gebhart/patrepeval huggingface dataset:
Identification of novel inhibitors that disrupt STAT3–DNA interaction from a γ-AApeptide OBOC combinatorial library (2014)

From a γ-AApeptide-based one-bead-one-compound (OBOC) combinatorial library, we identified γ-AApeptides that can selectively inhibit STAT3-DNA interaction and suppress the expression levels of STAT3 target genes in intact cells. Our results demonstrate that in addition to the SH2 domain, the DNA binding domain of STAT3 is targetable for the development of a new generation of anti-cancer therapeutics.
A Photoresponsive Biomimetic Dry Adhesive Based on Doped PDMS Microstructures (2014)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTA Photoresponsive Biomimetic Dry Adhesive Based on Doped PDMS MicrostructuresPamela Tannouri†‡, Khaled M. Arafeh†, Jeffrey M. Krahn‡, Scott L. Beaupré†, Carlo Menon*‡, and Neil R. Branda*†View Author Information† †4D LABS, Department of Chemistry, and ‡Menrva Research Group, School of Engineering Science, Simon Fraser University, 8888 University Drive, Burnaby, British Columbia, Canada V5A 1S6*E-mail: (N.R.B.) [email protected]*E-mail: (C.M.) [email protected]Cite this: Chem. Mater. 2014, 26, 15, 4330–4333Publication Date (Web):July 17, 2014Publication History Received19 June 2014Published online25 July 2014Published inissue 12 August 2014https://doi.org/10.1021/cm502222cCopyright © 2014 American Chemical SocietyRIGHTS & PERMISSIONSArticle Views1954Altmetric-Citations23LEARN 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 InReddit Read OnlinePDF (3 MB) Get e-AlertsSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Electromagnetic radiation,Light,Molecular structure,Silicones,Surface interactions Get e-Alerts
Improving Fluorescent DNAzyme Biosensors by Combining Inter- and Intramolecular Quenchers (2003)

A previously reported DNAzyme-based biosensor for Pb(2+) has shown high sensitivity and selectivity at 4 degrees C. In the system, the substrate and the enzyme strand of the DNAzyme are labeled with a fluorophore and a quencher, respectively. In the presence of Pb(2+), the substrate strand is cleaved by the enzyme strand, and the release of the cleaved fragment results in significant fluorescence increase. However, the performance of the sensor decreases considerably if the temperature is raised to room temperature because of high background fluorescence. A careful analysis of the sensor system, including measurement of the melting curve and fluorescence resonance energy-transfer (FRET) study of the free substrate, suggests that a fraction of the fluorophore-labeled substrate strand is dissociated from the enzyme strand, resulting in elevated background fluorescence signals at room temperature. To overcome this problem, we designed a new sensor system by introducing both inter- and intramolecular quenchers. The design was aided by the FRET study that showed the dissociated substrate maintained a random coil conformation with an end-to-end distance of approximately 39 A, which is much shorter than that of the fully extended DNA. With this new design, the background fluorescence was significantly suppressed, with 660% increase of fluorescence intensity as compared to 60% increase for the previous design. This suppression of background fluorescence signals was achieved without losing selectivity of the sensor. The new design makes it possible to use the sensor for practical applications in a wide temperature range. The design principle presented here should be applicable to other nucleic acid-based biosensors to decrease background fluorescence.
Using utility prediction models to dynamically choose program thread counts (2012)

Multithreaded applications can simultaneously execute on a chip multiprocessor computer, starting and stopping without warning or pattern. The behavior of each program can be different, interacting in unexpected ways, including causing competition for CPU cycles, which harms performance.
Long-Term Functional and Clinical Follow-Up of Patients With Heart Failure With Recovered Left Ventricular Ejection Fraction After β-Blocker Therapy (2014)

The long-term survival of patients with LVSD and with near-normal LVEF after β-blockade is good. However, a quarter of these patients may experience a subsequent degradation of LVEF. These patients are at higher risk of cardiovascular mortality.
A Two-Phase IPR for Horizontal Oil Wells (2005)

Abstract This paper investigates the rate-pressure behavior of a horizontal oil well with a fully penetrating wellbore producing during the boundary dominated flow regime. Based on linear regression analysis of simulator results, two empirical inflow performance relationships (IPRs) are developed to estimate well performance. A future performance relationship is also developed to allow estimates of future rate-pressure behavior from current test information. The IPR relationships are compared to other horizontal IPRs available in the literature and yield reasonable estimates of well behavior over a wide range of operating conditions.
What Can We Learn Privately? (2011)

Learning problems form an important category of computational tasks that generalizes many of the computations researchers apply to large real-life data sets. We ask, What concept classes can be learned privately, namely, by an algorithm whose output does not depend too heavily on any one input or specific training example? More precisely, we investigate learning algorithms that satisfy differential privacy, a notion that provides strong confidentiality guarantees in contexts where aggregate information is released about a database containing sensitive information about individuals. Our goal is a broad understanding of the resources required for private learning in terms of samples, computation time, and interaction. We demonstrate that, ignoring computational constraints, it is possible to privately agnostically learn any concept class using a sample size approximately logarithmic in the cardinality of the concept class. Therefore, almost anything learnable is learnable privately: specifically, if a concept class is learnable by a (nonprivate) algorithm with polynomial sample complexity and output size, then it can be learned privately using a polynomial number of samples. We also present a computationally efficient private probabilistically approximately correct learner for the class of parity functions. This result dispels the similarity between learning with noise and private learning (both must be robust to small changes in inputs), since parity is thought to be very hard to learn given random classification noise. Local (or randomized response) algorithms are a practical class of private algorithms that have received extensive investigation. We provide a precise characterization of local private learning algorithms. We show that a concept class is learnable by a local algorithm if and only if it is learnable in the statistical query (SQ) model. Therefore, for local private learning algorithms, the similarity to learning with noise is stronger: local learning is equivalent to SQ learning, and SQ algorithms include most known noise-tolerant learning algorithms. Finally, we present a separation between the power of interactive and noninteractive local learning algorithms. Because of the equivalence to SQ learning, this result also separates adaptive and nonadaptive SQ learning.
New human and mouse microRNA genes found by homology search (2004)

Conservation of microRNAs (miRNAs) among species suggests that they bear conserved biological functions. However, sequencing of new miRNAs has not always been accompanied by a search for orthologues in other species. I report herein the results of a systematic search for interspecies orthologues of miRNA precursors, leading to the identification of 35 human and 45 mouse new putative miRNA genes. MicroRNA tracks were written to visualize miRNAs in human and mouse genomes on the UCSC Genome Browser. Based on their localization, miRNA precursors can be excised either from introns or exons of mRNAs. When intronic miRNAs are antisense to the apparent host gene, they appear to originate from ill-characterized antisense transcription units. Exonic miRNAs are, in general, nonprotein-coding, poorly conserved genes in sense orientation. In three cases, the excision of an miRNA from a protein-coding mRNA might lead to the degradation of the rest of the transcript. Moreover, three new examples of miRNAs fully complementary to an mRNA are reported. Among these, miR135a might control the stability and/or translation of an alternative form of the glycerate kinase mRNA by RNA interference. I also discuss the presence of human miRNAs in introns of paralogous genes and in miRNA clusters.
Learning Text Filtering Preferences (1996)

We describe a reusable agent that learns a model of the user&amp;apos;s research interests for filtering conference announcements and request for proposals (RFPs) from the Web. For this task, there is a large volume of irrelevant documents and the proportion of relevant documents is very small. It is also critical that the agent not misclassify relevant documents. Information Retrieval and Neural Network techniques were utilized to learn the model of user&amp;apos;s preferences. Learning was boot-strapped using papers and proposals the user had written as positive examples. The agent&amp;apos;s performance at startup is quite high. Information retrieval and Neural Nets were used to train the agent and experimental performance results were obtained and reported. Introduction We describe a reusable Learning Personal Agent (LPA) that learns a user&amp;apos;s research interests and filters Webbased conference announcements and RFPs. Learning Personal Agents have been used for information filtering from the WWW (Lang 1995),...
Atomoxetine: a selective noradrenaline reuptake inhibitor for the treatment of attention-deficit/hyperactivity disorder (2003)

Atomoxetine (Strattera™, Eli Lilly & Co.) is a selective noradrenaline reuptake inhibitor that has been studied for use in the treatment of attention-deficit/hyperactivity disorder (ADHD). So far, two open-label and seven randomised, double-blind, placebo-controlled, clinical trials have been published, six in youths and three in adults. Each of these trials has shown a positive response as measured by the primary efficacy measures, the ADHD-IV Rating Scale (ADHD RS) or the Conners Adult ADHD Rating Scale (CAARS). Atomoxetine has generally been well tolerated. In November of 2002 the FDA approved atomoxetine for use in the US for the treatment of ADHD in children, adolescents and adults. Atomoxetine is the first nonstimulant approved by the FDA for the treatment of ADHD and the first medication approved for the treatment of adult ADHD.
Introduction: the discourse of freedom (2009)

It is impossible that any man can possess any property by a more intimate and perfect right than that by which every man possesses the property in his own person; and the property in the profits of his lawful labour follows as a necessary consequence; all acts of capture and violence, buying and selling, being vitiated and rendered null and void by previously existing, permanent and idefeasible right of the man to himself, a right which, like many other rights, may be in abeyance, but which can never be lost, and may always be resumed when the fear of violence or the pressure of actual force is removed.W. Adam, The Law and Custom of Slavery in British India, 1840
HNO and NO Release from a Primary Amine-Based Diazeniumdiolate As a Function of pH (2011)

The growing evidence that nitroxyl (HNO) has a rich pharmacological potential that differs from that of nitric oxide (NO) has intensified interest in HNO donors. Recently, the diazeniumdiolate (NONOate) based on isopropylamine (IPA/NO; Na[(CH(3))(2)CHNH(N(O)NO)]) was demonstrated to function under physiological conditions as an organic analogue to the commonly used HNO donor Angeli's salt (Na(2)N(2)O(3)). The decomposition mechanism of Angeli's salt is dependent on pH, with transition from an HNO to an NO donor occurring abruptly near pH 3. Here, pH is shown to also affect product formation from IPA/NO. Chemical analysis of HNO and NO production led to refinement of an earlier, quantum mechanically based prediction of the pH-dependent decomposition mechanisms of primary amine NONOates such as IPA/NO. Under basic conditions, the amine proton of IPA/NO is able to initiate decomposition to HNO by tautomerization to the nitroso nitrogen (N(2)). At lower pH, protonation activates a competing pathway to NO production. At pH 8, the donor properties of IPA/NO and Angeli's salt are demonstrated to be comparable, suggesting that at or above this pH, IPA/NO is primarily an HNO donor. Below pH 5, NO is the major product, while IPA/NO functions as a dual donor of HNO and NO at intermediate pH. This pH-dependent variability in product formation may prove useful in examination of the chemistry of NO and HNO. Furthermore, primary amine NONOates may serve as a tunable class of nitrogen oxide donor.
Evidence for a brief period of enhanced oxygen susceptibility in the rat model of oxygen-induced retinopathy. (2002)

The results suggest that cone function is significantly more susceptible to postnatal hyperoxia than rod function, and the OPs appear to be the most susceptible ERG components, thus suggesting a differential susceptibility to oxygen toxicity of the different retinal components. However, despite a clear demonstration of its existence, the exact nature of the temporal window of enhanced oxygen susceptibility as well as a possible equivalence in other animal models of oxygen induced retinopathy, including the human form (retinopathy of prematurity), remains to be determined.
Personal electronics printing via tapping mode composite liquid metal ink delivery and adhesion mechanism (2014)

Printed electronics is becoming increasingly important in a variety of newly emerging areas. However, restricted to the rather limited conductive inks and available printing strategies, the current electronics manufacture is usually confined to industry level. Here, we show a highly cost-effective and entirely automatic printing way towards personal electronics making, through introducing a tapping-mode composite fluid delivery system. Fundamental mechanisms regarding the reliable printing, transfer and adhesion of the liquid metal inks on the substrate were disclosed through systematic theoretical interpretation and experimental measurements. With this liquid metal printer, a series of representative electronic patterns spanning from single wires to desired complex configurations such as integrated circuit (IC), printed-circuits-on-board (PCB), electronic paintings, or more do-it-yourself (DIY) devices, were demonstrated to be printed out with high precision in a moment. And the total machine cost already reached personally affordable price. This is hard to achieve by a conventional PCB technology which generally takes long time and is material, water and energy consuming, while the existing printed electronics is still far away from the real direct printing goal. The present work opens the way for large scale personal electronics manufacture and is expected to generate important value for the coming society.
The relationship between synovial lymphocyte aggregates and the clinical response to infliximab in rheumatoid arthritis: A prospective study (2009)

RA patients with synovial lymphocyte aggregates have, on average, a better response to infliximab treatment than those with only diffuse leukocyte infiltration. Moreover, the aggregation of synovial lymphocytes is reversible after anti-TNF antibody treatment.
Chronic lithium administration ameliorates 2,4,6‐trinitrobenzene sulfonic acid‐induced colitis in rats; potential role for adenosine triphosphate sensitive potassium channels (2011)

Lithium exerts prominent anti-inflammatory effects on TNBS-induced colitis in rats. Potassium channels contribute to these beneficial properties.
Genotyping, Orientalis-likeYersinia pestis, and Plague Pandemics (2004)

Three pandemics have been attributed to plague in the last 1,500 years. Yersinia pestis caused the third, and its DNA was found in human remains from the second. The Antiqua biovar of Y. pestis may have caused the first pandemic; the other two biovars, Medievalis and Orientalis, may have caused the second and third pandemics, respectively. To test this hypothesis, we designed an original genotyping system based on intergenic spacer sequencing called multiple spacer typing (MST). We found that MST differentiated every biovar in a collection of 36 Y. pestis isolates representative of the three biovars. When MST was applied to dental pulp collected from remains of eight persons who likely died in the first and second pandemics, this system identified original sequences that matched those of Y. pestis Orientalis. These data indicate that Y. pestis caused cases of Justinian plague. The two historical plague pandemics were likely caused by Orientalis-like strains.
Haplotype analysis of two recurrent CDKN2A mutations in 10 melanoma families: Evidence for common founders and independent mutations (1998)

Germ-line mutations in CDKN2A have been shown to predispose to cutaneous malignant melanoma. We have identified 2 new melanoma kindreds which carry a duplication of a 24bp repeat present in the 5′ region of CDKN2A previously identified in melanoma families from Australia and the United States. This mutation has now been reported in 5 melanoma families from 3 continents: Europe, North America, and Australasia. The M53I mutation in exon 2 of CDKN2A has also been documented in 5 melanoma families from Australia and North America. The aim of this study was to determine whether the occurrence of the mutations in these families from geographically diverse populations represented mutation hotspots within CDKN2A or were due to common ancestors. Haplotypes of 11 microsatellite markers flanking CDKN2A were constructed in 5 families carrying the M53I mutation and 5 families carrying the 24bp duplication. There were some differences in the segregating haplotypes due primarily to recombinations and mutations within the short tandem-repeat markers; however, the data provide evidence to indicate that there were at least 3 independent 24bp duplication events and possibly only 1 original M53I mutation. This is the first study to date which indicates common founders in melanoma families from different continents. Hum Mutat 11:424–431, 1998. © 1998 Wiley-Liss, Inc.
Brain Glucose Supply and the Syndrome of Infantile Neuroglycopenia (2007)

When neuroglycopenia-the lack of adequate glucose supply to the nervous system-occurs in the developing brain, thalamic and cortical metabolism mature aberrantly, causing epilepsy associated with other characteristic neurologic and behavioral disturbances, a pattern also reflected in functional images, as if there were a temporal window during which glucose were crucial for brain development. When maturation is complete, glucose merely serves as a fuel, and then, when deficient, it only causes unrelated disturbances.
ORTEP-III: Oak Ridge Thermal Ellipsoid Plot Program for crystal structure illustrations (1996)

This report describes a computer program for drawing crystal structure illustrations. Ball-and-stick type illustrations of a quality suitable for publication are produced with either spheres or thermal-motion probability ellipsoids on the atomic sites. The program can also produce stereoscopic pairs of illustrations which aid in the visualization of complex packing arrangements of atoms and thermal motion patterns. Interatomic distances, bond angles, and principal axes of thermal motion are also calculated to aid the structural study.
Prophylactic effect of dietary glutamine supplementation on interleukin 8 and tumour necrosis factor α production in trinitrobenzene sulphonic acid induced colitis (1997)

Prophylactic glutamine supplementation modulates the inflammatory activities of IL-8 and TNF-alpha in TNBS induced colitis.
A scalable, commodity data center network architecture (2008)

Today's data centers may contain tens of thousands of computers with significant aggregate bandwidth requirements. The network architecture typically consists of a tree of routing and switching elements with progressively more specialized and expensive equipment moving up the network hierarchy. Unfortunately, even when deploying the highest-end IP switches/routers, resulting topologies may only support 50% of the aggregate bandwidth available at the edge of the network, while still incurring tremendous cost. Non-uniform bandwidth among data center nodes complicates application design and limits overall system performance. In this paper, we show how to leverage largely commodity Ethernet switches to support the full aggregate bandwidth of clusters consisting of tens of thousands of elements. Similar to how clusters of commodity computers have largely replaced more specialized SMPs and MPPs, we argue that appropriately architected and interconnected commodity switches may deliver more performance at less cost than available from today's higher-end solutions. Our approach requires no modifications to the end host network interface, operating system, or applications; critically, it is fully backward compatible with Ethernet, IP, and TCP.
Voltammetry of Redox-Active Groups Irreversibly Adsorbed onto Electrodes. Treatment Using the Marcus Relation between Rate and Overpotential (1994)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTVoltammetry of Redox-Active Groups Irreversibly Adsorbed onto Electrodes. Treatment Using the Marcus Relation between Rate and OverpotentialKara. Weber and Stephen E. CreagerCite this: Anal. Chem. 1994, 66, 19, 3164–3172Publication Date (Print):October 1, 1994Publication History Published online1 May 2002Published inissue 1 October 1994https://pubs.acs.org/doi/10.1021/ac00091a027https://doi.org/10.1021/ac00091a027research-articleACS PublicationsRequest reuse permissionsArticle Views1807Altmetric-Citations207LEARN 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