gebhart/patrepeval huggingface dataset:
Molecular recognition of parathyroid hormone by its G protein-coupled receptor (2008)

Parathyroid hormone (PTH) is central to calcium homeostasis and bone maintenance in vertebrates, and as such it has been used for treating osteoporosis. It acts primarily by binding to its receptor, PTH1R, a member of the class B G protein-coupled receptor (GPCR) family that also includes receptors for glucagon, calcitonin, and other therapeutically important peptide hormones. Despite considerable interest and much research, determining the structure of the receptor-hormone complex has been hindered by difficulties in purifying the receptor and obtaining diffraction-quality crystals. Here, we present a method for expression and purification of the extracellular domain (ECD) of human PTH1R engineered as a maltose-binding protein (MBP) fusion that readily crystallizes. The 1.95-A structure of PTH bound to the MBP-PTH1R-ECD fusion reveals that PTH docks as an amphipathic helix into a central hydrophobic groove formed by a three-layer alpha-beta-betaalpha fold of the PTH1R ECD, resembling a hot dog in a bun. Conservation in the ECD scaffold and the helical structure of peptide hormones emphasizes this hot dog model as a general mechanism of hormone recognition common to class B GPCRs. Our findings reveal critical insights into PTH actions and provide a rational template for drug design that targets this hormone signaling pathway.
Analysis of gravity field variations derived from Superconducting Gravimeter recordings, the GRACE satellite and hydrological models at selected European sites (2008)

Abstract If we restrict the spatial resolution to a half-wavelength of about 1500 km and the temporal resolution to 1 month, GRACE-derived temporal gravity variations can be resolved within the μgal (10 -8 m/s2) range. A comparison with ground gravity measurements from selected Superconducting Gravimeter (SG) stations forming the Global Geodynamics Project (GGP) provides an independent validation. For this study, five European SGstations were selected that both cover a large test field and allow closely located SG-stations to be studied. Prior to this comparison, GRACE and SG data sets have to be reduced for the same known gravity effects due to Earth and ocean tides, pole tide, and atmosphere. After these reductions, the remaining part can be mainly attributed to mass changes in terrestrial water storage. For this reason, gravity variations derived from global hydrological models are included in the comparison of SG and GRACE results. Conversely, the hydrology models can be checked by gravity variations determined from GRACE and SG observations. For most of the SG locations investigated here, the comparison based primarily on computed correlations shows quite a good agreement among the gravity variation derived from the three different kinds of data sets: SG, GRACE, and hydrology models. The variations in SG gravity (point measurements) prove to be representative for a large area within the μgal accuracy range, if local gravity effects are removed correctly. Additionally, a methodology for an analysis of dominant common features based on the EOF-technique is proposed and illustrated. The first principal component shows strong periodicity, and the search for arbitrary periods confirms a strong common annual component, which reduces the total signal content considerably. The first eigenvector reveals common features and differences between distinct SG stations. Discrepancies between SG, GRACE, and hydrology models at individual SG stations, detected by both methods, may provide valuable hints for further investigations of respective data series.
Photometric inconsistency on a mixed-reality face (2006)

A mixed-reality face (MR face) is a mosaic face with real and virtual facial parts, presented by overlaying a virtual facial part on a real face using mixed-reality techniques. An MR face is an effective means to improve communication in mixed-reality space by restoring the eye expressions lost when wearing HMDs. Photometric registration between the real and virtual parts is important because our eyes are very sensitive, even to small changes in human faces. However, efforts to achieve perfect 'physical' photometric registration on an MR face are not feasible in an ordinary MR space. Therefore, it is essential to clarify the sensitivity of our eyes to the photometric inconsistencies on an MR face, and to concentrate on resolving them. In this paper, we first present the results of a systematic experiment that evaluated our sensitivity to the photometric inconsistencies on an MR face. Then, a technique to resolve the inconsistency and an experimental system to demonstrate the effectiveness of an MR face are described.
The RNA-binding protein TIAR is translocated from the nucleus to the cytoplasm during Fas-mediated apoptotic cell death. (1995)

We have determined the structure, intracellular localization, and tissue distribution of TIAR, a TIA-1-related RNA-binding protein. Two related isoforms of TIAR, migrating at 42 and 50 kDa, are expressed in primate cells. Unlike TIA-1, which is found in the granules of cytotoxic lymphocytes, TIAR is concentrated in the nucleus of hematopoietic and nonhematopoietic cells. Because TIAR can trigger DNA fragmentation in permeabilized thymocytes, it is a candidate effector of apoptotic cell death. Consistent with this possibility, we have found that the expression and intracellular localization of TIAR change dramatically during Fas-mediated apoptosis. TIAR moves from the nucleus to the cytoplasm within 30 min of Fas ligation. Redistribution of TIAR precedes the onset of DNA fragmentation and is not a nonspecific consequence of nuclear disintegration. Cytoplasmic redistribution of TIAR is not observed during cellular activation triggered by mitogens such as concanavalin A or phytohemagglutinin. Our results suggest that cytoplasmic redistribution of TIAR may be a general feature of the apoptotic program.
Site-Directed Mutagenesis of Active Site Residues of Phosphite Dehydrogenase (2005)

Phosphite dehydrogenase (PTDH) catalyzes the unusual oxidation of phosphite to phosphate with the concomitant reduction of NAD(+) to NADH. PTDH shares significant amino acid sequence similarity with D-hydroxy acid dehydrogenases (DHs), including strongly conserved catalytic residues His292, Glu266, and Arg237. Site-directed mutagenesis studies corroborate the essential role of His292 as all mutants of this residue were completely inactive. Histidine-selective inactivation studies with diethyl pyrocarbonate provide further evidence regarding the importance of His292. This residue is most likely the active site base that deprotonates the water nucleophile. Kinetic analysis of mutants in which Arg237 was changed to Leu, Lys, His, and Gln revealed that Arg237 is involved in substrate binding. These results agree with the typical role of this residue in D-hydroxy acid DHs. However, Glu266 does not play the typical role of increasing the pK(a) of His292 to enhance substrate binding and catalysis as the Glu266Gln mutant displayed an increased k(cat) and unchanged pH-rate profile compared to those of wild-type PTDH. The role of Glu266 is likely the positioning of His292 and Arg237 with which it forms hydrogen bonds in a homology model. Homology modeling suggests that Lys76 may also be involved in substrate binding, and this postulate is supported by mutagenesis studies. All mutants of Lys76 display reduced activity with large effects on the K(m) for phosphite, and Lys76Cys could be chemically rescued by alkylation with 2-bromoethylamine. Whereas a positively charged residue is absolutely essential for activity at the position of Arg237, Lys76 mutants that lacked a positively charged side chain still had activity, indicating that it is less important for binding and catalysis. These results highlight the versatility of nature's catalytic scaffolds, as a common framework with modest changes allows PTDH to catalyze its unusual nucleophilic displacement reaction and d-hydroxy acid DHs to oxidize alcohols to ketones.
L Form of <i>Neisseria gonorrhoeae</i> (1966)

Roberts, Richard B. (Walter Reed Army Institute of Research, Washington, D.C.). L form of Neisseria gonorrhoeae. J. Bacteriol. 92:1609-1614. 1966.-L forms were produced by the penicillin gradient plate technique from a recently isolated strain of Neisseria gonorrhoeae. To date, these L forms have had 30 serial passages on medium containing penicillin. Stabilized L forms developed on penicillin-free medium after 10 or more passages in the presence of penicillin. Morphological characteristics of these organisms were identical to L forms of meningococci. Medium and environmental conditions necessary for optimal growth included: Brain Heart Infusion of pH 7.2 to 7.4, 1.1 to 1.3% agar, 10 to 20% sucrose, 10 to 20% horse serum, temperature at 35 to 36 C, and increased CO(2) tension (candle jar). L forms were more resistant than the parent gonococcus to penicillin, ampicillin, methicillin, cycloserine, and cephalothin, whereas both organisms had similar sensitivities to bacitracin, vancomycin, ristocetin, novobiocin, tetracycline, and erythromycin. Revertant gonococci were produced on penicillin-free medium from L forms which had had 1, 5, and 10 serial passages. Morphology and fermentative reactions of revertant strains were identical to those of the parent gonococcus. Revertant strains produced L forms more readily than the parent organism; in fact, L forms from certain revertants did not require penicillin, but only serum and sucrose for their production and propagation on artificial medium.
A high precision micropower operational amplifier (1979)

An operational amplifier configuration implemented as a true micropower high precision op amp is described. It includes a well controlled and predictable DC biasing network that is insensitive to variations in temperature, supply voltages, and process. Also, it permits single supply operation. Excellent DC precision characteristics, comparable to or better than the very best precision op amps currently available, are realized yet at micropower levels. By simply increasing the biasing currents, a version of this design operates in general purpose applications without any degradation in its high precision characteristics. Thus, the AC performance levels of general purpose op amps are attained at a fraction of supply current. This device is fabricated using a standard bipolar IC process; an ion-implanted JFET is added to simplify biasing.
On-Line Conversion Monitoring Through Ultrasound Velocity Measurements in Bulk Styrene Polymerization in a Recycle Reactor. Part II: Mathematical Model (2000)

This paper is the second part of a description of the on-line monitoring through ultrasound propagation velocity measurements of styrene polymerization in a continuous recycle reactor. A set of calibrations and a simple mathematical model are proposed to interpret the experimental ultrasound propagation velocity measurements during the course of bulk and solution polymerizations. The validity of this new method is shown by comparison of values obtained by Ultrasound Propagation Velocity (UPV) and traditional techniques. The model allows a good description of the experimental results.
Optical perfect shuffle using Wollaston prisms (1991)

The 2-D optical perfect shuffle is demonstrated in an imaging system which uses Wollaston prisms for replicating the input image. Full parallelism and high light efficiency are achieved using this perfect shuffle system.
Tiltable rotating liquid mirrors: a progress report (2007)

Context.We give a progress report on tiltable, nanoengineered, rotating liquid mirrors, which were discussed in previous papers.
Hypoplastic Left Heart Syndrome â€“ Unresolved Issues (2014)

Hypoplastic left heart syndrome (HLHS) is one of the most challenging congenital heart defects. At present, it is expected that - at best - 70% of newborns with HLHS will reach adulthood. This review addresses the problems of right ventricular (RV) failure and insufficient growth of pulmonary vasculature in these patients. In order to further improve long-term prognosis translational research to control RV function, growth of pulmonary arteries and progress in chronic circulatory support are clearly needed to provide a further improvement for adults with HLHS.
An inverse problem for three-dimensional x-ray scatter/transmission imaging (2003)

The mathematical formulation and numerical aspects of the inverse problem of a three-dimensional (3D) x-ray imaging method are introduced. The imaging method relies on measuring radiation scattered at two directions orthogonal to an incident beam that scans one side of the object, in addition to the traditionally recorded transmitted radiation. From this set of measurements, the inverse problem reconstructs three images: the attenuation coefficient at the incident energy, the attenuation coefficient at a scattering energy and the scattering coefficients (with the latter directly related to the electron, and hence mass density). The algorithms for this triple imaging process are presented and their numerical characteristics are discussed. With the aid of regularization and an iterative learning process, stable and bounded solutions are obtained. This 3D image-reconstruction process was able to recover the domain of interest and distinguish between different materials.
Natural zeolite clinoptilolite increases the concentrations of sphingoid bases in the yeastYarrowia lipolytica (2001)

In the present paper, we studied the effect of natural zeolite clinoptilolite on sphingolipid metabolism in the yeast Yarrowia lipolytica. We also investigated if zeolite addition had any impact on cell shape and size, as well as on the pH alterations during the culture growth. High performance liquid chromatography analysis of sphingoid bases obtained by acid hydrolysis of complex sphingolipids from Y. lipolytica showed that their concentrations markedly rose upon the zeolite addition. The largest increase among the identified molecular species of sphingoid bases was seen in C18 phytosphingosine, whose levels rose 6.2-fold and 22.3-fold after culturing cells for 24 and 36 hours respectively in the presence of finely ground zeolite. pH measurements of the culture medium showed a similarity between pH profiles of control and zeolite-supplemented cells, suggesting that ion-exchange capacity was not probably responsible for the observed change in sphingolipid metabolism. Scanning electron microscopy revealed that zeolite affected cell size and shape. Y. lipolytica cells grown in the absence of zeolite were oval-shaped with an average cell size of 0.7-2.7 microns, whereas when cultured with zeolite, they were round-shaped and larger, having an average cell size of 1.3-2.9 microns.
Virtual sensor system: Merging the real world with a simulation environment (2011)

Often, when testing the controls of autonomous vehicles, physical sensors are too expensive to purchase and integrate into the system. This paper proposes a system for the virtualization of sensors used to evaluate Cyber-Physical Systems. It has been developed to extend the testbed capabilities of The Ohio State University Control and Intelligent Transportation Research Laboratory. The primary focus is on providing virtual sensor information to physical robotic vehicles without the cost of purchasing and integrating physical sensors. Several sensors have been implemented using this system, and two test scenarios are described to show usefulness of this system in cyber-physical systems in general and intelligent transportation systems in particular.
Combining objects and relations (1992)

Whereas the object oriented paradigm is best suited for the modelling of self contained objects it is not suited for the modelling of relations between objects. For the logic oriented paradigm on the other hand the converse is true. This paper shows that objects and their relations can be modelled in an integrated way by combining both paradigms.
Treatment of radiation‐induced dermatitis with light‐emitting diode (LED) photomodulation (2007)

LED photomodulation treatments immediately after IMRT reduces the incidence of NCI grades 1, 2, and 3 skin reactions in patients with breast cancer treated by radiation therapy (RT) postlumpectomy.
Probiotics in prevention and treatment of obesity: a critical view (2016)

The worldwide prevalence of obesity more than doubled between 1980 and 2014. The obesity pandemic is tightly linked to an increase in energy availability, sedentariness and greater control of ambient temperature that have paralleled the socioeconomic development of the past decades. The most frequent cause which leads to the obesity development is a dysbalance between energy intake and energy expenditure. The gut microbiota as an environmental factor which influence whole-body metabolism by affecting energy balance but also inflammation and gut barrier function, integrate peripheral and central food intake regulatory signals and thereby increase body weight. Probiotics have physiologic functions that contribute to the health of gut microbiota, can affect food intake and appetite, body weight and composition and metabolic functions through gastrointestinal pathways and modulation of the gut bacterial community.
Dicarboxylic Acids and Glucose Utilization in Humans: Effect of Sebacate (1994)

Dicarboxylic acids have been proposed as an alternate lipid energetic substrate for total parenteral nutrition. No data are yet available on the possible effect of dicarboxylic acids on glucose metabolism in humans. Thus, we examined the effect of a continuous intravenous infusion of the sodium salt of the 10-carbon atom alyphatic dicarboxylic acid, sebacate (Sb), on insulin-dependent glucose metabolism in four control subjects, four patients with insulin-dependent diabetes mellitus, and four obese subjects. All subjects received a constant 5-hour infusion of saline or sebacate (6.6 g/h), in a randomized order on two different days. After 3 hours of infusion, a 120-minute euglycemic, hyperinsulinemic clamp procedure was performed (insulin infusion rate = 40 mU/m2 per minute). Glucose uptake, plasma sebacate, insulin, glucagon, C-peptide, and ketone bodies were measured. No significant differences in insulinemia were found among groups either during the saline infusion or the sebacate infusion. On the contrary, glucose uptake (molar) was significantly reduced during the sebacate vs the saline day in all three groups: 6.7 +/- 0.04 vs 3.7 +/- 1.3 in control subjects (p < .001), 4.6 +/- 0.4 vs 2.5 +/- 1.2 in patients with insulin-dependent diabetes mellitus (p < .001), and 4.8 +/- 0.5 vs 2.7 +/- 0.2 mg/kg per minute in obese subjects (p < .001). In conclusion, Sb administration was associated with a glucose-sparing effect as shown by the reduced glucose uptake in all patients studied. Sebacate did not stimulate insulin secretion, inasmuch as no modification of C-peptide plasma levels was observed after 3 hours of Sb infusion.(ABSTRACT TRUNCATED AT 250 WORDS)
Resection of liver metastases from colorectal cancer – how can we improve results? (2003)

Resection of liver metastases due to large bowel cancer has become an important part of treatment. In recent years, there have been advances in technique and the selection of patients has been extended. Surgery is the only modality which currently offers the possibility of long-term survival. Resection combined with chemotherapy may offer improved survival, but more data are needed. Chemotherapy may cause regression of metastases to permit resection where initially they were considered unresectable. The data available from such studies are presented.
3D imaging of Sox2 enhancer clusters in embryonic stem cells (2014)

Combinatorial cis-regulatory networks encoded in animal genomes represent the foundational gene expression mechanism for directing cell-fate commitment and maintenance of cell identity by transcription factors (TFs). However, the 3D spatial organization of cis-elements and how such sub-nuclear structures influence TF activity remain poorly understood. Here, we combine lattice light-sheet imaging, single-molecule tracking, numerical simulations, and ChIP-exo mapping to localize and functionally probe Sox2 enhancer-organization in living embryonic stem cells. Sox2 enhancers form 3D-clusters that are segregated from heterochromatin but overlap with a subset of Pol II enriched regions. Sox2 searches for specific binding targets via a 3D-diffusion dominant mode when shuttling long-distances between clusters while chromatin-bound states predominate within individual clusters. Thus, enhancer clustering may reduce global search efficiency but enables rapid local fine-tuning of TF search parameters. Our results suggest an integrated model linking cis-element 3D spatial distribution to local-versus-global target search modalities essential for regulating eukaryotic gene transcription.
Investment Tax Credits, Capital Gains Taxation, and Reindustrialization of the U.S. Economy (1981)

(1981). Investment Tax Credits, Capital Gains Taxation, and Reindustrialization of the U.S. Economy. Journal of Economic Issues: Vol. 15, No. 3, pp. 769-773.
Curing relations of hexakis(methoxymethyl)melamine and its combinations with acrylic polymers (1964)

Abstract The curing of hexakis(methoxymethyl)melamine (HMM) alone and in blends with functionally substituted acrylic polymers was monitored by means of torsional braid analysis, infrared spectroscopy, weight change, and analysis of the volatile by‐products. HMM alone, when heated with a strong acid catalyst, forms thermoset condensation polymers which evidently have the same methylene‐bridged structure as conventional melamine‐formaldehyde resins; the major elimination product is methylal. When HMM is blended with an acrylic polymer containing methacrylic acid units, the acrylic chains are crosslinked by elimination of methanol and formation of methylene ester linkages between the acid groups and the melamine. The crosslinking reaction proceeds with or without strong acid catalysis and is many times faster than the self‐condensation of HMM. Acrylic polymers containing primary hydroxyl groups (derived from 2‐hydroxyethyl methacrylate) also undergo acid‐catalyzed reaction with HMM, and at a rate so much faster than analogous carboxylated polymers, that storage stability of the catalyzed resin becomes a serious problem. If a weaker catalyst, such as phthalic anhydride, is used, the curing reaction is very much slower. In order to develop the maximum number of new linkages, according to any of the experimental criteria, all of these systems must be heated for longer times, or at higher temperatures, than are customarily used in thermosetting resin technology. Thus the known utility and durability of such acrylic/melamine resins are achieved with only a fraction of the total number of crosslinks which are potentially capable of formation.
Targets of chymase inhibitors (2011)

If chymase inhibition proves to be a useful strategy for the attenuation of angiotensin II, TGF-β and MMP-9 in vivo, the application of chymase inhibitors is likely to become widespread in various diseases in the clinical setting. Chymase inhibitors are anticipated not to interfere with the homeostasis of resting tissues, that is, those not affected by injury or inflammation.
Implications of Web 2.0 for financial institutions: Be a driver, not a passenger (2007)

Web 2.0 heralds a new era of communication with a massive increase in information supply and where news, opinion and services flow directly from user to user. Financial institutions can take advantage if they stay abreast of this development. However, any Web 2.0 presence of a financial institution must be authentic and consistent with the institution’s brand and corporate culture. To leverage the potential, the need for an immaculate reputation and the right type of brand is becoming ever more important.