gebhart/patrepeval huggingface dataset:
Diverse Properties of Guanidiniocarbonyl Pyrrole-Based Molecules: Artificial Analogues of Arginine (2019)

The guanidinium moiety, which is present in active sites of many enzymes, plays an important role in the binding of anionic substrates. In addition, it was also found to be an excellent binding motif for supramolecular chemistry. Inspired by Nature, scientists have developed artificial receptors containing guanidinium scaffolds that bind to a variety of oxoanions through hydrogen bonding and charge pairing interactions. However, the majority of binding studies is restricted to organic solvents. Polyguanidinium based molecules can form efficient complexes in aqueous solvents due to strong electrostatic interactions. However, they only have moderate association constants, which are significantly decreased in the presence of competing anions and salts. Hence, to improve the binding affinity of the guanidinium moiety, our group developed the cationic guanidiniocarbonyl pyrrole (GCP) moiety. This rigid planar analogue binds efficiently to oxoanions, like carboxylates even in aqueous solvents. The lower p K<sub>a</sub> value (7-8) of GCP compared to guanidinium derivatives (p K<sub>a</sub> 13) favors the formation of strong, hydrogen bonded ion pairs. In addition, carboxylate binding is further enhanced by additional amide hydrogen bond donors located at the five position of the pyrrole core. Moreover, the design has allowed for introducing secondary interactions between receptor side chains and guest molecules, which allows for optimizing binding specificity and selectivity. The spectroscopic data confirmed stabilization of guanidiniocarbonyl pyrrole/oxoanion complexes through a combination of ion pairing and multiple hydrogen bonding interactions. The key role of the ionic interaction in a polar solvent, is demonstrated by a zwitterion derivative of the guanidiniocarbonyl pyrrole, which self-assembles in both dimethyl sulfoxide and pure water with association constants of K > 10<sup>10</sup> M<sup>-1</sup> and K = 170 M<sup>-1</sup>, respectively. In this Account, we discuss strategies for making GCP functionalized compounds, in order to boost their ability to bind oxoanions. Then we explore how these building blocks have been incorporated into different synthetic molecules and peptide sequences, highlighting examples that demonstrated the versatility of this binding scaffold. For instance, the high oxoanion binding property of GCP-based compounds was exploited to generate a detectable signal for sensing applications, thus improving selectivity and sensitivity in aqueous solution. Moreover, peptides and molecules containing GCP have shown excellent gene transfections properties. Furthermore, the self-assembly and zwitterionic behavior of zwitterionic GCP analogues was used to develop variety of supramolecular architectures such as stable supramolecular β-helix structure, linear supramolecular oligomers, one-dimensional rods or two-dimension sheets, fibers, vesicles, soft nanospheres, as well as stimuli responsive supramolecular gels.
Friction-thermal-vibration Coupling Analysis of Large-megawatt Wind Turbine Brake (2019)

To establish a mutual contact relationship between the brake disc and the brake pad, simulation of the brake disc in the actual working conditions braking deceleration, according to the wind of the brake and brake piece of actual size and related parameters of brake disc material in ABAQUS to establish 3D transient friction-thermal-vibration coupling finite element model. The brake process is verified with the analysis of brake and brake disc contact, from the coupling results, this paper summarizes the temperature and stress distribution, the research on the temperature in time and space distribution. In this paper, the stress of brake stress is analyzed, and the distribution of stress is summarized, and the importance of the coupling study on the stress analysis of brake is analyzed.
From patient to mouse to therapy: role of the neuropeptide pacap in platelet function and formation. (2010)

Megakaryopoiesis and platelet production are very complex processes, orchestrated by different growth factors, cytokines and transcription factors. It's only recently that a role was assigned for the pituitary adenylyl cyclase-activating peptide (PACAP) and the vasoactive intestinal peptide (VIP) via their common Gs-coupled receptor VPAC1 in this process. The basis for this idea originated from studies in two related patients with a partial trisomy 18p11 and therefore carrying 3 copies of the PACAP gene and elevated PACAP concentrations in their plasma which resulted in a bleeding tendency with thrombopathy and a mild thrombocytopenia. This platelet functional and formation defect could be phenocopied in transgenic megakaryocyte specific PACAP-overexpressing mice. The addition of PACAP or VIP to hematopoietic stem cells resulted in an decreased megakaryocyte maturation and DNA polyploidization. In contrast, mice subcutaneously injected with inhibitory anti-PACAP (PP1A4) or anti-VPAC1 (23A11) antibodies presented with increased platelet numbers. This last concept was the basis for the development of these antibodies for the treatment of different types of thrombocytopenia as the therapeutic value for these antibodies was established in mice with a low platelet count due to chemotherapy, anti-platelet antibodies, a congenital factor of after bone marrow transplantation. For all models, the addition of 23A11 or PP1A4 resulted in an increased platelet recovery compared to the control antibody. Further studies are needed to identify the downstream signal transduction components after VPAC1 stimulation in megakaryocytes and platelets.
Genetic Analysis of Yeast RPA1 Reveals Its Multiple Functions in DNA Metabolism (1998)

Replication protein A (RPA) is a single-stranded DNA-binding protein identified as an essential factor for SV40 DNA replication in vitro. To understand the in vivo functions of RPA, we mutagenized the Saccharomyces cerevisiae RFA1 gene and identified 19 ultraviolet light (UV) irradiation- and methyl methane sulfonate (MMS)-sensitive mutants and 5 temperature-sensitive mutants. The UV- and MMS-sensitive mutants showed up to 10(4) to 10(5) times increased sensitivity to these agents. Some of the UV- and MMS-sensitive mutants were killed by an HO-induced double-strand break at MAT. Physical analysis of recombination in one UV- and MMS-sensitive rfa1 mutant demonstrated that it was defective for mating type switching and single-strand annealing recombination. Two temperature-sensitive mutants were characterized in detail, and at the restrictive temperature were found to have an arrest phenotype and DNA content indicative of incomplete DNA replication. DNA sequence analysis indicated that most of the mutations altered amino acids that were conserved between yeast, human, and Xenopus RPA1. Taken together, we conclude that RPA1 has multiple roles in vivo and functions in DNA replication, repair, and recombination, like the single-stranded DNA-binding proteins of bacteria and phages.
Nationwide study of clinical and molecular features of hereditary non-polyposis colorectal cancer (HNPCC) in Latvia. (2007)

The role of the classical Amsterdam criteria in diagnosing HNPCC in CRC patients from Latvia is very limited and diagnostic criteria for suspected HNPCC are the most effective. The frequency of constitutional mutations within the MMR genes is 1% of all newly diagnosed CRC cases and the spectrum of mutations is potentially characteristic.
Nongenetic Control of Receptor Signaling Dynamics with a DNA-based Optochemical Tool (2020)

Optochemical tools that can modulate activity of the target protein provide an opportunity for studying and regulating the related biological processes. Here we present a DNA-based nongenetic optochemical tool that can control dynamics of growth factor signaling. A photo-caged DNA aptamer for a growth factor receptor was designed to assemble into an active dimer form, depending on UV irradiation, thereby enabling optical control of the dimerization and subsequent activation of the receptor. This photo-caged mimicry of growth factor can be a promising tool for elucidating a linkage between dynamics of signaling and resulting biological outcomes, as well as for manipulating cellular functions and the fate of living cells.
Media Feature Tag Registration Procedure (1999)

Recent Internet applications, such as the World Wide Web, tie together
a great diversity in data formats, client and server platforms, and
communities. This has created a need for content feature descriptions
and negotiation mechanisms in order to identify and reconcile the form
of information to the capabilities and preferences of the parties
involved. Extensible content feature identification and negotiation
mechanisms require a common vocabulary in order to positively identify
content features. A registration process and authority for content
features is defined with the intent of sharing this vocabulary between
communicating parties. In addition, a URI tree is defined to enable
sharing of content feature definitions without registration. This
document defines a registration procedure which uses the Internet
Assigned Numbers Authority (IANA) as a central registry for the
content feature vocabulary.
A Transcriptome Profile for Developing Seed of Polyploid Cotton (2015)

Cotton ranks among the world's important oilseed crops, yet relative to other oilseeds there are few studies of oil-related biosynthetic and regulatory pathways. We present global transcriptome analyses of cotton seed development using RNA-seq and four developmental time-points. Because Upland cotton (Gossypium hirsutum L.) is an allopolyploid containing two genomes (A/D), we partitioned expression into the individual contributions of each homeologous gene copy. Data were explored with respect to genic and subgenomic patterns of expression, globally and with respect to seed pathways and networks. The most dynamic period of transcriptome change is from 20-30 d postanthesis (DPA), with about 20% of genes showing homeolog expression bias. Co-expression analysis shows largely congruent homeolog networks, but also homeolog-specific divergence. Functional enrichment tests show that flavonoid biosynthesis and lipid related genes were significantly represented early and later in seed development, respectively. An involvement of new features in oil biosynthesis was found, like the contribution of DGAT3 (diacylglycerol acyltransferase) to the total triglyceride expression pool. Also, catechin-based and epicatechin-based proanthocyanidin expression are reciprocally biased with respect to homeolog usage. This study provides the first temporal analysis of duplicated gene expression in cotton seed and a resource for understanding new aspects of oil and flavonoid biosynthetic processes.
58 Effects of Diploid and Tetraploid Annual Ryegrass Cultivars on Cattle Performance, Herbage Mass, and Nutritive Value (2020)

Abstract Annual ryegrass (Lolium multiflorum Lam.) can be divided into two cytotypes: diploid (2n = 2x) and tetraploid (2n = 4x). Polyploid versions of a given plant species result in increased seedling vigor, more robust growth and, potentially, greater yield. While most data suggest no difference in yield between diploid and tetraploid cultivars, there is still potential for weight gain advantages thanks to increased non-structural carbohydrates in tetraploid cells. The objectives of this study were to compare weight gain of cattle grazing either diploid or tetraploid cultivars of annual ryegrass. Two diploid annual ryegrass cultivars (Marshall and Tam 90) and two tetraploid cultivars (Jumbo and Nelson) were planted in 0.81-ha pastures, each replicated four times. Four steers (mean initial BW = 214 kg) were randomly assigned to each pasture for an 82-d grazing period. Body weights were recorded starting at day 0 then every 28 days throughout the season. Data were analyzed in the GLM procedure of SAS using a significance level of α = 0.05. There were significant differences between cytotypes with respect to seasonal yield with diploids (9547.90 kg/ha) yielding greater than tetraploids (7762.00 kg/ha). As expected, ADF and NDF fractions were significantly less for tetraploids (ADF; 31.39%, NDF; 31.39%) compared to diploids (ADF; 33.75%, NDF; 53.25%). Tetraploids also contained significantly greater crude protein (13.50%) than diploids (12.90%). Cytotype had no effect on final average daily gain (ADG) (P = 0.9427). However, final ADG was significantly impacted by cultivar (P = 0.0134). Final ADG for Tam 90 (1.10 kg/d) was greater than Marshall (0.92 kg/d). Cattle grazing Nelson (1.04 kg/d) and Jumbo (0.99 kg/d) did not differ. Results show that regardless of differences in seasonal yield and nutritive value between cytotypes, there were no advantages in ADG for cattle grazing either cytotype.
Preservation of Contractile Reserve and Diastolic Function by Inhibiting the NLRP3 Inflammasome with OLT1177® (Dapansutrile) in a Mouse Model of Severe Ischemic Cardiomyopathy Due to Non-Reperfused Anterior Wall Myocardial Infarction (2021)

Interleukin-1β (IL-1β), a product of the NLRP3 inflammasome, modulates cardiac contractility and diastolic function. We proposed that OLT1177<sup>®</sup> (dapansutrile), a novel NLRP3 inhibitor, could preserve contractile reserve and diastolic function after myocardial infarction (MI). We used an experimental murine model of severe ischemic cardiomyopathy through the ligation of the left coronary artery without reperfusion, and after 7 days randomly assigned mice showing large anterior MI (>4 akinetic segments), increased left ventricular (LV) dimensions ([LVEDD] > 4.4 mm), and reduced function (LV ejection fraction < 40%) to a diet that was enriched with OLT1177<sup>®</sup> admixed with the chow in the diet at 3.75 g/kg (Group 1 [<i>n</i> = 10]) or 7.5 g/kg (Group 2 [<i>n</i> = 9]), or a standard diet as the no-treatment control group (Group 3 [<i>n</i> = 10]) for 9 weeks. We measured the cardiac function and contractile reserve with an isoproterenol challenge, and the diastolic function with cardiac catheterization at 10 weeks following the MI surgery. When compared with the control (Group 3), the mice treated with OLT1177 (Group 1 and 2) showed significantly greater preservation of their contractile reserve (the percent increase in the left ventricular ejection fraction [LVEF] after the isoproterenol challenge was +33 ± 11% and +40 ± 6% vs. +9 ± 7% in the standard diet; <i>p</i> < 0.05 and <i>p</i> < 0.005 for Group 1 and 2, respectively) and of diastolic function measured as the lower left ventricular end-diastolic pressure (3.2 ± 0.5 mmHg or 4.5 ± 0.5 mmHg vs. 10.0 ± 1.6 mmHg; <i>p</i> < 0.005 and <i>p</i> < 0.009 respectively). No differences were noted between the resting LVEF of the MI groups. These effects were independent of the effects on the ventricular remodeling after MI. NLRP3 inflammasome inhibition with OLT1177<sup>®</sup> can preserve β-adrenergic responsiveness and prevent left ventricular diastolic dysfunction in a large non-reperfused anterior MI mouse model. OLT1177<sup>®</sup> could therefore be used to prevent the development of heart failure in patients with ischemic cardiomyopathy.
Resource Monitoring in a Network Embedded Cloud: An Extension to OSPF-TE (2013)

A "network embedded cloud", also known as a "carrier cloud", is a distributed cloud architecture where the computing resources are embedded in, and distributed across the carrier's network. This idea is based on a transformation of carrier-grade networks toward a platform for cloud services and the emergence of cloud computing in a telecommunication environment. In this model the network's resources are simply another set of cloud resources. This changes the resource management problem as compared to resource management inside a data center. In order to meet applications' requirements regarding available bandwidth and computing resources, one needs to consider link conditions and traffic engineering when allocating resources in a network embedded cloud. This paper presents a resource monitoring solution for a network embedded cloud by proposing an extension to the Open Shortest Path First-Traffic Engineering (OSPF-TE) protocols. Modeling, emulation, and analysis show the proposed solution can provide the required data to a cloud management system by sending information about virtual resources in the form of a new opaque link-state advertisement, named cloud LSA. Each embedded data center injects less than 40 bytes per second of additional traffic into the network when sending cloud LSAs at most every 5 seconds.
Risks and benefits of optimised medical and revascularisation therapy in elderly patients with angina ? on-treatment analysis of the TIME trial (2004)

Treated medically, elderly patients with chronic angina have a similarly high 30-day and one-year mortality as patients of the same age being re-vascularised; however, they can expect lower improvements in symptoms and well being.
Simple, Calibrated Analysis and Mapping of SiC Wafer Defects by Birefringence Imaging (2006)

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.
Evaluation of skin-surface interleukin 1&nbsp;α, interleukin-1 Receptor Antagonist, CXCL-1/2 and&nbsp;β-defensin-1 as non-invasive biomarkers for monitoring psoriasis vulgaris (2020)

Abstract There is a need for non-invasive diagnostic tools that can objectively measure psoriasis activity and that can be used to monitor therapeutic effects of psoriasis treatment. This study aimed to determine whether non-invasive measurements of proteins from psoriasis lesional skin can be used to assess disease severity and to measure treatment efficacy.Using FibroTx TAP technology for protein-measurements directly from the surface of skin, clear differences in levels of IL-1α, IL-1RA and CXCL-1/2 were found between psoriasis lesional skin and non-lesional skin. No clear correlations were found between FibroTx TAP measurements and PASI scoring, with the exception of a mild correlation between CXCL-1/2 and scaling. Similarly, no clear correlations were found between FibroTx TAP measurements and ultrasound measurements of skin, with the exception of a weak correlation between IL-1RA and SLEB thickness. Monitoring IL-1RA and CXCL-1/2 on skin lesions undergoing narrow-band UVB phototherapy clearly reflected normalisation of skin.Skin-surface measurements of IL-1RA and CXCL-1/2 have potential for assessing severity of psoriasis and for monitoring treatment efficacy. Measurements of IL-1RA and CXCL-1/2 displayed a disease profile distinct from PASI or sonography, thus confirming that measuring the ‘molecular root’ of inflammation has value for scoring disease severity in its own right.
Enhancing operational efficiency of a container operator: a simulation optimization approach (2011)

One of the key issues in a typical marine logistics industry dealing with container operations is to maximize profitability subject to pre-specified service level compliance(s) under uncertain and complex business environment. The problem becomes more complex in presence of heterogeneous customers, varied degree of demand priority, supply restrictions, and other allied operational constraints. In this paper, a typical container business operation has been considered where the service provider deals with different types of customers. The problem has been modeled with discrete-event simulation techniques. A simulation optimization technique has been deployed to analyze several opportunities to improve overall system performance in terms of increased profit, demand fulfillment rate, and deriving other contractual parameter(s) under varied scenarios. Trade-offs between different KPIs including fleet size, unmet demand, service level, and utilization have been analyzed and a sensitivity analysis has been provided to bring in several managerial insights.
Fast algorithm for nonstationary delay estimation (1998)

A computationally efficient algorithm for estimating time delay between signals received at two spatially separated sensors is proposed. The delay estimate is adapted directly to maximise the mean product of the first sensor output and the filtered output of the second received signal. The convergence behaviour and variance of the delay estimate are derived. It is shown that the proposed algorithm outperforms the explicit time delay estimator at a low signal-to-noise ratio.
Self calibrating high sensitivity ultra-low power envelope detector (2015)

An amplitude demodulation system is described here. An envelope detector is connected to the non inverting input of a differential amplifier whereas a reference voltage is applied to its inverting input. This reference is established during a self calibration process and compensates the input offset of the differential amplifier. This mechanism has been designed and implemented within the circuit described in this paper. The circuit is designed in a 160 nm Complementary Metal Oxide Semiconductor process. A sensitivity of -30 dBm is achieved. It can operate over a wide frequency and temperature ranges, 100 MHz-3 GHz and -55 °C-125 °C respectively. It consumes only a few microwatts.
Cloning of a novel inhibin alpha cDNA from rhesus monkey testis. (2004)

The data show that the predicted inhibin B protein is very similar between monkeys and humans. Therefore, studies in monkeys using recombinant human inhibins are likely to reflect actions of the homologous ligands. In addition, we have observed the first inhibin alpha subunit mRNA variant. It is possible that variants will be observed in other species as well and this may lead to novel insights into inhibin action.
AutoCast: Scalable Infrastructure-less Cooperative Perception for Distributed Collaborative Driving (2021)

Autonomous vehicles use 3D sensors for perception. Cooperative perception enables vehicles to share sensor readings with each other to improve safety. Prior work in cooperative perception scales poorly even with infrastructure support. AutoCast enables scalable infrastructure-less cooperative perception using direct vehicle-to-vehicle communication. It carefully determines which objects to share based on positional relationships between traffic participants, and the time evolution of their trajectories. It coordinates vehicles and optimally schedules transmissions in a distributed fashion. Extensive evaluation results under different scenarios show that, unlike competing approaches, AutoCast can avoid crashes and near-misses which occur frequently without cooperative perception, its performance scales gracefully in dense traffic scenarios providing 2-4x visibility into safety critical objects compared to existing cooperative perception schemes, its transmission schedules can be completed on the real radio testbed, and its scheduling algorithm is near-optimal with negligible computation overhead.