gebhart/patrepeval huggingface dataset:
Emergence of Gamma distributions in granular materials and packing models (2008)

We study the distribution of volume fluctuations in experiments and numerical simulations concerning equal-sized sphere packings prepared with different techniques. We show that the distribution of the local volumes (Voronoï cells) and also the distributions of the global volumes (whole samples) follow remarkably well a shifted and rescaled Gamma distribution that we name a k-Gamma distribution. Such agreement is robust over a broad range of packing fractions and it is observed for several distinct systems. This distribution is characterized by the average packing fraction and a shape parameter "k" which is very sensitive to changes in the structural organization. A statistical mechanics approach predicts such k-Gamma distribution at statistical equilibrium and it links the parameter k with the number of elementary cells which are exchanging volume during the system preparation. The thermodynamical equivalent of k and its relation with the "granular temperature" are also discussed.
Eigendecomposition-Based Clutter Filtering Technique for Optical Microangiography (2011)

In this paper, we propose eigendecomposition- (ED-) based clutter filtering technique for 3D optical imaging of blood flow. Due to its best mean square approximation of the clutter, eigenregression filters can theoretically provide maximum clutter suppression. Compared to the existing clutter rejection techniques in the literature used for optical imaging of blood flow, ED-based clutter filtering is less sensitive to tissue motion and can efficiently suppress the clutter while preserving the flow information. Therefore, it creates images with better contrast in the presence of bulk motion. The performance of the proposed ED-based technique is compared with that of phase compensation method and static high-pass filtering. The quantitative and qualitative performances are compared with each other in phantom studies and in vivo imaging, respectively. Also, 3D image of microvascular structures in mouse ear is presented where the clutter has been suppressed with ED-based technique. This technique can be used in applications where involuntary movements due to cardiac and respiratory cycles are inevitable (such as retinal imaging).
The relationship of psychological type and attraction to group in a growth group setting (1982)

Abstract The extent to which psychological type is related to attraction to group in a growth group setting is investigated early, midway, and late in a group's development. The study also examines the pattern of attraction to group over the course of the group, in which 56 students participated in growth groups in conjunction with a beginning course in group procedures.
Enhanced gene silencing by the application of multiple specific small interfering RNAs (2003)

Small interfering RNA duplexes (siRNA) induce gene silencing in various eukaryotic cells, although usually in an incomplete manner. Using chemically synthesized siRNAs targeting the HIV-1 co-receptor CXCR4 or the apoptosis-inducing Fas-ligand (FasL), co-transfection of cells with two or more siRNA duplexes targeting different sites on the same mRNA resulted in an enhanced gene silencing compared with each single siRNA. This was shown in the down-regulation of protein and mRNA expression, and functionally in the inhibition of CXCR4-mediated HIV infection and of FasL-mediated cell apoptosis. Transfection efficiency determined for the FasL-specific siRNAs was dose-dependent and varied among the siRNAs tested, but was not the main reason for the enhanced gene silencing.
5-fluorouracil enhances the antitumor effect of sorafenib and sunitinib in a xenograft model of human renal cell carcinoma (2012)

Sorafenib and sunitinib are multi-kinase inhibitors with antitumor activity in patients with advanced renal cell carcinoma (RCC). Several studies have evaluated the effect of sorafenib/sunitinib in combination with chemotherapeutic agents in different types of tumor. However, few studies have addressed the activity of fluorinated pyrimidine in combination with sorafenib/sunitinib. In this study, we examined the potential of combination therapy with 5FU and sorafenib/sunitinib in human RCC cell lines. Three human RCC cell lines, ACHN, Caki-1 and Caki-2, were used to assess sensitivity to 5-fluorouracil (5FU), sorafenib and sunitinib alone or in combination using an in vitro cell survival assay. Caki-2 cells demonstrated significantly higher resistance to 5FU and sorafenib as compared to ACHN and Caki-1. Additive antitumor effects of the combination therapy were observed in the in vitro study. There was a tendency for a positive correlation between the sensitivity to sunitinib and platelet-derived growth factor β (PDGFR-β) expression levels, which were examined by reverse transcription polymerase chain reaction. Caki-1 xenograft models were prepared by inoculating cells subcutaneously into nude mice, which were divided randomly into six groups: control, 5FU (8 mg/kg/day, intraperitoneally), sorafenib (15 mg/kg/day, orally), sunitinib (20 mg/kg/day, orally), and 5FU with sorafenib or sunitinib. The treatments were administered on 5 days each week, and tumor growth was monitored for 42 days following inoculation of cells. Synergistic antitumor effects of the combination therapy were observed in an in vivo study. The resected tumors were evaluated using the Ki-67 labeling index and microvessel density. Both the Ki-67 labeling index and microvessel density were decreased in tumors treated with the combination therapy compared to those treated with sorafenib/sunitinib alone. These findings suggest that the combination therapy of 5FU with sorafenib/sunitinib may be an effective therapeutic modality for advanced RCC patients.
Ml.Lib: Robust, Cross-Platform, Open-Source Machine Learning For Max And Pure Data (2015)

This paper documents the development of ml.lib: a set of open-source tools designed for employing a wide range of machine learning techniques within two popular real-time programming environments, namely Max and Pure Data. ml.lib is a cross-platform, lightweight wrapper around Nick Gillian's Gesture Recognition Toolkit, a C++ library that includes a wide range of data processing and machine learning techniques. ml.lib adapts these techniques for real-time use within popular data-flow IDEs, allowing instrument designers and performers to integrate robust learning, classification and mapping approaches within their existing workflows. ml.lib has been carefully de-signed to allow users to experiment with and incorporate ma-chine learning techniques within an interactive arts context with minimal prior knowledge. A simple, logical and consistent, scalable interface has been provided across over sixteen exter-nals in order to maximize learnability and discoverability. A focus on portability and maintainability has enabled ml.lib to support a range of computing architectures---including ARM---and operating systems such as Mac OS, GNU/Linux and Win-dows, making it the most comprehensive machine learning implementation available for Max and Pure Data.
Twenty‐first century mast cell stabilizers (2013)

Mast cell stabilizing drugs inhibit the release of allergic mediators from mast cells and are used clinically to prevent allergic reactions to common allergens. Despite the relative success of the most commonly prescribed mast cell stabilizer, disodium cromoglycate, in use for the preventative treatment of bronchial asthma, allergic conjunctivitis and vernal keratoconjunctivitis, there still remains an urgent need to design new substances that are less expensive and require less frequent dosing schedules. In this regard, recent developments towards the discovery of the next generation of mast cell stabilizing drugs has included studies on substances isolated from natural sources, biological, newly synthesized compounds and drugs licensed for other indications. The diversity of natural products evaluated range from simple phenols, alkaloids, terpenes to simple amino acids. While in some cases their precise mode of action remains unknown it has nevertheless sparked interest in the development of synthetic derivatives with improved pharmacological properties. Within the purely synthetic class of inhibitors, particular attention has been devoted to the inhibition of important signalling molecules including spleen TK and JAK3. The statin class of cholesterol-lowering drugs as well as nilotinib, a TK inhibitor, are just some examples of clinically used drugs that have been evaluated for their anti-allergic properties. Here, we examine each approach under investigation, summarize the test data generated and offer suggestions for further preclinical evaluation before their therapeutic potential can be realized.
Effect of Structure on Reactivity.<sup>1</sup> IV. Aminolysis of Esters with Secondary Amines (1951)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTEffect of Structure on Reactivity.1 IV. Aminolysis of Esters with Secondary AminesEdward McC. Arnett, John G. Miller, and Allan R. DayCite this: J. Am. Chem. Soc. 1951, 73, 11, 5393–5395Publication Date (Print):November 1, 1951Publication History Published online1 May 2002Published inissue 1 November 1951https://pubs.acs.org/doi/10.1021/ja01155a113https://doi.org/10.1021/ja01155a113research-articleACS PublicationsRequest reuse permissionsArticle Views213Altmetric-Citations20LEARN 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
Assays and Technologies for Developing Proteolysis Targeting Chimera Degraders (2020)

Targeted protein degradation by small-molecule degraders represents an emerging mode of action in drug discovery. Proteolysis targeting chimeras (PROTACs) are small molecules that can recruit an E3 ligase and a protein of interest (POI) into proximity, leading to induced ubiquitination and degradation of the POI by the proteasome system. To date, the design and optimization of PROTACs remain empirical due to the complicated mechanism of induced protein degradation. Nevertheless, it is increasingly appreciated that profiling step-by-step along the ubiquitin-proteasome degradation pathway using biochemical and biophysical assays are essential in understanding the structure-activity relationship and facilitating the rational design of PROTACs. This review aims to summarize these assays and to discuss the potential of expanding the toolbox with other new techniques.
Fast and exact top-k search for random walk with restart (2012)

Graphs are fundamental data structures and have been employed for centuries to model real-world systems and phenomena. Random walk with restart (RWR) provides a good proximity score between two nodes in a graph, and it has been successfully used in many applications such as automatic image captioning, recommender systems, and link prediction. The goal of this work is to find nodes that have top-k highest proximities for a given node. Previous approaches to this problem find nodes efficiently at the expense of exactness. The main motivation of this paper is to answer, in the affirmative, the question, 'Is it possible to improve the search time without sacrificing the exactness?'. Our solution, K-dash , is based on two ideas: (1) It computes the proximity of a selected node efficiently by sparse matrices, and (2) It skips unnecessary proximity computations when searching for the top-k nodes. Theoretical analyses show that K-dash guarantees result exactness. We perform comprehensive experiments to verify the efficiency of K-dash. The results show that K-dash can find top-k nodes significantly faster than the previous approaches while it guarantees exactness.
Automatic surface inspection system : experience at Usinor and outloock (2002)

Since about 10 years, Usinor has been extensively developing and implementing automatic surface inspection systems (designated as ASIS). Research work enhanced by industrial developments in partnership with Matra, has produced systems capable of detecting and classifying defects according to the expectations of the users. The data obtained are transformed by a computer-aided post-treatment into automatic grading of coil quality and into guidelines to the operator for the evaluation of its compliance with specifications.
Unified Architectural Support for Soft-Error Protection or Software Bug Detection (2007)

In this paper we propose a unified architectural support that can be used flexibly for either soft-error protection or software bug detection. Our approach is based on dynamically detecting and enforcing instruction- level invariants. A hardware table is designed to keep track of run-time invariant information. During program execution, instructions access this table and compare their produced results against the stored invariants. Any violation of the predicted invariant suggests a potential abnormal behavior, which could be a result of a soft error or a latent software bug. In case of a soft error, monitoring invariant violations provides opportunistic soft-error protection to multiple structures in processor pipelines. Our experimental results show that invariant violations detect soft errors promptly and as a result, simple pipeline squashing is able to fix most of the detected soft errors. Meanwhile, the same approach can be easily adapted for software bug detection. The proposed architectural support eliminates the substantial performance overhead associated with software-based bug-detection approaches and enables continuous monitoring of production code.
Genetic distinction between sterol-mediated transcriptional and posttranscriptional control of 3-hydroxy-3-methylglutaryl-coenzyme A reductase (1991)

Sterols reduce the activity of 3-hydroxy-3-methyl-glutaryl-coenzyme A reductase (HMG-CoA reductase) transcriptionally by inhibiting the synthesis of reductase mRNA and posttranscriptionally by accelerating degradation of the enzyme. We and others have described mutant lines of Chinese hamster fibroblasts that are completely resistant to sterol-mediated repression of transcription of HMG-CoA reductase as well as two other sterol-regulated genes, HMG-CoA synthase and the low density lipoprotein (LDL) receptor. In the current studies, we show that one line of sterol-resistant mutant cells (SRD-3 cells) retains the ability to slow the degradation of HMG-CoA reductase by 7-fold in response to treatment with compactin, an inhibitor of reductase that blocks sterol synthesis. The compactin effect is reversed by exogenous sterols. Similar results were obtained with another mutant line of sterol-resistant cells (SRD-2 cells) whose defective transcriptional regulation is attributable to a different gene than that in the SRD-3 cells, as determined by complementation analysis. These data indicate that the gene products that are defective in the SRD-3 and SRD-2 cells are not required for the sterol-mediated regulation of degradation of HMG-CoA reductase. Thus, mammalian cells possess at least two genetically distinct mechanisms, one transcriptional and the other posttranscriptional, for sensing and responding to the intracellular level of sterols.
Anti-Outer membrane protein C and anti-glycoprotein 2 antibodies in inflammatory bowel disease and their association with complicated forms of Crohn’s disease (2014)

We have confirmed association between anti-OmpC IgA and IBD (CD and UC) and an association between anti-GP2 (IgG and IgA) and CD. Patients with complicated forms of CD have significantly higher levels of anti-OmpC IgA and anti-GP2 IgA.
Identification of a Novel Inhibitor of Dengue Virus Protease through Use of a Virtual Screening Drug Discovery Web Portal (2014)

We report the discovery of a novel small-molecule inhibitor of the dengue virus (DENV) protease (NS2B-NS3pro) using a newly constructed Web-based portal (DrugDiscovery@TACC) for structure-based virtual screening. Our drug discovery portal, an extension of virtual screening studies performed using IBM's World Community Grid, facilitated access to supercomputer resources managed by the Texas Advanced Computing Center (TACC) and enabled druglike commercially available small-molecule libraries to be rapidly screened against several high-resolution DENV NS2B-NS3pro crystallographic structures. Detailed analysis of virtual screening docking scores and hydrogen-bonding interactions between each docked ligand and the NS2B-NS3pro Ser135 side chain were used to select molecules for experimental validation. Compounds were ordered from established chemical companies, and compounds with established aqueous solubility were tested for their ability to inhibit DENV NS2B-NS3pro cleavage of a model substrate in kinetic studies. As a proof-of-concept, we validated a small-molecule dihydronaphthalenone hit as a single-digit-micromolar mixed noncompetitive inhibitor of the DENV protease. Since the dihydronaphthalenone was predicted to interact with NS2B-NS3pro residues that are largely conserved between DENV and the related West Nile virus (WNV), we tested this inhibitor against WNV NS2B-NS3pro and observed a similar mixed noncompetitive inhibition mechanism. However, the inhibition constants were ∼10-fold larger against the WNV protease relative to the DENV protease. This novel validated lead had no chemical features or pharmacophores associated with adverse toxicity, carcinogenicity, or mutagenicity risks and thus is attractive for additional characterization and optimization.
Uniqueness in Activation Energy and Charge-to-Breakdown of Highly Asymmetrical DRAM&lt;tex&gt;$hbox Al_2 hbox O_3$&lt;/tex&gt;Cell Capacitors (2004)

Al/sub 2/O/sub 3/ cell capacitors for dynamic random access memory (DRAM) applications were tested using constant voltage, time-dependent dielectric breakdown (TDDB) tests. The capacitors had area-enhancing, hemispherical grain (HSG) polysilicon as bottom electrodes (BEs). These electrodes acted as points of high electric field, and eased charge injection into the Al/sub 2/O/sub 3/. As a result, the capacitors had highly asymmetric current-voltage (I-V) characteristics. Time-to-fails (TTFs) were polarity-dependent, and, thus, much worse for HSG injection. However, activation energy (E/sub a/) and charge-to-breakdown (QBD) obtained from conducting stress under opposite polarities were a unique function of the electric field only. The results point to a common, polarity-independent mechanism responsible for final breakdown, and the possibility that only the kinetics of degradation is electrode controlled. Good correlation with the thermochemical E model suggests that the breakdown mechanism in Al/sub 2/O/sub 3/ might be similar to SiO/sub 2/.
Coexistence and Interworking of IEEE 802.16 and IEEE 802.11(e) (2006)

The coexistence and interworking of IEEE 802.16 and IEEE 802.11 is an acute problem. The frame-based medium access of 802.16 requires rigorous protection against interference from wireless local area networks in order to operate properly. The 802.11e enhancements of the medium access control of 802.11 introduce the capability to support QoS. These enhancements define a central entity as main element: the hybrid coordinator. It realizes a contention free, centrally controlled medium access and introduces QoS limitations to the contention based access of 802.11e. In this paper, a central coordinating device combines the central base station of 802.16 with the hybrid coordinator of 802.11e and is thus referred to as base station hybrid coordinator. The base station hybrid coordinator is capable to operate in an 802.16 and an 802.11(e) protocol mode in the same frequency band. The realization of the interworking between these two standards is discussed and evaluated in this paper
Three Decades of Fungal Transformation: Key Concepts and Applications (2004)

Filamentous fungi include a large, heterogeneous group of heterotrophic organisms with profound influence in human activities. In spite of their economic and scientific relevance, little information is available at the molecular level about their biology. The development of genetic transformation protocols has contributed greatly to the molecular dissection of fungal behavior. The use of this approach in combination with large-scale genome sequencing projects has now provided the basis for gaining insight into the function of fungal genes. This chapter reviews the technology of the transformation of filamentous fungi. The protocols for gene transference by protoplasting/PEG, LiAc, electroporation, biolistics and A. tumefaciens are described, and possible mechanisms for transformation are discussed. A brief description of previously reported selection systems is also included. The application of transforming protocols concerning the study of gene function and manipulation are discussed in relation to some fungal species.
Anticarcinoembryonic antigen immunoscintigraphy with a 99mTc-Fab′ fragment (Immu 4TM) in primary and recurrent colorectal cancer (1993)

Forty-seven patients were submitted to 68 radioimmunoscintigraphic investigations for primary or recurrent colorectal cancer. Immunoscintigraphy with Immu-4 correctly detected 28 primary colorectal cancers of 29 and 12 of 12 recurrent colorectal cancers. Overall accuracy was 93.75 percent in primary and 91.6 percent in recurrent colorectal cancer. Immunoscintigraphy had a decisive influence on treatment planning in every third primary colorectal cancer patient and was by far superior to CT scan in the detection of early recurrences, especially in patients with a history of abdominoperineal or low anterior resection. Immu-4 scintigraphy is a safe and convenient diagnostic approach to colorectal cancer. Because radioactivity is acceptably low and the method is absolutely free of side effects, there are no objections to the repeated use of immunoscintigraphy which provides important information in primary diagnosis as well as in the follow-up of colorectal cancer patients.
A harmonic suppression antenna for an active integrated antenna (2003)

An inset-fed antenna with a shorting pin and slots is presented for harmonic suppression of an active integrated antenna. Its fundamental resonant frequency is 5.8 GHz. At fundamental and harmonic frequencies, return loss and radiation characteristics are measured and compared with those of the conventional microstrip patch antenna. The second and third harmonic return losses of the proposed antenna are suppressed to 6.7 dB and 17.7 dB with respect to the conventional patch antenna, respectively.
The crossed-spaced-loop direction-finder aerial (1962)

A fixed array of four loop aerials is described which, in conjunction with a goniometer, is equivalent to a rotating spaced-loop aerial when receiving ground wave signals. 'Experimental verification of this performance is given. The theoretical performance of this system when receiving sky wave signals is developed. Under these conditions, the system offers no advantage over the simple cross-looped aerial.
Photon orbital angular momentum: problems and perspectives (2004)

Abstract The availability of laser beams carrying orbital angular momentum in addition to spin angular momentum paved the way to the observation of novel effects in quantum and classical optics. These effects are reviewed in this paper with emphasis on future perspectives.