gebhart/patrepeval huggingface dataset:
In vitro synthesis of poly(3-hydroxybutyric acid) by using an enzymatic coenzyme A recycling system (1998)

Purified recombinant poly(hydroxyalkanoic acid), PHA, synthase from Chromatium vinosum was used to examine in vitro poly(3-hydroxybutyric acid) (P(3HB)) formation. In combination with purified propionyl-coenzyme A transferase of Clostridium propionicum a two-enzyme in vitro P(3HB) biosynthesis system was established which allowed the synthesis of P(3HB) from free d-(−)-3-hydroxybutyric acid as substrate. The coenzyme A residue for the activation of this hydroxyacid was provided by acetyl-coenzyme A. By adding acetyl-coenzyme A synthetase to this system, a three-enzyme in vitro P(3HB) biosynthesis system was established. Coenzyme A that was released during the polymerization reaction was coupled to acetate which again served as the coenzyme A donor for the activation of 3-hydroxybutyric acid. The energy for the in vitro P(3HB) synthesis was provided by ATP hydrolyses resulting in acetyl-coenzyme A synthesis catalyzed by the acetyl coenzyme A synthetase. In this way the in vitro synthesis of P(3HB) became independent of the consumption of the expensive coenzyme A. By this procedure a handy system is available to produce in vitro PHA on a semipreparative scale.
Intradermal adipocytes mediate fibroblast recruitment during skin wound healing (2013)

Acute wound healing in the skin involves the communication of multiple cell types to coordinate keratinocyte and fibroblast proliferation and migration for epidermal and dermal repair. Many studies have focused on the interplay between hematopoietic cells, keratinocytes and fibroblasts during skin wound healing, yet the possible roles for other cell types within the skin, such as intradermal adipocytes, have not been investigated during this process. Here, we identify that adipocyte lineage cells are activated and function during acute skin wound healing. We find that adipocyte precursor cells proliferate and mature adipocytes repopulate skin wounds following inflammation and in parallel with fibroblast migration. Functional analysis of mice with defects in adipogenesis demonstrates that adipocytes are necessary for fibroblast recruitment and dermal reconstruction. These data implicate adipocytes as a key component of the intercellular communication that mediates fibroblast function during skin wound healing.
Digital image processing techniques applied to the radar detection problem (2002)

The author investigates the utility of applying to the radar detection problem several nonlinear filtering structures that have been shown to be useful in image processing. In particular, a CFAR-(constant-false-alarm-rate-)like window processing technique is described. After describing the form of this processing window and pointing out the similarities between it and both conventional CFAR and median filtering windows, the author presents performance results. Results are shown that clearly demonstrate the utility of this window in suppressing cluster and main lobe sidelobe interference. The proposed nonlinear filter structure can track narrowband signals without having to estimate filter coefficients. It can reduce the effects of both Gaussian and exponential noise. The filter is also able to greatly improve the appearance of a detected signal in wideband noise.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
EFFECT OF TEMPERATURE ON THE COMPOSITION OF FATTY ACIDS IN <i>ESCHERICHIA COLI</i> (1962)

Marr, Allen G. (University of California, Davis) and John L. Ingraham. Effect of temperature on composition of fatty acids in Escherichia coli. J. Bacteriol. 84:1260-1267. 1962.-Variations in the temperature of growth and in the composition of the medium alter the proportions of individual fatty acids in the lipids of Escherichia coli. As the temperature of growth is lowered, the proportion of unsaturated fatty acids (hexadecenoic and octadecenoic acids) increases. The increase in content of unsaturated acids with a decrease in temperature of growth occurs in both minimal and complex media. Cells harvested in the stationary phase contained large amounts of cyclopropane fatty acids (methylenehexadecanoic and methylene octadecanoic acids) in comparison with cells harvested during exponential growth. Cells grown in a chemostat, limited by the concentration of ammonium salts, show a much higher content of saturated fatty acids (principally palmitic acid) than do cells harvested from an exponentially-growing batch culture in the same medium. Cells grown in a chemostat, limited by the concentration of glucose, show a slightly higher content of unsaturated fatty acids than cells from the corresponding batch culture. The results do not indicate a direct relation between fatty acid composition and minimal growth temperature.
Thermochemical hydrogen production. Volume 1: Program summary. Final report Jan 72-Dec 80 (1981)

This program began in January 1972 as Project IU-4-14 with American Gas Association (A.G.A.) support, and it has been a long-range, laboratory-scale effort. The task work of this program dealt with identifying and characterizing multistep sequences of thermochemical and electrochemical reactions for splitting water into its component elements, hydrogen and oxygen. The objective was to determine if closed-loop sequences of chemical reactions (cycles) could be made operable at laboratory scale and with operating conditions that indicated: high energy efficiency, reasonable temperature and voltage requirements relative to energy sources, ability to produce hydrogen at elevated pressure, a degree of corrosivity that would be compatible with existing of foreseeable materials of construction, and use of chemical intermediates that are not rare or expensive.
Inhibitors of TonB Function Identified by a High-Throughput Screen for Inhibitors of Iron Acquisition in Uropathogenic Escherichia coli CFT073 (2014)

The urinary tract is one of the most common sites of infection in humans, and uropathogenic Escherichia coli (UPEC) is the main causative agent of urinary tract infections. Bacteria colonizing the urinary tract face extremely low iron availability. To counteract this, UPEC expresses a wide variety of iron acquisition systems. To exploit iron acquisition in UPEC as a global target for small-molecule inhibition, we developed and carried out a whole-cell growth-based high throughput screen of 149,243 compounds. Our primary assay was carried out under iron-limiting conditions. Hits in the primary screen were assayed using two counterscreens that ruled out iron chelators and compounds that inhibit growth by means other than inhibition of iron acquisition. We determined dose-response curves under two different iron conditions and purchased fresh compounds for selected hits. After retesting dose-response relationships, we identified 16 compounds that arrest growth of UPEC only under iron-limiting conditions. All compounds are bacteriostatic and do not inhibit proton motive force. A loss-of-target strategy was employed to identify the cellular target of these inhibitors. Two compounds lost inhibitory activity against a strain lacking TonB and were shown to inhibit irreversible adsorption of a TonB-dependent bacteriophage. Our results validate iron acquisition as a target for antibacterial strategies against UPEC and identify TonB as one of the cellular targets. IMPORTANCE Half of women will suffer at least one episode of urinary tract infection (UTI) during their lifetime. The current treatment for UTI involves antibiotic therapy. Resistance to currently used antibiotics has steadily increased over the last decade, generating a pressing need for the development of new therapeutic agents. Since iron is essential for colonization and scarce in the urinary tract, targeting iron acquisition would seem to be an attractive strategy. However, the multiplicity and redundancy of iron acquisition systems in uropathogenic Escherichia coli (UPEC) make it difficult to pinpoint a specific cellular target. Here, we identified 16 iron acquisition inhibitors through a whole-cell high-throughput screen, validating iron acquisition as a target for antibacterial strategies against UPEC. We also identified the cellular target of two of the inhibitors as the TonB system.
Robust stability analysis of constrained <i>l</i><sub>1</sub>‐norm model predictive control (1993)

Abstract Sufficient conditions for robust closed‐loop stability of a class of dynamic matrix control (DMC) systems are presented. The l 1 ‐norm is used in the objective function of the on‐line optimization, thus resulting in a linear programming problem. The ideas of this work, however, are expandable to other DMC‐type controllers. The keys to the stability conditions are: to use an end‐condition in the moving horizon on‐line optimization; to have coefficients of the move suppression term in the objective function of the on‐line optimization satisfy certain inequalities; and to express the uncertainty as deviations in the unit pulse response coefficients of the nominal plant. These deviations and disturbances must also satisfy certain inequalities. An off‐line tuning procedure for robust stability and performance of a class of DMC controllers is also included, which determines an optimal moving horizon length and optimal values for coefficients of the move suppression term. The applicability of our approach is elucidated through numerical simulations.
Volcanic SO<sub>2</sub> plume height retrieval from UV sensors using a full-physics inverse learning machine algorithm (2017)

Precise knowledge of the location and height of the volcanic sulphur dioxide (SO2) plume is essential for accurate determination of SO2 emitted by volcanic eruptions. Current SO2 plume height retrieval algorithms based on ultraviolet (UV) satellite measurements are very time-consuming and therefore not suitable for near-real-time applications. In this work we present a novel method called the full-physics inverse learning machine (FP-ILM) algorithm for extremely fast and accurate retrieval of the SO2 plume height. FP-ILM creates a mapping between the spectral radiance and the geophysical parameters of interest using supervised learning methods. The FP-ILM combines smart sampling methods, dimensionality reduction techniques, and various linear and non-linear regression analysis schemes based on principal component analysis and neural networks. The computationally expensive operations in FP-ILM are the radiative transfer model computations of a training dataset and the determination of the inversion operator - these operations are performed off-line. The application of the resulting inversion operator to real measurements is extremely fast since it is based on calculations of simple regression functions. Retrieval of the SO2 plume height is demonstrated for the volcanic eruptions of Mt. Kasatochi (in 2008) and Eyjafjallajökull (in 2010), measured by the GOME-2 (Global Ozone Monitoring Instrument - 2) UV instrument on-board MetOp-A.
The PUNDIT natural-language processing system (2003)

The authors describe the PUNDIT (Prolog Understanding of Integrated Text) text-understanding system, which is designed to analyze and construct representations of paragraph-length text. PUNDIT is implemented in Quintus Prolog, and consists of distinct lexical, syntactic, semantic, and pragmatic components. Each component draws on one or more sets of data, including a lexicon, a broad-coverage grammar of English, semantic verb decompositions, rules mapping between syntactic and semantic constituents, and a domain model. Modularity, careful separation of declarative and procedural information, and separation of domain-specific and domain-independent information all contribute to a system which is flexible, extensible and portable. Versions of PUNDIT are now running in five domains, including four military and one medical.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Fabrication of OTFT Array with Coated Thin Film Dielectric and Printed Electrodes by Using Microcontact Printing (2007)

This DOI is not currently attached to any metadata records. DOIs can’t actually ever be deleted (they’re persistent), but sometimes our members create DOIs in error. We do have a process to approximate deletion which we follow only in rare cases where the DOI has been genuinely created in error, and most crucially, if the DOI has never been published anywhere online or in print and never otherwise distributed to or communicated with anyone (authors, readers, reviewers, etc.
Biologically Active constituents of Melaleuca leucadendron: Inhibitors of Induced Histamine Release from Rat Mast Cells. (1991)

Chloroform and methanol extracts of the fruits of Melaleuca leucadendron strongly inhibited histamine release from rat mast cells induced by compound 48/80 or concanavalin A. Ursolic acid, a triterpene, was the most active compound contained in the chloroform extract and two stilbenes, piceatannol and oxyresveratrol, were isolated as active compounds from the methanol extract. Several other stilbenes and related compounds were examined to obtain information on the structure activity relationships of stilbenes.
Scheduled Fuzzy Controllers for Omnidirectional Motion of an Autonomous Inspection Robot with Four Fully Steerable Magnetic Wheels (2016)

This work presents a scheduled fuzzy controllers for an autonomous inspection robot designed to work inside and outside spherical storage tanks. The robot is designed with four fully steerable magnetic wheels and a mechanical topology which promotes the correct adjustment of adhesion system. The proposed motion control works according with robots specific characteristics to ensure the quasi-omnidirectional motion over strong adhesion with tank surface and minimizes wheels kinematics constraints.
Apodized Focusing Fully Etched Subwavelength Grating Couplers (2015)

We experimentally demonstrate apodized focusing subwavelength grating couplers for both the fundamental transverse electric (TE<sub>00</sub>) mode and the fundamental transverse magnetic (TM<sub>00</sub>) mode. A measured insertion loss of 3.2 dB with a 1-dB bandwidth of 36 nm has been obtained for the TE<sub>00</sub> mode, and a measured insertion loss of 3.3 dB with a 1-dB bandwidth of 37 nm has been obtained for the TM<sub>00</sub> mode. Back reflections of -24 dB and -21 dB have been obtained for the TE<sub>00</sub> and TM<sub>00</sub> modes, respectively.
S<inf>h</inf>-interval valued fuzzy ideal (2010)

In this paper, we introduce the concepts of S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">h</sub> -interval valued fuzzy left ideal, S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">h</sub> -interval valued fuzzy right ideal, S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">h</sub> -interval valued fuzzy ideal and extension principle of interval valued fuzzy set, investigate some properties and propose some theorems for homomorphic image and its inverse image on S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">h</sub> -interval valued fuzzy ideal. Finally, we investigate some properties on character of S <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">h</sub> -interval valued fuzzy left(right) ideal.
Development of integrated microfluidic system for genetic analysis (2003)

Biotechnology, in conjunction with semiconductor and microelectronics, would have a tremendous impact on new solutions in gene and drug discovery, point-of-care systems, pharmacogenomics, and environmental and food safety applications. A combination of microfabrication techniques and molecular biology procedures have the potential to produce powerful, inexpensive, and miniature analytical devices (e.g., microfluidic lab chips), aiding further development of genetic analysis. Microfluidics for biotechnology applications require development of inexpensive, high-volume fabrication techniques and reduction of biochemical assays to the chip format. We discuss design, fabrication, and testing of plastic microfluidic devices for on-chip genetic sample preparation and DNA microarray detection. Plastic microfabrication methods are being used to produce components of a complete microsystem for genetic analysis. A detailed discussion on the development of micromixers, microvalves, cell capture, micro-polymerase chain reaction (PCR) devices, and biochannel hybridization arrays is given. We also describe a path to further individual component integration.
Predictive value of alkaline phosphatase for response and time to progression in bortezomib‐treated multiple myeloma patients (2007)

Myeloma bone disease is characterized by osteolytic destruction associated with suppressed osteoblastic activity. Using data from the APEX (Richardson et al., N Engl J Med 2005;352:2487-2498) study, we have assessed the relationship of changes in alkaline phosphatase (ALP) levels during bortezomib therapy with response and time to progression on this therapy. The percentage of ALP increments in responders (complete and partial response) and nonresponders was analyzed at different thresholds and time points. For all bortezomib-treated patients enrolled in the trial (N = 333), at least a 25% increase in ALP from the baseline at 6 week was the most powerful predictor of treatment response (P < 0.0001) and time to progression (206 vs. 169 days) relative to patients with less than a 25% increase in ALP (P = 0.01). Markers of osteoblastic activation may predict quality and duration of response in multiple myeloma. In addition, our data suggest that bone anabolism could inhibit myeloma growth.
Above-room-temperature optically pumped midinfrared W lasers (1998)

We report temperature-dependent pulsed lasing performance, internal losses, and Auger coefficients for optically pumped type-II W lasers with wavelengths in the range of 3.08–4.03 μm at room temperature. All lased to at least 360 K, and produced 1.5–5 W peak power at 300 K. Internal losses at 100 K were as low as 10 cm−1, but increased to 90–360 cm−1 at 300 K. Room temperature Auger coefficients varied from 5×10−28 cm6/s at the shortest wavelength to 3×10−27 cm6/s at the longest.
Yeni Bulunmuş Eserlerin Işığı Altında Anadolu'da Bronz Çağı Öncesi İnsan Figürleri Hakkında Yeni Gözlemler (1980)

1968-70 yılları arasında lisansüstü tez araştırmaları yaptığımız sırada Anadolu Medeniyetleri Müzesi (o zamanlar Ankara Arkeoloji Müzesi olarak anılıyordu), Afyon, Manisa, Konya Arkeoloji Müzeleri ile Konya'daki Özel Koyunoğlu Müzesi ve İstanbul'da Hüseyin Kocabaş Koleksiyonu olarak anılan Özel Koleksiyonla, Uşak ilinin Banaz ilçesinde o zamanlar Orta Okul öğretmenliği yapan Rıza İncel'in amatörce topladığı diğer arkeolojik eserler arasında yer alan insan figürleri üzerinde çalışma olanağı sağlanmıştı. Toplamı 14 adedi bulan bu eserleri, Anadolu Prehistorik sanatına getirdikleri yenilikleri göz önünde tutarak daha fazla gecikmeden arkeoloji dünyasına tanıtmayı bir görev sayarak, bu makaleyi hazırlamayı uygun gördük. Başta her zaman yardımlarını esirgemiyen Anadolu Medeniyetleri Müzesi Müdürü Sayı n Raci Temizer olmak üzere, adı geçen arkeoloji müzelerinin o zamanki müdürlerine ve uzmanlarına ve Sayın H. Kocabaş ile sayın R. İncel'e adı geçen eserler üzerinde çalışmam için gösterdikleri anlayışa burada teşekkür etmeyi zevkli bir ödev sayarım.
Protein Side-Chain Dynamics Observed by Solution- and Solid-State NMR:  Comparative Analysis of Methyl <sup>2</sup>H Relaxation Data (2006)

Rapid advances in solid-state MAS NMR made it possible to probe protein dynamics on a per-residue basis, similar to solution experiments. In this work we compare methyl 2H relaxation rates measured in the solid and liquid samples of alpha-spectrin SH3 domain. The solution data are treated using a model-free approach to separate the contributions from the overall molecular tumbling and fast internal motion. The latter part forms the basis for comparison with the solid-state data. Although the accuracy of solid-state measurements is limited by deuterium spin diffusion, the results suggest a significant similarity between methyl dynamics in the two samples. This is a potentially important observation, preparing the ground for combined analysis of the dynamics data by solid- and solution-state NMR.
The anti-IgE mAb omalizumab induces adverse reactions by engaging Fcγ receptors (2019)

Omalizumab is an anti-IgE monoclonal antibody (mAb) approved for the treatment of severe asthma and chronic spontaneous urticaria. Use of omalizumab is associated with reported side effects ranging from local skin inflammation at the injection site to systemic anaphylaxis. To date, the mechanisms through which omalizumab induces adverse reactions are still unknown. Here, we demonstrated that immune complexes formed between omalizumab and IgE can induce both skin inflammation and anaphylaxis through engagement of IgG receptors (FcγRs) in FcγR-humanized mice. We further developed an Fc-engineered mutant version of omalizumab, and demonstrated that this mAb is equally potent as omalizumab at blocking IgE-mediated allergic reactions, but does not induce FcγR-dependent adverse reactions. Overall, our data indicate that omalizumab can induce skin inflammation and anaphylaxis by engaging FcγRs, and demonstrate that Fc-engineered versions of the mAb could be used to reduce such adverse reactions.
Spatially Resolved Quantification of E-Cadherin on Target hES Cells (2010)

The local expression and distribution pattern of protein on a cell play essential roles in signal transduction within a cell or between cells. Here we report on the development of a spatially resolved quantification method, which was applied in the study of E-cadherin local expression in identified undifferentiated and differentiated human embryonic stem (hES) cells in their native cellular environment. This was achieved by a novel immunofluorescence assisted affinity mapping (IF-AM) method, in which immunofluorescence provides the guidance to locate a desired type of cell in a cell community for performing affinity mapping to quantify the local protein density. The results unveiled the crucial role of E-cadherin in mediating hES cell proliferation and differentiation: the expression of E-cadherin is markedly higher on undifferentiated cells, and the growth of hES cells in unique colonies is contingent on the homogeneous distribution of E-cadherin. Due to the ability of directly assessing individual proteins of a cell, the IF-AM method is shown to be a sensitive tool for resolving subtle differences in the local expression of membrane proteins even at low abundance.
Abstract: Reservoir Architecture and Porosity Distribution, Pegasus Field, West Texas - An Integrated Sequence Stratigraphic-Seismic Attribute Study Using Neural Networks (1998)

This DOI is not currently attached to any metadata records. DOIs can’t actually ever be deleted (they’re persistent), but sometimes our members create DOIs in error. We do have a process to approximate deletion which we follow only in rare cases where the DOI has been genuinely created in error, and most crucially, if the DOI has never been published anywhere online or in print and never otherwise distributed to or communicated with anyone (authors, readers, reviewers, etc.