gebhart/patrepeval huggingface dataset:
Size-Expanded DNA Bases:  An Ab Initio Study of Their Structural and Electronic Properties (2005)

The size-expanded DNA bases, xA, xC, xG, and xT, are benzo-homologue forms of the natural DNA bases; i.e., their structure can be seen as the fusion of a natural base and a benzene ring. Recently, a variety of DNAs, known as xDNAs, have been synthesized in which size-expanded and natural bases are paired. In this paper we use second-order Møller-Plesset perturbation theory and density functional theory to investigate the structural and electronic properties of xA, xC, xG, and xT and their natural counterparts. We find that whereas natural and size-expanded bases have both nonplanar amino groups the latter have also nonplanar aromatic rings. When density functional theory is used to investigate the electronic properties of size-expanded and natural bases, it is found that the HOMO-LUMO gap of the size-expanded bases is smaller than that of the natural bases. Also, xG should be easier to oxidize than G.
Domperidone Plus Paracetamol in The Treatment of Migraine (1993)

This study was designed to evaluate the safety and efficacy of domperidone in combination with paracetamol in the treatment of migraine. Severity of headache, duration of migraine attack and overall efficacy of treatment were amongst the variables assessed in a randomized, double-blind, three-way cross-over comparison of 1 g paracetamol plus either domperidone 30 mg, domperidone 20 mg or placebo, taken at onset of headache. Forty-six patients attending the City of London Migraine Clinic completed the study. A significant difference was observed in the duration of the migraine attack: a median of 17.5 h with paracetamol alone was reduced to 12.0 h with the addition of domperidone 20 mg, and to 12.0 h with domperidone 30 mg. No significant adverse events were reported. A reduction in pain intensity and nausea was noted but this was not statistically significant. It was concluded that domperidone shortens the duration of a migraine attack and may help reduce headache and associated symptoms.
A Novel PDMS Microfluidic Spotter for Fabrication of Protein Chips and Microarrays (2006)

A novel polydimethyl siloxane (PDMS) microfluidic spotter system has been developed for the patterning of surface microarrays that require individually addressing each spot area and high probe density. Microfluidic channels are used to address each spot region, and large spot arrays can be addressed in parallel. Fluorescence intensity measurement of dye-spotted samples compared to control and pipetted drops demonstrated a minimum of three-fold increase in dye surface density compared to pin-spotted dyes. Surface plasmon resonance (SPR) measurement of protein-spotted samples as compared to pin-spotted samples demonstrated an 86-fold increase in protein surface concentration. The spotting system has been applied successfully to protein microarrays for SPR applications, in both a 12-spot linear and 48-spot two-dimensional (2-D) array format. This novel spotter system can be applied to the production of high-throughput arrays in the fields of genomics, proteomics, immunoassays, and fluorescence or luminescence assays.1565
Advancing Software-Defined Networks: A Survey (2017)

Having gained momentum from its promise of centralized control over distributed network architectures at bargain costs, software-defined Networking (SDN) is an ever-increasing topic of research. SDN offers a simplified means to dynamically control multiple simple switches via a single controller program, which contrasts with current network infrastructures where individual network operators manage network devices individually. Already, SDN has realized some extraordinary use cases outside of academia with companies, such as Google, AT&T, Microsoft, and many others. However, SDN still presents many research and operational challenges for government, industry, and campus networks. Because of these challenges, many SDN solutions have developed in an ad hoc manner that are not easily adopted by other organizations. Hence, this paper seeks to identify some of the many challenges where new and current researchers can still contribute to the advancement of SDN and further hasten its broadening adoption by network operators.
Over-expression of a functionally active human GM2-activator protein in <i>Escherichia coli</i> (1993)

The cDNA of the human GM2-activator protein was cloned into the expression vector pHX17. The plasmid encodes a fusion protein with a hexahistidine tail and a Factor Xa cleavage site at its N-terminus. The recombinant protein was purified from cell homogenates under denaturing conditions by metal-ion affinity chromatography in a single step and then was refolded. The hexahistidine tail could be removed when desired by digestion with Factor Xa. In a functional assay, the GM2-activator thus generated from Escherichia coli and renatured, with or without the hexahistidine tail, was as active as the native GM2-activator protein that was purified from human tissue. When added to the culture medium, the recombinant carbohydrate-free GM2-activator, carrying the hexahistidine tail, could be taken up efficiently and restored the degradation of ganglioside GM2 to normal rates in mutant fibroblasts with the AB variant of GM2-gangliosidosis, which is characterized by a genetic defect in the GM2-activator protein. The prokaryotic expression system is useful for producing milligram quantities of a pure and functionally active GM2-activator.
Comprehensive comparison of three commercial human whole-exome capture platforms (2011)

We demonstrate key differences between the three platforms, particularly advantages of solutions over array capture and the importance of a large gene target set.
French Multicentric Evaluation of Recombinant Tissue Factor (Recombiplastin) for Determination of Prothrombin Time (1994)

Recombiplastin, a recombinant a human tissue factor, elaborated by Ortho Diagnostic Systems, produced by Baculovirus and relipidated with highly purified phospholipids, was tested as a new reagent for determining prothrombin time (PT) in a French multicentric study. Its intralaboratory performances, including sensitivity, repeatability, reproducibility and stability, were explored to establish whether its use would reduce the interlaboratory dispersion of PT values, and therefore improve the standardization of oral anticoagulant treatment. The 9 university hospital hematology laboratories involved in this study used the same type of instrument (KC 10). For 10 consecutive days, they determined PTS on a normal plasma pool, plasma dilutions of 1/2, 1/3 and 1/8, 3 identical lyophilized calibrated plasmas, as well as plasmas from 20 normal subjects, 50 patients on oral anticoagulant therapy with Recombiplastin which has an International Sensitivity Index (ISI) of 1, and 2 commercial thromboplastin extracts (ISI #1 or 2). In the patients on anticoagulants, factors VII, X and V were measured when results were conflicting. The intra and interlaboratory reproducibilities of Recombiplastin, calculated on the basis of either PTS expressed in seconds, or of the International Normalized Ratio (INR), were good, with coefficients of variation (CV) similar to those observed with the 5 other reagents used by the different laboratories (2% < CV < 8%). The stability of Recombiplastin was excellent, with no variation in PT after 72 h of incubation at 37 degrees C. A normal PT of 12 s was obtained with Recombiplastin, similar to the values found for the reagents with ISI #2.(ABSTRACT TRUNCATED AT 250 WORDS)
Identification of new polymorphisms of the angiotensin I-converting enzyme (ACE) gene, and study of their relationship to plasma ACE levels by two-QTL segregation-linkage analysis. (1996)

Plasma angiotensin I-converting enzyme (ACE) levels are highly genetically determined. A previous segregation-linkage analysis suggested the existence of a functional mutation located within or close to the ACE locus, in almost complete linkage desequilibrium (LD) with the ACE insertion/deletion (I/D) polymorphism and accounting for half the ACE variance. In order to identify the functional variant at the molecular level, we compared ACE gene sequences between four subjects selected for having contrasted ACE levels and I/D genotypes. We identified 10 new polymorphisms, among which 8 were genotyped in 95 healthy nuclear families, in addition to the I/D polymorphism. These polymorphisms could be divided into two groups: five polymorphisms in the 5' region and three in the coding sequence and the 3' UTR. Within each group, polymorphisms were in nearly complete association, whereas polymorphisms from the two groups were in strong negative LD. After adjustment for the I/D polymorphism, all polymorphisms of the 5' group remained significantly associated with ACE levels, which suggests the existence of two quantitative trait loci (QTL) acting additively on ACE levels. Segregation-linkage analyses including one or two ACE-linked QTLs in LD with two ACE markers were performed to test this hypothesis. The two QTLs and the two markers were assumed to be in complete LD. Results supported the existence of two ACE-linked QTLs, which would explain 38% and 49% of the ACE variance in parents and offspring, respectively. One of these QTLs might be the I/D polymorphism itself or the newly characterized 4656(CT)2/3 polymorphism. The second QTL would have a frequency of approximately .20, which is incompatible with any of the yet-identified polymorphisms. More extensive sequencing and extended analyses in larger samples and in other populations will be necessary to characterize definitely the functional variants.
Emotion Detection from Text (2012)

Emotion can be expressed in many ways that can be seen such as facial expression and gestures, speech and by written text. Emotion Detection in text documents is essentially a content - based classification problem involving concepts from the domains of Natural Language Processing as well as Machine Learning. In this paper emotion recognition based on textual data and the techniques used in emotion detection are discussed.
Recent Progress of Small Molecule Menin–MLL Interaction Inhibitors as Therapeutic Agents for Acute Leukemia (2021)

Mixed lineage leukemia (MLL) gene rearrangements are associated with acute leukemia. The protein menin is regarded as a critical oncogenic cofactor of the resulting MLL fusion proteins in acute leukemia. A direct interaction between menin and the MLL amino terminal sequences is necessary for MLL fusion protein-mediated leukemogenesis. Thus, inhibition of the interaction between menin and MLL has emerged as a novel therapeutic strategy. Recent improvements in structural biology and chemical reactivity have promoted the design and development of selective and potent menin-MLL interaction inhibitors. In this Perspective, different classes of menin-MLL interaction inhibitors are comprehensively summarized. Further research potential, challenges, and opportunities in the field are also discussed.
A Novel Tetracycline-Dependent Expression Vector with Low Basal Expression and Potent Regulatory Properties in Various Mammalian Cell Lines (1997)

The tetracycline-dependent expression system has gained increasing popularity for the expression of any gene of interest. Careful choice of the expression vector has been suggested to exploit the full potential of this system. A novel tetracycline-sensitive expression vector based on a modified mouse mammary tumor virus promoter achieved considerably improved regulatory properties in a series of cell lines tested under transient and stable conditions. Therefore, the applicability of the tetracycline-dependent expression system can be largely enhanced by careful adaptation of the expression vector to the host cell line.
Ezetimibe improves postprandial hyperlipidaemia in patients with type IIb hyperlipidaemia (2009)

These findings suggest that ezetimibe improves fasting lipoprotein profiles and postprandial hyperlipidaemia by suppressing intestinal CM production in patients with type IIb hyperlipidaemia and such treatment may prove to be effective in reducing atherosclerosis.
Proteomic Analysis of Kveim Reagent Identifies Targets of Cellular Immunity in Sarcoidosis (2017)

Stimulation with both Kveim reagent and vimentin induces a specific pro-inflammatory cytokine secretion from sarcoidosis PBMCs. Further investigation of cellular immune responses to Kveim-specific proteins may identify novel biomarkers to assist the diagnosis of sarcoidosis.
Transmission of bovine spongiform encephalopathy to sheep and goats (1993)

Spongiform encephalopathy has been confirmed in both 'positive' and 'negative' lines of Cheviot sheep (selected for their differential response on experimental exposure to scrapie) after intracerebral injection or oral dosing with brain homogenate derived from cattle with bovine spongiform encephalopathy (BSE). With either challenge the incubation period of the disease ranged from 440 to 994 days in both lines of sheep. In a similar experiment, three Anglo-Nubian goats developed the disease 506 to 570 days after intracerebral infection with the same BSE homogenate, and two of three goats developed the disease 941 and 1501 days after oral dosing; the other goat and some sheep from each of the experimental groups remain alive 1720 days after exposure. This is the first report of the experimental transmission of BSE to sheep and goats.
The New Generation of Beta-Cells: Replication, Stem Cell Differentiation, and the Role of Small Molecules (2010)

Diabetic patients suffer from the loss of insulin-secreting β-cells, or from an improper working β-cell mass. Due to the increasing prevalence of diabetes across the world, there is a compelling need for a renewable source of cells that could replace pancreatic β-cells. In recent years, several promising approaches to the generation of new β-cells have been developed. These include directed differentiation of pluripotent cells such as embryonic stem (ES) cells or induced pluripotent stem (iPS) cells, or reprogramming of mature tissue cells. High yield methods to differentiate cell populations into β-cells, definitive endoderm, and pancreatic progenitors, have been established using growth factors and small molecules. However, the final step of directed differentiation to generate functional, mature β-cells in sufficient quantities has yet to be achieved in vitro. Beside the needs of transplantation medicine, a renewable source of β-cells would also be important in terms of a platform to study the pathogenesis of diabetes, and to seek alternative treatments. Finally, by generating new β-cells, we could learn more details about pancreatic development and β-cell specification. This review gives an overview of pancreas ontogenesis in the perspective of stem cell differentiation, and highlights the critical aspects of small molecules in the generation of a renewable β-cell source. Also, it discusses longer term challenges and opportunities in moving towards a therapeutic goal for diabetes.
Staudinger reaction between triarylphosphines and azides. Mechanism (1967)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStaudinger reaction between triarylphosphines and azides. MechanismJohn E. Leffler and Robert D. TempleCite this: J. Am. Chem. Soc. 1967, 89, 20, 5235–5246Publication Date (Print):September 1, 1967Publication History Published online1 May 2002Published inissue 1 September 1967https://pubs.acs.org/doi/10.1021/ja00996a027https://doi.org/10.1021/ja00996a027research-articleACS PublicationsRequest reuse permissionsArticle Views4746Altmetric-Citations132LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Entropy Based Worm and Anomaly Detection in Fast IP Networks (2006)

Detecting massive network events like worm outbreaks in fast IP networks such as Internet backbones, is hard. One problem is that the amount of traffic data does not allow real-time analysis of details. Another problem is that the specific characteristics of these events are not known in advance. There is a need for analysis methods that are real-time capable and can handle large amounts of traffic data. We have developed an entropy-based approach that determines and reports entropy contents of traffic parameters such as IP addresses. Changes in the entropy content indicate a massive network event. We give analyses on two Internet worms as proof-of-concept. While our primary focus is detection of fast worms, our approach should also be able to detect other network events. We discuss implementation alternatives and give benchmark results. We also show that our approach scales very well.
Small Molecule AKAP-Protein Kinase A (PKA) Interaction Disruptors That Activate PKA Interfere with Compartmentalized cAMP Signaling in Cardiac Myocytes (2010)

A-kinase anchoring proteins (AKAPs) tether protein kinase A (PKA) and other signaling proteins to defined intracellular sites, thereby establishing compartmentalized cAMP signaling. AKAP-PKA interactions play key roles in various cellular processes, including the regulation of cardiac myocyte contractility. We discovered small molecules, 3,3'-diamino-4,4'-dihydroxydiphenylmethane (FMP-API-1) and its derivatives, which inhibit AKAP-PKA interactions in vitro and in cultured cardiac myocytes. The molecules bind to an allosteric site of regulatory subunits of PKA identifying a hitherto unrecognized region that controls AKAP-PKA interactions. FMP-API-1 also activates PKA. The net effect of FMP-API-1 is a selective interference with compartmentalized cAMP signaling. In cardiac myocytes, FMP-API-1 reveals a novel mechanism involved in terminating β-adrenoreceptor-induced cAMP synthesis. In addition, FMP-API-1 leads to an increase in contractility of cultured rat cardiac myocytes and intact hearts. Thus, FMP-API-1 represents not only a novel means to study compartmentalized cAMP/PKA signaling but, due to its effects on cardiac myocytes and intact hearts, provides the basis for a new concept in the treatment of chronic heart failure.
Optical enhancement of the open-circuit voltage in high quality GaAs solar cells (2013)

The self-absorption of radiated photons increases the minority carrier concentration in semiconductor optoelectronic devices such as solar cells. This so-called photon recycling leads to an increase in the external luminescent efficiency, the fraction of internally radiated photons that are able to escape through the front surface. An increased external luminescent efficiency in turn correlates with an increased open-circuit voltage and ultimately conversion efficiency. We develop a detailed ray-optical model that calculates Voc for real, non-idealized solar cells, accounting for isotropic luminescence, parasitic losses, multiple photon reflections within the cell and wavelength-dependent indices of refraction for the layers in the cell. We have fabricated high quality GaAs solar cells, systematically varying the optical properties including the back reflectance, and have demonstrated Voc = 1.101 ± 0.002 V and conversion efficiencies of (27.8 ± 0.8)% under the global solar spectrum. The trends shown by the model are in good agreement with the data.
Design, Synthesis and Anti-HIV Activity of Homologous PMEA Derivatives (2008)

This article describes an efficient route for synthesizing novel cyclopropyl homologous PMEA analogues. The condensation of the bromide 8 with nucleosidic bases (A, U, T, C, 5-FU, G) under standard nucleophilic substitution and deprotection conditions, afforded the target phosphonic acid analogues 14 approximately 18 and 21. These compounds were evaluated for their potential antiviral properties against various viruses. Guanine derivative 21 showed significant antiviral activity.
Internetworking Technologies Handbook (1997)

From the Publisher:
This comprehensive reference provides a foundation for understanding and implementing contemporary internetworking technologies. Internetworking Technologies Handbook will provide you with the necessary information you need to make rational networking decisions. For example, you will master terms, concepts, technologies, and devices that are used in the internetworking industry today. You will also learn to incorporate internetworking technologies into a LAN/WAN environment as well as how to apply the OSI reference model to categorize protocols, technologies, and devices. In addition, Internetworking Technologies Handbook will allow you to explore various topics, including RSVP, SMRP, IP multicast, ATM, ISDN, Frame Relay, LAN switching, and more.
Neuron-specific Gene Expression of Synapsin I (1996)

The synapsins are a family of neuron-specific phosphoproteins that selectively bind to small synaptic vesicles in the presynaptic nerve terminal. The human synapsin I gene was functionally analyzed to identify control elements directing the neuron-specific expression of synapsin I. By directly measuring the mRNA transcripts of a reporter gene, we demonstrate that the proximal region of the synapsin I promoter is sufficient for directing neuron-specific gene expression. This proximal region is highly conserved between mouse and human. Deletion of a putative binding site for the zinc finger protein, neuron-restrictive silencer factor/RE-1 silencing transcription factor (NRSF/REST), abolished neuron-specific expression of the reporter gene almost entirely, allowing constitutively acting elements of the promoter to direct expression in a non-tissue-specific manner. These constitutive transcriptional elements are present as a bipartite enhancer, consisting of the region upstream (nucleotides -422 to -235) and downstream (nucleotides -199 to -143) of the putative NRSF/REST-binding site. The latter contains a motif identical to the cAMP response element. Both regions are not active or are only weakly active in promoting transcription on their own and show no tissue-specific preference. From these data we conclude that neuron-specific expression of synapsin I is accomplished by a negative regulatory mechanism via the NRSF/REST binding motif.
On the Orbit Determination Problem (1985)

Various important aspects of the satellite orbit determination problem are critically discussed with a view to emphasizing the importance of a wise choice of suitable system models, coordinates sets, and estimators. We describe several aspects of the orbit determination process and also review much of the available literature on the application of Kalman-filter type algorithms to the problem of near-Earth, geosynchronous, and deep-space mission type orbit determination. Some features of on-board orbit determination are also addressed. It is believed that this review with a touch of tutorial will enable engineers and scientists to arrive at an orbit determination methodology (ODM) that will have attributes of good numerical stability, efficiency, and precision in orbit estimation.