gebhart/patrepeval huggingface dataset:
Surrogate- and invariance-boosted contrastive learning for data-scarce applications in science (2021)

Deep learning techniques have been increasingly applied to the natural sciences, e.g., for property prediction and optimization or material discovery. A fundamental ingredient of such approaches is the vast quantity of labelled data needed to train the model; this poses severe challenges in data-scarce settings where obtaining labels requires substantial computational or labor resources. Here, we introduce surrogate- and invariance-boosted contrastive learning (SIB-CL), a deep learning framework which incorporates three ``inexpensive'' and easily obtainable auxiliary information sources to overcome data scarcity. Specifically, these are: 1)~abundant unlabeled data, 2)~prior knowledge of symmetries or invariances and 3)~surrogate data obtained at near-zero cost. We demonstrate SIB-CL's effectiveness and generality on various scientific problems, e.g., predicting the density-of-states of 2D photonic crystals and solving the 3D time-independent Schrodinger equation. SIB-CL consistently results in orders of magnitude reduction in the number of labels needed to achieve the same network accuracies.
Novel titanium complexes bearing two chelating phenoxy‐imine ligands and their catalytic performance for ethylene polymerization (2007)

Abstract Three substituted salicylaldimine ligands ( 1a, 2a, 3a ) and their titanium complexes bis[ N ‐(5‐nitrosalicylidene)‐2,6‐diisopropylanilinato]titanium(IV)dichloride ( 1 ), bis[ N ‐(5‐chlorosalicylidene)‐2,6‐diisopropylanilinato]titanium(IV)dichloride ( 2 ) and bis[ N ‐(5‐bromosalicylidene)‐2,6‐diisopropylanilinato]titanium(IV)dichloride ( 3 ) were synthesized and characterized by mass spectra, 1 H NMR and elemental analyses, as well as complex 1 by X‐ray structure analysis. In the presence of methylaluminoxane (MAO), 1, 2 and 3 are efficient catalysts for ethylene polymerization in toluene. Under the conditions of T = 60 °C, p = 0.2 MPa, and n (MAO)/ n (cat) = 1500, the activities of 1–3 reached 4.55–8.80 × 10 6 g of PE (mol of Ti h bar) −1 , which is much higher than that of the unsubstituted complex bis[ N ‐(salicylidene)‐2,6‐diisopropylanilinato]titanium(IV)dichloride ( 4 ). The viscosity‐average molecular weight of polyethylene ranged from 24.8 × 10 4 to 44.9 × 10 4 g/mol for 1–3 and the molecular weight distribution M w / M n from 1.85 to 2.34. The effects of reaction conditions on the polymerization were examined in detail. The increase in ethylene pressure and rise in polymerization temperature are favorable for 1–3 /MAO to rise the catalytic activity and the molecular weight of polyethylene. Copyright © 2007 John Wiley &amp; Sons, Ltd.
Non-Toxic Liquid-Metal 2-100 GHz MEMS Switch (2007)

In this paper, the first wide-band MEMS capacitive switch using non-toxic liquid metal, Galinstan, is reported. Controlled movement of Galinstan in a micro-channel alters the impedance of a coplanar waveguide (CPW) line from 50Ω (off-state) to an effective RF short circuit (on-state). The RF short circuit in particular is achieved when a slug of Galinstan capacitively connects the center conductor with the ground planes of the CPW line. Galinstan is reliably manipulated by surrounding it with Teflon solution. Because of Teflon, no residual liquid metal is observed when Galinstan moves. In addition, the Teflon solution has insignificant RF loss and therefore does not adversely affect the switch loss in its off-state even up to 100GHz. The insertion loss of the switch is measured at 0.2, 0.7 and 1.3dB at 20, 40 and 100GHz respectively and is mainly due to the 1500 <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">μ</i> m long transmission line. The on-state shunt capacitance is measured to be 4pF which results in an on-state isolation of greater than 20dB from 20 to 100GHz.
Switch in Treatment From Tricyclic Antidepressants to Moclobemide (1995)

The combination of classic monoamine oxidase inhibitors (MAOIs) and tricyclic antidepressant drugs (TCAs) has been associated with a variety of adverse events. A switch in treatment from TCAs to moclobemide, a reversible and selective inhibitor of MAO-A, was investigated in a double-blind, placebo-controlled study in healthy volunteers. Two groups of 12 subjects were treated with either amitriptyline (75 mg/day) or clomipramine (100 mg/day) until steady-state conditions had been attained (14 days). Treatment with the TCAs was discontinued abruptly and switched to either a therapeutic dose regimen of moclobemide (300 mg/day) or placebo. The tolerability and safety pattern did not reveal any clinically relevant differences between moclobemide and placebo recipients, nor was there any sign of a pharmacokinetic interaction between the TCAs and moclobemide. In conclusion, the findings of this study suggest that therapeutic doses of moclobemide up to 300 mg daily can be given 24 hours after the last dose of treatment with either amitriptyline or clomipramine without major risks.
Double-Mirror Peripheral Vitrectomy Lens (1995)

Many surgeons use prism lenses to see the periphery of the fundus during vitrectomy; however, chromatic aberrations in higher-power prismatic lenses cause blurring of the peripheral image. For better visualization of the periphery of the fundus, we developed a new contact lens, the double-mirror peripheral vitrectomy lens. The new lens is a quartz cylinder with two mirrors, and it provides a crisp, clear, upright image of much more of the peripheral fundus than is visible through conventional prism lenses. The new lens also provides a wider area of view than conventional prism lenses.
Structural acoustic control of plates with variable boundary conditions (2005)

A method for optimizing a structural acoustic control system with respect to potential variations in plate boundary conditions is provided. The assumed modes method is used to build a plate model with varying levels of rotational boundary stiffness to span a range of possible boundary conditions which can be used to capture uncertainty in the model. A transducer placement scoring process, involving Hankel singular values (HSVs), is combined with a genetic optimization routine to find spatial locations robust to boundary condition variation. Predicted frequency response characteristics are examined, and optimized results are discussed in relation to boundary condition variations. Results indicate it is possible to minimize the impact of uncertain boundary conditions in active structural acoustic control by optimizing the placement of transducers with respect to uncertainties. Both analytical and experimental results will be discussed.
Wearable Bioelectronics: Enzyme-Based Body-Worn Electronic Devices (2018)

In this Account, we detail recent progress in wearable bioelectronic devices and discuss the future challenges and prospects of on-body noninvasive bioelectronic systems. Bioelectronics is a fast-growing interdisciplinary research field that involves interfacing biomaterials with electronics, covering an array of biodevices, encompassing biofuel cells, biosensors, ingestibles, and implantables. In particular, enzyme-based bioelectronics, built on diverse biocatalytic reactions, offers distinct advantages and represents a centerpiece of wearable biodevices. Such wearable bioelectronic devices predominately rely on oxidoreductase enzymes and have already demonstrated considerable promise for on-body applications ranging from highly selective noninvasive biomarker monitoring to epidermal energy harvesting. These systems can thus greatly increase the analytical capability of wearable devices from the ubiquitous monitoring of mobility and vital signs, toward the noninvasive analysis of important chemical biomarkers. Wearable enzyme electrodes offer exciting opportunities to a variety of areas, spanning from healthcare, sport, to the environment or defense. These include real-time noninvasive detection of biomarkers in biofluids (such as sweat, saliva, interstitial fluid and tears), and the monitoring of environmental pollutants and security threats in the immediate surrounding of the wearer. Furthermore, the interface of enzymes with conducting flexible electrode materials can be exploited for developing biofuel cells, which rely on the bioelectrocatalytic oxidation of biological fuels, such as lactate or glucose, for energy harvesting applications. Crucial for such successful application of enzymatic bioelectronics is deep knowledge of enzyme electron-transfer kinetics, enzyme stability, and enzyme immobilization strategies. Such understanding is critical for establishing efficient electrical contacting between the redox enzymes and the conducting electrode supports, which is of fundamental interest for the development of robust and efficient bioelectronic platforms. Furthermore, stretchable and flexible bioelectronic platforms, with mechanical properties similar to those of biological tissues, are essential for handling the rigors of on-body operation. As such, special attention must be given to changes in the behavior of enzymes due to the uncontrolled conditions of on-body operation (including diverse outdoor activities and different biofluids), for maintaining the attractive performance that these bioelectronics devices display in controlled laboratory settings. Therefore, a focus of this Account is on interfacing biocatalytic layers onto wearable electronic devices for creating efficient and stable on-body electrochemical biosensors and biofuel cells. With proper attention to key challenges and by leveraging the advantages of biocatalysis, electrochemistry, and flexible electronics, wearable bioelectronic devices could have a tremendous impact on diverse biomedical, fitness, and defense fields.
Human aspartylglucosaminidase. A biochemical and immunocytochemical characterization of the enzyme in normal and aspartylglucosaminuria fibroblasts (1992)

Aspartylglucosaminidase (AGA, EC 3.5.1.26) is an essential enzyme in the degradation of asparagine-linked glycoproteins. In man, deficient activity of this enzyme leads to aspartylglucosaminuria (AGU), a recessively inherited lysosomal storage disease. Here we used affinity-purified polyclonal antibodies against the native AGA and its denatured subunits to establish the molecular structure and intracellular location of the enzyme in normal and AGU fibroblasts. Inactivation of the enzyme was found to coincide with the dissociation of the heterodimeric enzyme complex into subunits. Although the subunits were not linked by covalent forces, the intrapolypeptide disulphide bridges were found to be essential for the normal function of AGA. AGA was localized into lysosomes in control fibroblasts by both immunofluorescence microscopy and immuno-electron microscopy, whereas in AGU cells the location of antigen was different, suggesting that, owing to the mutation, a missing disulphide bridge, most of the enzyme molecules get retarded in the cis-Golgi region and most probably face intracellular degradation.
Electrode positioner for laser-enhanced ionization spectrometry (1981)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTElectrode positioner for laser-enhanced ionization spectrometryGeorge J. Havrilla and Robert B. GreenCite this: Anal. Chem. 1981, 53, 1, 134–135Publication Date (Print):January 1, 1981Publication History Published online1 May 2002Published inissue 1 January 1981https://pubs.acs.org/doi/10.1021/ac00224a038https://doi.org/10.1021/ac00224a038research-articleACS PublicationsRequest reuse permissionsArticle Views21Altmetric-Citations4LEARN 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
Erratum: All-sky search for periodic gravitational waves in LIGO S4 data [Phys. Rev. D77, 022001 (2008)] (2009)

An error has been found in the computation of the C parameter defined in Eq. ( The correct values for C are 9.2, 9.7, and 9.3 for the multi-interferometer, H1 and L1 analyses, respectively. None of the upper limits presented in the article were affected.
The Effects of Stroke-to-Bore Ratio on HCCI Combustion (2010)

&lt;div class="section abstract"&gt;&lt;div class="htmlview paragraph"&gt;This paper discusses the effects of stroke-to-bore (S/B) ratio on HCCI combustion. KIVA-3V, coupled with a multi-zone detailed chemical kinetics solver, is used to quantify the effects of changes in S/B ratio to heat transfer, thermal stratification and HCCI combustion. Three S/B ratios (0 5, 1.1 and 1.5) are analyzed. The results indicate that a cylinder with smaller S/B has more heat losses and lower thermal efficiency compared with a cylinder with larger S/B ratio, because of larger area-to-volume ratio near TDC. Moreover, the lowest S/B ratio case has a narrower temperature distribution before the onset of combustion. This leads to shorter burn duration, higher heat release rate and, consequently, increased knocking tendency. The emission results also favor the higher S/B ratio, with S/B=0.5 having the highest CO and HC emissions for relatively early combustion phasing; however, this trend is reversed as combustion is retarded.&lt;/div&gt;&lt;/div&gt;
Ten simple rules for neuroimaging meta-analysis (2017)

Neuroimaging has evolved into a widely used method to investigate the functional neuroanatomy, brain-behaviour relationships, and pathophysiology of brain disorders, yielding a literature of more than 30,000 papers. With such an explosion of data, it is increasingly difficult to sift through the literature and distinguish spurious from replicable findings. Furthermore, due to the large number of studies, it is challenging to keep track of the wealth of findings. A variety of meta-analytical methods (coordinate-based and image-based) have been developed to help summarise and integrate the vast amount of data arising from neuroimaging studies. However, the field lacks specific guidelines for the conduct of such meta-analyses. Based on our combined experience, we propose best-practice recommendations that researchers from multiple disciplines may find helpful. In addition, we provide specific guidelines and a checklist that will hopefully improve the transparency, traceability, replicability and reporting of meta-analytical results of neuroimaging data.
Molecular dissection of a hyper-aggressive CBFB-MYH11/FLT3-ITD–positive acute myeloid leukemia (2022)

Acute Myeloid Leukaemia (AML) is a haematological malignancy showing a hypervariable landscape of clinical outcomes and phenotypic differences, explainable by heterogeneity at the cellular and molecular level. Among the most common genomic alterations, CBFB-MYH11 rearrangement and FLT3-ITD gene mutations, have opposite clinical significance and are unfrequently associated. We present here a Molecular Case Report in which these two events co-exist an ultra-aggressive phenotype resulting in death in 4 days from hospital admittance. Somatic and germline Whole Exome Sequencing analysis was performed to uncover other putative driver mutations, de-novo genomic structural events or germline clusters increasing cancer insurgence. Only three mutations in LTK, BCAS2 and LGAS9 were found, unlikely causative of the exhibited phenotype, prompting to additional investigation of the rare CBFB-MYH11/ FLT3-ITD scenario.
Escherichia coli heat-stable enterotoxin b (STb) in vivo internalization within rat intestinal epithelial cells (2002)

Heat-stable enterotoxin b (STb) is a low molecular weight toxin known to bind sulfatide, its receptor. The fate of STb bound to rat intestinal epithelium cells was followed using an anti-toxin gold labeled assay and transmission electron microscopy. The data suggest that STb toxin and the fusion protein maltose binding protein (MBP)-STb were internalized whereas its mutant I41 E-M42R with reduced hydrophobicity did not show internalization. There was a significant difference in the mean of gold particles per field between rat intestine incubated with STb or the fusion protein MBP-STb and the negative control consisting of intestine incubated with PBS alone. No subcellular compartment seems to be particularly aimed by the toxin as gold particles were randomly distributed within the cell.
Impact of Electrode Type on Mapping of Scar‐Related VT (2015)

Multipolar mapping catheters with small electrodes provide more accurate and higher density maps, with a higher sensitivity to near-field signals. Agreement between PR and NAV is low.
GPGPU-Parallel Re-indexing of Triangle Meshes with Duplicate-Vertex and Unused-Vertex Removal (2021)

We describe a simple yet highly parallel method for re-indexing "indexed" data sets like triangle meshes or unstructured-mesh data sets -- which is useful for operations such as removing duplicate or un-used vertices, merging different meshes, etc. In particlar, our method is parallel and GPU-friendly in the sense that it all its steps are either trivially parallel, or use GPU-parallel primitives like sorting, prefix-sum; thus making it well suited for highly parallel architectures like GPUs.
Development of bioinformatics resources for display and analysis of copy number and other structural variants in the human genome (2006)

The discovery of an abundance of copy number variants (CNVs; gains and losses of DNA sequences >1 kb) and other structural variants in the human genome is influencing the way research and diagnostic analyses are being designed and interpreted. As such, comprehensive databases with the most relevant information will be critical to fully understand the results and have impact in a diverse range of disciplines ranging from molecular biology to clinical genetics. Here, we describe the development of bioinformatics resources to facilitate these studies. The Database of Genomic Variants (http://projects.tcag.ca/variation/) is a comprehensive catalogue of structural variation in the human genome. The database currently contains 1,267 regions reported to contain copy number variation or inversions in apparently healthy human cases. We describe the current contents of the database and how it can serve as a resource for interpretation of array comparative genomic hybridization (array CGH) and other DNA copy imbalance data. We also present the structure of the database, which was built using a new data modeling methodology termed Cross-Referenced Tables (XRT). This is a generic and easy-to-use platform, which is strong in handling textual data and complex relationships. Web-based presentation tools have been built allowing publication of XRT data to the web immediately along with rapid sharing of files with other databases and genome browsers. We also describe a novel tool named eFISH (electronic fluorescence in situ hybridization) (http://projects.tcag.ca/efish/), a BLAST-based program that was developed to facilitate the choice of appropriate clones for FISH and CGH experiments, as well as interpretation of results in which genomic DNA probes are used in hybridization-based experiments.
Linked Toll-Like Receptor Triagonists Stimulate Distinct, Combination-Dependent Innate Immune Responses (2019)

Traditional vaccination strategies have failed to generate effective vaccines for many infections like tuberculosis and HIV. New approaches are needed for each type of disease. The protective immunity and distinct responses of many successful vaccines come from activating multiple Toll-like receptors (TLRs). Vaccines with multiple TLRs as adjuvants have proven effective in preclinical studies, but current research has not explored two important elements. First, few multi-TLR systems explore spatial organization-a critical feature of whole-cell vaccines. Second, no multi-TLR systems to date provide systematic analysis of the combinatorial space of three TLR agonists. Here, we present the first examination of the combinatorial space of several spatially defined triple-TLR adjuvants, by synthesizing a series of five triple-TLR agonists and testing their innate activity both <i>in vitro</i> and <i>in vivo</i>. The combinations were evaluated by measuring activation of immune stimulatory genes (Nf-κB, ISGs), cytokine profiles (IL12-p70, TNF-α, IL-6, IL-10, CCL2, IFN-α, IFN-β, IFN-γ), and <i>in vivo</i> cytokine serum levels (IL-6, TNF-α, IL12-p40, IFN-α, IFN-β). We demonstrate that linking TLR agonists substantially alters the resulting immune response compared to their unlinked counterparts and that each combination results in a distinct immune response, particularly between linked combinations. We show that combinations containing a TLR9 agonist produce more Th1 biasing immune response profiles, and that the effect is amplified upon conjugation. However, combinations containing TLR2/6 agonist are skewed toward T<sub>H</sub>2 biasing profiles despite the presence of TLR9. These results demonstrate the profound effects that conjugation and combinatorial administration of TLR agonists can have on immune responses, a critical element of vaccine development.
F124 Development of Thermal Resonance Spectroscopy for Thermal Diffusivity for Small Rectangular Parallelepipeds (2013)

Thermal conductivity is a crucial value in designing devices, and materials with high thermal conductivity are favorable for wide variety of applications. However, some of those materials are so small that conventional methods fail to measure thermal conductivity precisely. Here, we introduce a new technique for thermal diffusivity measurement, which observes the thermal resonance and is valid for a small specimen such as synthesized diamond. We describe the theory and the experimental method for this technique and present experimental results for small rectangular parallelepiped specimens. The results show quantitative agreement with reported values.