gebhart/patrepeval huggingface dataset:
Cloning and heterologous expression of a gene cluster for the biosynthesis of tetracenomycin C, the anthracycline antitumor antibiotic of Streptomyces glaucescens. (1987)

Through complementation of mutations specifically blocking the biosynthesis of tetracenomycin C by Streptomyces glaucescens and selecting for resistance to tetracenomycin C in Streptomyces lividans, all of the genes for the production of tetracenomycin C were inserted in pIJ702, a high copy-number Streptomyces gene cloning vector. The tcm biosynthetic and resistance genes occur as a single cluster in the S. glaucescens genome and are expressed in heterologous streptomycete hosts like S. lividans, resulting in the overproduction of pigmented intermediates of the tetracenomycin C biosynthetic pathway.
Ectopic Bone Formation in Titanium Mesh Loaded with Bone Morphogenetic Protein and Coated with Calcium Phosphate (2001)

The osteoinductive properties of porous titanium fiber mesh, with or without a calcium phosphate coating and loaded with recombinant human bone morphogenic protein-2 (rhBMP-2) or rhBMP-2 and native bovine BMP (S-300) were investigated in a rat ectopic assay model. A total of 112 calcium phosphate-coated and 112 noncoated porous titanium implants, either loaded with rhBMP-2 and S-300 or loaded with rhBMP-2 alone, were subcutaneously placed in 56 Wistar-King rats. The rats were killed 5, 10, 20, and 40 days postoperatively, and the implants were retrieved. Histologic analysis demonstrated that all growth factor and carrier combinations induced ectopic cartilage and bone formation at 5 and 10 days, respectively. At 20 days, bone formation increased and was characterized by trabecular bone and bone marrow-like tissue. At 40 days, more lamellar bone and hemopoietic bone marrow-like tissue were present. At both times, more bone had been formed in calcium phosphate-coated implants than in noncoated samples. Further, in rhBMP-2 and S-300-loaded specimens, bone formation was higher than in rhBMP-2 only-loaded specimens. In rhBMP-2 only-loaded specimens, bone formation was mainly localized inside the mesh material, whereas in specimens loaded with both rhBMP-2 and S-300, the bone was localized inside and surrounding the titanium mesh. The histological findings were confirmed by calcium content and alkaline phosphatase activity measurements. In addition, all specimens showed osteocalcin expression as early as 5 days postoperatively. Our results show that the combination of titanium mesh with BMPs can induce ectopic bone formation and that this bone formation seems to be similar to "enchondral" ossification. In addition, a thin calcium phosphate coating can have a beneficial effect on the bone-inducing properties of a scaffold material. Finally, rhBMP-2 and native BMP act synergistically in ectopic bone induction.
Antitumor activity of mifepristone in the human LNCaP, LNCaP-C4, and LNCaP-C4-2 prostate cancer models in nude mice (2000)

This is the first report demonstrating significant antitumor activity of mifepristone in both androgen-sensitive and androgen-insensitive variants of the LNCaP human prostate cancer model in nude mice. These results suggest a potential clinical benefit of the use of antiprogestins as a novel nonandrogen ablation therapeutic approach in the management of prostate cancer.
The Key to Long-Term Success in Liposuction: A Guide for Plastic Surgeons and Patients (2004)

Patients need to have realistic expectations for a long-term successful body contour result. There are four key elements for long-term successful improvement in body contour, and the patient is responsible for the first three: exercise, a proper diet, and other positive lifestyle changes; and successful body contouring. An extensive survey requesting information about the procedures, areas of liposuction, lifestyle habits, and satisfaction was mailed to 600 patients who had liposuction surgery performed between 1999 and 2003. One hundred and eight surveys were undeliverable and 209 completed surveys were returned (34.8 percent of 600 mailed surveys and 42.5 percent of 492 delivered surveys). Data were analyzed by a binary logistic regression with backward elimination. Weight gain (versus no weight gain) was used as the dependent variable. The results showed that regardless of whether the patient did or did not gain weight, both groups reported being very satisfied (30 percent and 48 percent, respectively) or satisfied (43 percent and 34 percent, respectively) with their procedure. Among the weight gain patients, 72 percent would still have the procedure again, compared with 82 percent of responders who did not gain weight. When asked if they would recommend the procedure to family or friends, 90 percent of responders who did not gain weight would recommend the procedure whereas only 74 percent of responders who did gain weight would recommend the procedure (p < 0.001). Among those patients who gained weight, only 29 percent thought their appearance was excellent or good (compared with 79 percent of those who did not gain weight). Among the 57 percent of patients who did not gain weight, 35 percent report exercising more postoperatively (compared with only 10 percent in the weight gain group, p = 0.002) and 50 percent report eating a healthier diet (22 percent in the weight gain group report eating a healthier diet, p = 0.002). In the weight gain group, 67 percent report no change in their diet regimen and only 17 percent thought their productivity increased (compared with 25 percent among the no weight gain group, p = 0.002). Successful body contouring surgery requires a patient to embrace positive lifestyle habits. The results of this survey have been used to create a quantitative decision-making framework or a "road map" for patients and plastic surgeons to use for navigating toward successful long-term results.
Feature-based prediction of non-classical and leaderless protein secretion (2004)

We present a sequence-based method, SecretomeP, for the prediction of mammalian secretory proteins targeted to the non-classical secretory pathway, i.e. proteins without an N-terminal signal peptide. So far only a limited number of proteins have been shown experimentally to enter the non-classical secretory pathway. These are mainly fibroblast growth factors, interleukins and galectins found in the extracellular matrix. We have discovered that certain pathway-independent features are shared among secreted proteins. The method presented here is also capable of predicting (signal peptide-containing) secretory proteins where only the mature part of the protein has been annotated or cases where the signal peptide remains uncleaved. By scanning the entire human proteome we identified new proteins potentially undergoing non-classical secretion. Predictions can be made at http://www.cbs.dtu.dk/services/SecretomeP.
High-speed recording of thermal load during laser trans-epithelial corneal refractive surgery using a 750 Hz ablation system (2018)

The ITEC software is effective in controlling the maximum temperature rise during laser ablation in the extremely challenging situation of trans-PRK involving high ablation volumes of almost 6000nl, potentially improving the outcomes. The ITEC system limited the maximum temperature to 39.7°C in the epithelium, and 37.7°C in the stroma. The epithelial temperature was always higher than stromal temperature (regardless of high or low fluence irradiation). Safety limit of 40°C found in the literature was never reached.
Transforming Growth Factor-β1 (TGF-β1)-stimulated Fibroblast to Myofibroblast Differentiation Is Mediated by Hyaluronan (HA)-facilitated Epidermal Growth Factor Receptor (EGFR) and CD44 Co-localization in Lipid Rafts (2013)

Fibroblast to myofibroblast differentiation drives effective wound healing and is largely regulated by the cytokine transforming growth factor-β1 (TGF-β1). Myofibroblasts express α-smooth muscle actin and are present in granulation tissue, where they are responsible for wound contraction. Our previous studies show that fibroblast differentiation in response to TGF-β1 is dependent on and mediated by the linear polysaccharide hyaluronan (HA). Both the HA receptor, CD44, and the epidermal growth factor receptor (EGFR) are involved in this differentiation response. The aim of this study was to understand the mechanisms linking HA-, CD44-, and EGFR-regulated TGF-β1-dependent differentiation. CD44 and EGFR co-localization within membrane-bound lipid rafts was necessary for differentiation, and this triggered downstream mitogen-activated protein kinase (MAPK/ERK) and Ca(2+)/calmodulin kinase II (CaMKII) activation. We also found that ERK phosphorylation was upstream of CaMKII phosphorylation, that ERK activation was necessary for CaMKII signaling, and that both kinases were essential for differentiation. In addition, HA synthase-2 (HAS2) siRNA attenuated both ERK and CaMKII signaling and sequestration of CD44 into lipid rafts, preventing differentiation. In summary, the data suggest that HAS2-dependent production of HA facilitates TGF-β1-dependent fibroblast differentiation through promoting CD44 interaction with EGFR held within membrane-bound lipid rafts. This induces MAPK/ERK, followed by CaMKII activation, leading to differentiation. This pathway is synergistic with the classical TGF-β1-dependent SMAD-signaling pathway and may provide a novel opportunity for intervention in wound healing.
A Monte Carlo and physical phantom evaluation of quantitative In-111 SPECT (2005)

Accurate estimation of the 3D in vivo activity distribution is important for dose estimation in targeted radionuclide therapy (TRT). Although SPECT can potentially provide such estimates, SPECT without compensation for image degrading factors is not quantitatively accurate. In this work, we evaluated quantitative SPECT (QSPECT) reconstruction methods that include compensation for various physical effects. Experimental projection data were obtained using a GE VH/Hawkeye system and an RSD torso phantom. Known activities of In-111 chloride were placed in the lungs, liver, heart, background and two spherical compartments with inner diameters of 22 mm and 34 mm. The 3D NCAT phantom with organ activities based on clinically derived In-111 ibritumomab tiuxetan data was used for the Monte Carlo (MC) simulation studies. Low-noise projection data were simulated using previously validated MC simulation methods. Fifty sets of noisy projections with realistic count levels were generated. Reconstructions were performed using the OS-EM algorithm with various combinations of attenuation (A), scatter (S), geometric response (G), collimator-detector response (D) and partial volume compensation (PVC). The QSPECT images from the various combinations of compensations were evaluated in terms of the accuracy and precision of the estimates of the total activity in each organ. For experimental data, the errors in organ activities for ADS and PVC compensation were less than 6.5% except the smaller sphere (-11.9%). For the noisy simulated data, the errors in organ activity for ADS compensation were less than 5.5% except the lungs (20.9%) and blood vessels (15.2%). Errors for other combinations of compensations were significantly (A, AS) or somewhat (AGS) larger. With added PVC, the error in the organ activities improved slightly except for the lungs (11.5%) and blood vessels (3.6%) where the improvement was more substantial. The standard deviation/mean ratios were all less than 1.5%. We conclude that QSPECT methods with appropriate compensations provided accurate In-111 organ activity estimates. For the collimator used, AGS was almost as good as ADS and may be preferable due to the reduced reconstruction time. PVC was important for small structures such as tumours or for organs in close proximity to regions with high activity. The improved quantitative accuracy from QSPECT methods has the potential for improving organ dose estimations in TRT.
Drain Voltage Dependence of On Resistance in 700V Super Junction LDMOS Transistor (2004)

In this paper, the dependence of the specific on resistance R DS *A on drain voltage V D is presented for the first time for 700V super junction (SJ) based multi resurf LDMOS transistor and such results are compared to those of single-RESURF (SR) and double-RESURF (DR) LDMOS transistors. Based on ISE based 3-D device simulation results it has been demonstrated that even the decrease in the width of the NP stripes of the SJ structure results in significant improvement in R DS *A, such improvement is greatly suffered at high drain bias V D due to an increased influence in the constriction of the current conduction path due to large depletion effect.
In-Situ Measurement of Supply-Noise Maps With Millivolt Accuracy and Nanosecond-Order Time Resolution (2007)

An in situ measurement scheme for generating supply-noise maps, which can be conducted while running applications in product-level LSIs, was developed. The design of the on-chip voltage sampling probe is based on a simple ring oscillator, which converts local supply difference between VDD and V <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">SS</sub> to oscillation-frequency deviation. High measurement accuracy is achieved by off-chip digital signal processing and calibration. This scheme was used to successfully measure 69-mV local supply noise with 5-ns time resolution in a 3G-cellular-phone processor. It will thus help in designing power-supply networks and in visually verifying the quality of a power supply
Splines: a perfect fit for signal and image processing (1999)

The article provides arguments in favor of an alternative approach that uses splines, which is equally justifiable on a theoretical basis, and which offers many practical advantages. To reassure the reader who may be afraid to enter new territory, it is emphasized that one is not losing anything because the traditional theory is retained as a particular case (i.e., a spline of infinite degree). The basic computational tools are also familiar to a signal processing audience (filters and recursive algorithms), even though their use in the present context is less conventional. The article also brings out the connection with the multiresolution theory of the wavelet transform. This article attempts to fulfil three goals. The first is to provide a tutorial on splines that is geared to a signal processing audience. The second is to gather all their important properties and provide an overview of the mathematical and computational tools available; i.e., a road map for the practitioner with references to the appropriate literature. The third goal is to give a review of the primary applications of splines in signal and image processing.
Simple Approach to Micropattern Cells on Common Culture Substrates by Tuning Substrate Wettability (2004)

The ability to spatially control cell adhesion and multicellular organization is critical to many biomedical and tissue-engineering applications. This work describes a straightforward method to micropattern cells onto glass, silicone rubber, and polystyrene using commercially available reagents. An elastomeric polydimethylsiloxane stamp is used to contact-transfer extracellular matrix protein onto a surface followed by blocking cell adhesion in the surrounding regions by the physisorption of Pluronic surfactants. Using self-assembled monolayers of alkanethiols on gold as model surfaces to control surface wettability, we found that protein printing was most effective at intermediate to highly wetting surfaces whereas Pluronic adsorption occurred at intermediate to low wetting surfaces. Within a regimen of intermediate wettability both techniques were applied in conjunction to restrict cell adhesion to specified patterns. Adjusting the wettability of common tissue culture substrates to the same intermediate range again allowed the micropatterning of cells, suggesting that this approach is likely to be generally applicable to many types of materials. This technique therefore may allow for wider adoption of cell patterning.
A New Method for Catalytic Syntheses of Block Copolymers via ROMP: Development of Stereoblock Copoly(endo-dicyclopentadiene) (2008)

Abstract A new method for catalytic block copolymerization of cyclic olefins was developed for the first time. Cross metathesis was successfully utilized as a reversible chain-transfer reaction. Sequential addition of plural monomers to the polymeric terminal olefin provided a block copolymer of Mw⁄Mn≈2.0. This paper also focuses on the development of a new crystalline–amorphous block copolymer, hydrogenated stereoblock copoly(endo-dicyclopentadiene).
Investigation of the distribution and control ofSalmonella entericaserovar Enteritidis PT6 in layer breeding and egg production (2003)

Investigations were carried out in a layer breeder hatchery, a layer parent rearing farm, a layer parent farm and in a commercial pullet rearing and cage layer farm where Salmonella enterica serovar Enteritidis (S. Enteritidis) PT6 had become established. PT6 was initially found in focal points in the hatchery, such as hatcher ventilation ducting, tray wash areas and waste areas, but improved disinfection was followed by a rapid disappearance of contamination. Several different phage types of S. Enteritidis were found in the hatchery but most of these proved to be genotypically identical with PT6. Investigations of contaminated layer breeder and rearing sites showed that the terminal disinfection programmes in place were effective in that no carry-over of infection occurred and the organism was rapidly eliminated from the organization. Infection with PT6 originating from chicks was investigated on a commercial pullet rearing farm. After several rounds of treatment with a fluoroquinolone antibiotic and competitive exclusion, no Salmonella was found in faeces or cloacal swabs but was present in dust in one of six houses. Sampling carried out after cleaning and disinfection confirmed clearance of the organism from the site, but infection did become established in a commercial laying house receiving the birds.
[Nicotine excretion by the apocrine and eccrine sweat in smokers and passive smokers]. (1992)

Specimens of apocrine and eccrine sweat collected without and after pilocarpine stimulation from smokers and non-smokers exposed to tobacco smoke were investigated for the presence of nicotine. The concentrations were determined by radioimmunoassay, so that the values obtained represent the concentrations of nicotine plus its metabolites, e.g. cotinine. Measurable nicotine concentrations were found in all samples. The levels measured in apocrine sweat were higher than those in eccrine sweat. The presence of unchanged nicotine in sweat was revealed by GC/MS.
The Pharmacokinetics of Intravesical and Oral Oxybutynin Chloride (1992)

In 8 children with cystometric evidence of bladder instability and marked systemic side effects to oral oxybutynin we investigated the efficacy of intravesical instillation and compared the pharmacokinetics of both routes of delivery. In addition, 4 healthy dogs underwent intravesical instillation for pharmacokinetic studies. Intravesical oxybutynin was well tolerated, efficacious and rapidly absorbed, resulting in plasma concentrations markedly higher than after oral administration. In only 2 patients did this method of instillation result in side effects, and both had previously undergone bladder augmentation. This lack of significant systemic side effects despite high plasma concentrations suggests that a metabolite may be generated after oral administration that is responsible for the side effects. These studies demonstrate that the mode of administration affects the mechanism of action, side effects, pharmacokinetics and metabolism of oxybutynin, and that intravesical instillation is clinically effective and results in minimal side effects.
Chaos and quantum thermalization (1994)

We show that a bounded, isolated quantum system of many particles in a specific initial state will approach thermal equilibrium if the energy eigenfunctions which are superposed to form that state obey Berry's conjecture. Berry's conjecture is expected to hold only if the corresponding classical system is chaotic, and essentially states that the energy eigenfunctions behave as if they were Gaussian random variables. We review the existing evidence, and show that previously neglected effects substantially strengthen the case for Berry's conjecture. We study a rarefied hard-sphere gas as an explicit example of a many-body system which is known to be classically chaotic, and show that an energy eigenstate which obeys Berry's conjecture predicts a Maxwell-Boltzmann, Bose-Einstein, or Fermi-Dirac distribution for the momentum of each constituent particle, depending on whether the wave functions are taken to be nonsymmetric, completely symmetric, or completely antisymmetric functions of the positions of the particles. We call this phenomenon eigenstate thermalization. We show that a generic initial state will approach thermal equilibrium at least as fast as O(\ensuremath{\Elzxh}/\ensuremath{\Delta})${\mathit{t}}^{\mathrm{\ensuremath{-}}1}$, where \ensuremath{\Delta} is the uncertainty in the total energy of the gas. This result holds for an individual initial state; in contrast to the classical theory, no averaging over an ensemble of initial states is needed. We argue that these results constitute a sound foundation for quantum statistical mechanics.
Application of Bioluminescence Resonance Energy Transfer (BRET) for Biomolecular Interaction Studies (2006)

Bioluminescence in BIA. Bioluminescence resonance energy transfer (BRET) can be utilised for biomolecular interaction analysis (BIA) to quantify protein–protein interactions in living cells. This was demonstrated with the cAMP-dependent protein kinase regulatory and catalytic subunits fused to Renilla luciferase (Rluc) and GFP2, respectively.
Enhanced sensitivity of ubiquinone-deficient mutants of Saccharomyces cerevisiae to products of autoxidized polyunsaturated fatty acids. (1996)

Coenzyme Q (ubiquinone or Q) plays a well known electron transport function in the respiratory chain, and recent evidence suggests that the reduced form of ubiquinone (QH2) may play a second role as a potent lipid-soluble antioxidant. To probe the function of QH2 as an antioxidant in vivo, we have made use of a Q-deficient strain of Saccharomyces cerevisiae harboring a deletion in the COQ3 gene [Clarke, C. F., Williams, W. & Teruya, J. H. (1991) J. Biol. Chem. 266, 16636-16644]. Q-deficient yeast and the wild-type parental strain were subjected to treatment with polyunsaturated fatty acids, which are prone to autoxidation and breakdown into toxic products. In this study we find that Q-deficient yeast are hypersensitive to the autoxidation products of linolenic acid and other polyunsaturated fatty acids. In contrast, the monounsaturated oleic acid, which is resistant to autoxidative breakdown, has no effect. The hypersensitivity of the coq3delta strains can be prevented by the presence of the COQ3 gene on a single copy plasmid, indicating that the sensitive phenotype results solely from the inability to produce Q. As a result of polyunsaturated fatty acid treatment, there is a marked elevation of lipid hydroperoxides in the coq3 mutant as compared with either wild-type or respiratory-deficient control strains. The hypersensitivity of the Q-deficient mutant can be rescued by the addition of butylated hydroxytoluene, alpha-tocopherol, or trolox, an aqueous soluble vitamin E analog. The results indicate that autoxidation products of polyunsaturated fatty acids mediate the cell killing and that QH2 plays an important role in vivo in protecting eukaryotic cells from these products.