensitization. Air samples from each plant were obtained to measure the levels of airborne molds, bacteria, and dust. There were 189 workers from 14 peat moss processing plants (3 all-year mixing plants and 11 seasonal plants) recruited for the study. The subjects completed a symptoms questionnaire, underwent spirometric measurements and skin-prick tests, and gave venous blood samples. Blood samples from 43 nonexposed control subjects were also taken. A similar percentage of smokers from both plant types was observed. Twenty-eight percent of the workers tested had a positive serum reaction to at least one of the tested molds. The percentage of positive workers varied from plant to plant, going from none in 4 plants to 14 out of 21 for 1 plant. This variability was not correlated with the airborne levels of molds. FEV tended to be lower in the workers with positive antibodies compared with seronegative workers. IgG positive frequency was higher for those workers employed in the all-year plants, and workers from those plants had lower FEV/FVC than seasonal plant workers. Seasonal plants were more contaminated with molds than all-year mixing plants, suggesting that the duration of exposure may trigger more sensitization than the level of exposure. We conclude that there is a high incidence of mold sensitization in peat moss factory workers and that this sensitization may have a negative respiratory health impact.
Galectin-1 Triggers an Immunoregulatory Signature in Th Cells Functionally Defined by IL-10 Expression (2012)

Galectin-1 (Gal-1), a β-galactoside-binding protein, can alter fate and effector function of Th cells; however, little is known about how Gal-1 induces Th cell differentiation. In this article, we show that both uncommitted and polarized Th cells bound by Gal-1 expressed an immunoregulatory signature defined by IL-10. IL-10 synthesis was stimulated by direct Gal-1 engagement to cell surface glycoproteins, principally CD45, on activated Th cells and enhanced by IL-21 expression through the c-Maf/aryl hydrocarbon receptor pathway, independent of APCs. Gal-1-induced IL-10(+) T cells efficiently suppressed T cell proliferation and T cell-mediated inflammation and promoted the establishment of cancer immune-privileged sites. Collectively, these findings show how Gal-1 functions as a major glycome determinant regulating Th cell development, inflammation, and tumor immunity.