gebhart/patrepeval huggingface dataset:
Maltose and Maltodextrin Utilization by <i>Bacillus subtilis</i> (2006)

Bacillus subtilis can utilize maltose and maltodextrins that are derived from polysaccharides, like starch or glycogen. In this work, we show that maltose is taken up by a member of the phosphoenolpyruvate-dependent phosphotransferase system and maltodextrins are taken up by a maltodextrin-specific ABC transporter. Uptake of maltose by the phosphoenolpyruvate-dependent phosphotransferase system is mediated by maltose-specific enzyme IICB (MalP; synonym, GlvC), with an apparent K(m) of 5 microM and a V(max) of 91 nmol . min(-1) . (10(10) CFU)(-1). The maltodextrin-specific ABC transporter is composed of the maltodextrin binding protein MdxE (formerly YvdG), with affinities in the low micromolar range for maltodextrins, and the membrane-spanning components MdxF and MdxG (formerly YvdH and YvdI, respectively), as well as the energizing ATPase MsmX. Maltotriose transport occurs with an apparent K(m) of 1.4 microM and a V(max) of 4.7 nmol . min(-1) . (10(10) CFU)(-1).
Effect of Calendering on Electrode Wettability in Lithium-Ion Batteries (2014)

Controlling the wettability between the porous electrode and the electrolyte in lithium ion batteries can improve both the manufacturing process and the electrochemical performance of the cell. The wetting rate, which is the electrolyte transport rate in the porous electrode, can be quantified using the wetting balance. The effect of the calendering process on the wettability of anode electrodes was investigated. A graphite anode film with an as-coated thickness of 59 μm was used as baseline electrode film and was calendered to produce films with thickness ranging from 55 to 41 µm. Results show that wettability is improved by light calendering from an initial thickness of 59 μm to a calendered thickness of 53 μm where the wetting rate increased from 0.375 to 0.589 mm/s0.5. Further calendering below 53 µm resulted in a decrease in wetting rates to a minimum observed value of 0.206 mm/s0.5 at a calendered thickness of 41 μm. Under the same electrolyte, wettability of the electrode is controlled to a great extent by the pore structure in the electrode film which includes parameters such as porosity, pore size distribution, pore geometry and topology. Relations between the wetting behavior and the pore structure as characterized by mercury intrusion and electron microscopy exist and can be used to manipulate the wetting behavior of electrodes.
Quantitative Determination of the Nonlinear Pinning Potential for a Magnetic Domain Wall (2008)

Using microwave currents, we excite resonances of geometrically confined pinned domain walls, detecting the resonance by the rectification of the microwave current. By applying magnetic fields, the resonance frequency of the domain wall oscillator can be tuned over a wide range. Increasing the power leads to a redshift due to the nonlinearity of the system. From this frequency shift, we directly deduce the quantitative shape of the potential, so that a complete characterization of the pinning potential is obtained.
Intensity-Based Ultrasound Visual Servoing: Modeling and Validation With 2-D and 3-D Probes (2013)

In this paper, we present an ultrasound (US) visual servoing to control a robotic system equipped with a US probe. To avoid the difficult and time-consuming image segmentation process, we develop a new approach taking as visual input directly the intensity of the image pixels. The analytic form of the interaction matrix that relates the variation of the intensity features to the motion of the probe is established and used to control the six degrees of freedom (dof) of the robotic system. Our approach is applied with a 2-D and a 3-D US probe, and the results that are obtained with both sensors are compared in simulation. The 2-D probe shows good performances for tracking tasks and the 3-D one, which ensures a larger domain of convergence, is more particularly used for positioning tasks. The intensity-based approach is validated through experimental results performed with a realistic abdominal phantom and with animal soft tissue.
Benchmarking Subspecialty Practice in Academic Anatomic Pathology (2018)

Assessment of physician workloads has become increasingly important in modern academic physician practice, where it is commonly used to allocate resources among departments, to determine staffing, and to set the compensation of individual physicians. The physician work relative value unit system is a frequently used metric in this regard. However, the application of this system to the practice of pathology has proven problematic. One area of uncertainty is the validity of using work relative value unit norms that were derived from general surgical pathology practice to assess the various subspecialties within anatomic pathology. Here, we used data from the 2017 Association of Pathology Chairs practice survey to assess salary and work relative value unit data for single-subspecialty practitioners in US academic pathology departments in the prior year (2016). Five subspecialties were evaluated: dermatopathology, gastrointestinal pathology, hematopathology/hematology, renal pathology, and neuropathology. Data for general surgical pathologists and cytopathologists were included for comparison. For this analysis, survey data were available for 168 practitioners in 43 US academic departments of pathology. Salary ranges varied little among subspecialties, with the exception of dermatopathology, where salaries were higher. In contrast, work relative value unit productivity varied widely among different subspecialties, with median values differing as much as 4- to 7-fold between subspecialties. These results suggest that the use of a single overall work relative value unit standard is not appropriate for specialty- or subspecialty-based anatomic pathology practice, and that either the benchmark norms should be tailored to individual practice patterns, or an alternative system of workload measurement should be developed.
An Interference Localized Surface Plasmon Resonance Biosensor Based on the Photonic Structure of Au Nanoparticles and SiO<sub>2</sub>/Si Multilayers (2009)

This paper presents the experimental and simulation analysis of an original nanostructure design constructed with plasmonic gold nanoparticles and photonic thin-film multilayers of silicon dioxide (500 nm in thickness) and silicon on a substrate. Our nanostructure substrate showed a high sensitivity for various refractive index RI solutions and a prominent capacity for functionalizing alkanethiol molecules on the gold surface and demonstrates great potential in the development of a microfluidic-based biosensor for monitoring biotin-avidin interactions in real-time.
Immune system involvement in specific pain conditions (2017)

Chronic pain is a significant problem worldwide and is the most common disability in the United States. It is well known that the immune system plays a critical role in the development and maintenance of many chronic pain conditions. The involvement of the immune system can be through the release of autoantibodies, in the case of rheumatoid arthritis, or via cytokines, chemokines, and other inflammatory mediators (i.e. substance P, histamine, bradykinin, tumor necrosis factor, interleukins, and prostaglandins). Immune cells, such as T cells, B cells and their antibodies, and microglia are clearly key players in immune-related pain. The purpose of this review is to briefly discuss the immune system involvement in pain and to outline how it relates to rheumatoid arthritis, osteoarthritis, fibromyalgia, complex regional pain syndrome, multiple sclerosis, and diabetic neuropathy. The immune system plays a major role in many debilitating chronic pain conditions and we believe that animal models of disease and their treatments should be more directly focused on these interactions.
N‐terminal or signal peptide sequence engineering prevents truncation of human monoclonal antibody light chains (2017)

Monoclonal antibodies (mAbs) contain short N-terminal signal peptides on each individual polypeptide that comprises the mature antibody, targeting them for export from the cell in which they are produced. The signal peptide is cleaved from each heavy chain (Hc) and light chain (Lc) polypeptide after translocation to the ER and prior to secretion. This process is generally highly efficient, producing a high proportion of correctly cleaved Hc and Lc polypeptides. However, mis-cleavage of the signal peptide can occur, resulting in truncation or elongation at the N-terminus of the Hc or Lc. This is undesirable for antibody manufacturing as it can impact efficacy and can result in product heterogeneity. Here, we describe a truncated variant of the Lc that was detected during a routine developability assessment of the recombinant human IgG1 MEDI8490 in Chinese hamster ovary cells. We found that the truncation of the Lc was caused due to the use of the murine Hc signal peptide together with a lambda Lc containing an SYE amino acid motif at the N-terminus. This truncation was not caused by mis-processing of the mRNA encoding the Lc and was not dependent on expression platform (transient or stable), the scale of the fed-batch culture or clonal lineage. We further show that using alternative signal peptides or engineering the Lc SYE N-terminal motif prevented the truncation and that this strategy will improve Lc homogeneity of other SYE lambda Lc-containing mAbs. Biotechnol. Bioeng. 2017;114: 1970-1977. © 2017 Wiley Periodicals, Inc.
Cornbined Gas Chromatography-Electroantennogram Characterization of Alfalfa Floral Volatiles Recognized by Honey Bees (Hymenoptera: Apidae) (1992)

This study was designed to investigate antennal response of honey bees, Apis mellifera L., to alfalfa /loral volatiles and to assess among- and within-hive variation in average antennal response to these Cornpounds. Ten of the principal (Medicago sativa L.) alfalfa floral volatiles were analyzed for honey bee antennal response using a Cornbined gas chromatography-electroantennal detector system. All 10 alfalfa floral volatiles elicited antennal responses, and significant differences were observed in average honey bee antennal response to these 10 Cornpounds. Linaloöl and methyl salicylate elicited “sticky” antennal signals (slow recovery toward baseline physio-electrical output). This “sticky” response may suggest a biologically active role for these two Cornpounds. Support for a biologically active role for linaloöl and cis-3-hexenyl acetate Cornes from the chemical and structural similarity between these two Cornpounds and two honey bee pheromones, geraniol (nasonov) and n-hexyl acetate (alarm), respectively. Selection for increased emanation of linaloöl and methyl salicylate, and decreased emanation of cis-3-hexenyl acetate, is suggested as a possible method for increasing the attractiveness of alfalfa to honey bees. Finally, significant differences were demonstrated in both among- and within-hive average antennal response to most of the volatile Cornpounds. Based on the results of this study and those of other investigators, we hypothesize that host-pollinator interrelationships can be strengthened by directed selection in both honey bees and alfalfa.
INTESTINAL PERMEABILITY IN PATIENTS WITH ANKYLOSING SPONDYLITIS AND THEIR HEALTHY RELATIVES (1994)

Patients with AS were previously found to have increased intestinal permeability using the 51Cr-EDTA resorption test. In order to discover whether this alteration has taken place prior to, or as a consequence of the disease, we studied the intestinal permeability to 51Cr-EDTA in 20 patients with AS, 65 of their healthy relatives, and 25 normal volunteers. We also considered the HLA B27 antigen, the serum immunoglobulin A levels, the disease activity, the existence of peripheral arthritis, the ESR, the CRP values and the intake of drugs at the time of study. Gut permeability was found to have increased in the patients and their healthy relatives compared to the control group. No difference in gut permeability was found between patients and relatives regardless of whether they had the HLA B27 antigen or not. The increased intestinal permeability in the patients had no relation to the disease activity, to the presence of peripheral arthritis or to the intake of NSAIDs. Gut permeability was shown to bear no relation to IgA levels, ESR or CRP. Our findings suggest that the increase in gut permeability in AS patients and their relatives is a primary defect and may be an aetiologic factor in this disease.
The Prospects for Materials (1969)

Modern developments in materials, and the possibilities they offer in present and future engineering, make up a subject on which there has been no shortage of publications in recent years. It would not be possible, in a single article, to review the likely future developments in all the materials of interest to aeronautics; in any case some detailed references have already been made to this subject in other articles, notably that by Molyneux (July JOURNAL) on structural engineering. The point of view adopted here is rather more long-ranging, and certainly more speculative. A separate specialist contribution is being provided on polymeric materials in a later paper in this series and these are not, therefore, examined in any detail here.
Demulsifier Performance and Dehydration Mechanisms in Colombian Heavy Crude Oil Emulsions (2017)

Important differences arise when chemical demulsification strategies are implemented for heavy crude oils (°API ∼ 10). Traditional methods for screening and selecting an appropriate demulsifier based on bottle tests and lipophilic–hydrophilic parameters (i.e., HLB, RSN, and so on) tend to be less adequate because of the almost negligible density difference between the oil and the water phases. This situation leads to a detriment of the separated water often mixed with undesired dense-packed layers (DPLs) and emulsion layers. In this work, dehydration of heavy crude oil emulsions from a Colombian oilfield was assessed through the use of a wide range of chemical demulsifiers of different functionalities. Through the use of bottle tests and transmission/backscattering measurements, it was shown that the demulsification mechanisms involved in these limiting cases (low density difference) are different. Hence demulsifiers with functional groups that have traditionally performed very well for lighter oils fail when applied to the heavy crude oil cases. Poly(ethylene oxide)/poly(propylene oxide) block copolymer-based products (PEO/PPO) do not seem to have the ability to penetrate the asphaltene network/film at the liquid–liquid interface (separated water, <17%) while the alkylphenol-aldehyde resins seem to prevent the formation of DPLs/emulsion layers possibly through polar interactions, yielding a good quality water phase after separation.
High resolution imaging of impacted CFRP composites with a fiber-optic laser-ultrasound scanner (2016)

Damage induced in polymer composites by various impacts must be evaluated to predict a component's post-impact strength and residual lifetime, especially when impacts occur in structures related to human safety (in aircraft, for example). X-ray tomography is the conventional standard to study an internal structure with high resolution. However, it is of little use when the impacted area cannot be extracted from a structure. In addition, X-ray tomography is expensive and time-consuming. Recently, we have demonstrated that a kHz-rate laser-ultrasound (LU) scanner is very efficient both for locating large defects and evaluating the material structure. Here, we show that high-quality images of damage produced by the LU scanner in impacted carbon-fiber reinforced polymer (CFRP) composites are similar to those produced by X-ray tomograms; but they can be obtained with only single-sided access to the object under study. Potentially, the LU method can be applied to large components in-situ.
A framework and method for hierarchical test generation (2003)

The authors have proposed and implemented a dynamic framework and a method for hierarchically generating test patterns from a hierarchical net list. They have shown consistent gains in CPU over the traditional gate-level implementation while maintaining identical levels of fault coverage. In generating and characterizing modules for a large and varied set of hierarchical benchmarks, the authors benefited considerably from the consistent representations that are available during synthesis from a high-level description or when modules are generated by a process of technology mapping into standard cells. The authors introduced the concept of a single generic module which is hierarchical; the traditional AND, OR, NAND, and NOR are included implicitly. They developed a module-oriented decision-making algorithm, MODEM, which entails a dynamic calculus and procedures such as implication, error propagation, line justification, and probabilistic testability measures for a single generic module. Without loss of generality they adapted the control flow and basic features of PODEM in the first implementation of MODEM.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">></ETX>
Novelties in the Diagnosis and Treatment of Angioedema (2016)

Angioedema is defined as local, noninflammatory, self-limiting edema that is circumscribed owing to increased leakage of plasma from the capillaries located in the deep layers of the skin and the mucosae. Two mediators, histamine and bradykinin, account for most cases of angioedema. Angioedema can occur with wheals as a manifestation of urticaria, and this form is frequently allergic. In the present review, we discuss nonallergic angioedema without wheals, which can be divided into 3 acquired and 4 hereditary forms. Histamine is the mediator in acquired angioedema of unknown etiology (idiopathic histaminergic acquired angioedema), whereas in other forms the main mediator is bradykinin. Angioedema can be caused by C1-inhibitor deficiency (C1-INH-hereditary angioedema and C1-INH-acquired angioedema), mutations in coagulation factor XII (FXII-hereditary angioedema), and treatment with angiotensin-converting enzyme inhibitors (ACEI-acquired angioedema). Etiology remains unclear in acquired angioedema (idiopathic nonhistaminergic acquired angioedema) and in 1 type of hereditary angioedema (hereditary angioedema of unknown origin). Several treatments are licensed for hereditary C1-INH deficiency. Plasma-derived and recombinant C1-INHs, the bradykinin receptor blocker icatibant, and the plasma kallikrein inhibitor ecallantide have been approved for on-demand treatment to reverse angioedema symptoms. Attenuated androgen and plasma-derived C1-INH are approved for prophylaxis.
Solution structure of the cytohesin-1 (B2–1) Sec7 domain and its interaction with the GTPase ADP ribosylation factor 1 (1998)

Cytohesin-1 (B2-1) is a guanine nucleotide exchange factor for human ADP ribosylation factor (Arf) GTPases, which are important for vesicular protein trafficking and coatamer assembly in the cell. Cytohesin-1 also has been reported to promote cellular adhesion via binding to the beta2 integrin cytoplasmic domain. The solution structure of the Sec7 domain of cytohesin-1, which is responsible for both the protein's guanine nucleotide exchange factor function and beta2 integrin binding, was determined by NMR spectroscopy. The structure consists of 10 alpha-helices that form a unique tertiary fold. The binding between the Sec7 domain and a soluble, truncated version of human Arf-1 was investigated by examining 1H-15N and 1H-13C chemical shift changes between the native protein and the Sec7/Arf-1 complex. We show that the binding to Arf-1 occurs through a large surface on the C-terminal subdomain that is composed of both hydrophobic and polar residues. Structure-based mutational analysis of the cytohesin-1 Sec7 domain has been used to identify residues important for binding to Arf and for mediating nucleotide exchange. Investigations into the interaction between the Sec7 domain and the beta2 integrin cytoplasmic domain suggest that the two proteins do not interact in the solution phase.
Protective Effect of Cyperi Rhizoma Against 6-Hydroxydopamine-Induced Neuronal Damage (2010)

Cyperi rhizoma, the rhizome of Cyperus rotundus L. (Family Cyperaceae), is a well-known functional food and traditional herbal medicine in Korea. It has been reported that Cyperi rhizoma has antioxidant and free radical scavenging activities that play a major role in protection of neurodegenerative disorders, such as Parkinson's disease (PD). In the present study, the neuroprotective effects of a water extract of Cyperi rhizoma (CRE) against 6-hydroxydopamine (6-OHDA)-induced neuronal damage were evaluated in an experimental model of PD. In PC12 cells, CRE showed a significant protective effect on cell viability at 50 and 100 microg/mL. CRE inhibited generation of reactive oxygen species and nitric oxide, reduction of mitochondrial membrane potential, and caspase-3 activity, which were induced by 6-OHDA. CRE also showed a significant protective effect against damage to dopaminergic neurons in primary mesencephalic culture. These results suggest that CRE has neuroprotective effects against 6-OHDA-induced toxicity through antioxidant and anti-apoptotic activities in an in vitro PD model.
Retrieval of Soil Water Content in Saline Soils from Emitted Thermal Infrared Spectra Using Partial Linear Squares Regression (2015)

Timely information of soil water content is urgently required for monitoring ecosystem processes and functions at various scales. Although remote sensing has already provided many practical applications of retrieving soil moisture, it is largely limited to visible/near infrared or microwave domains and few studies have ever been conducted on the thermal infrared. In addition, soil salinization in arid land further complicates the situation when retrieving soil moisture from emitted spectra. In this study, we attempt to fill the knowledge gap by retrieving the soil moisture of saline soils with various salt contents. This was based on lab-controlled experiments for spectroscopy using a Fourier Transform Spectrometer (2–16 µm). Partial least squares regression (PLSR) has been applied in analyses based on either original measured or first-order derivative spectra. The results revealed that the PLSR model using first-order derivative spectra, which had a determination coefficient (R2) of 0.71 and a root mean square error (RMSE) of 3.3%, should be recommended for soil moisture estimation, judged from several statistical criteria. As thermal infrared wavelengths identified in this study are contained in several current available satellite sensors, the PLSR models should have great potential for large-scale application despite extensive validations are needed in future studies.