gebhart/patrepeval huggingface dataset:
Rapid mask prototyping for microfluidics (2016)

With the rise of microfluidics for the past decade, there has come an ever more pressing need for a low-cost and rapid prototyping technology, especially for research and education purposes. In this article, we report a rapid prototyping process of chromed masks for various microfluidic applications. The process takes place out of a clean room, uses a commercially available video-projector, and can be completed in less than half an hour. We quantify the ranges of fields of view and of resolutions accessible through this video-projection system and report the fabrication of critical microfluidic components (junctions, straight channels, and curved channels). To exemplify the process, three common devices are produced using this method: a droplet generation device, a gradient generation device, and a neuro-engineering oriented device. The neuro-engineering oriented device is a compartmentalized microfluidic chip, and therefore, required the production and the precise alignment of two different masks.
Pegasus: a comprehensive annotation and prediction tool for detection of driver gene fusions in cancer (2014)

We show the effectiveness of Pegasus in predicting new driver fusions in 176 RNA-Seq samples of glioblastoma multiforme (GBM) and 23 cases of anaplastic large cell lymphoma (ALCL).
EUS clarifies the natural history and ideal management of GISTs. (2008)

Level III, case-control study.
Allergic sensitization to lipocalins reflects asthma morbidity in dog dander sensitized children (2022)

Polysensitization to furry animal allergens and high IgE levels to the dog lipocalins Can f 2, Can f 4 and Can f 6 is associated with asthma severity in dog dander sensitized children. Molecular allergy diagnostics may thus help the clinicians to evaluate the impact of allergic sensitization on asthma morbidity.
Different models and single-nucleotide polymorphisms signal the simulated weak gene-gene interaction for a quantitative trait using haplotype-based and mixed models testing (2009)

Knowledge of simulated genetic effects facilitates interpretation of methodological studies. Genetic interactions for common disorders are likely numerous and weak. Using the 200 replicates of the Genetic Analysis Workshop 16 (GAW16) Problem 3 simulated data, we compared the statistical power to detect weak gene-gene interactions using a haplotype-based test in the UNPHASED software with genotypic mixed model (GMM) and additive mixed model (AMM) mixed linear regression model in SAS. We assumed a candidate-gene approach where a single-nucleotide polymorphism (SNP) in one gene is fixed and multiple SNPs are at the second gene. We analyzed the quantitative low-density lipoprotein trait (heritability 0.7%), modulated by simulated interaction of rs4648068 from 4q24 and another gene on 8p22, where we analyzed seven SNPs. We generally observed low power calculated per SNP (</= 37% at the 0.05 level), with the haplotype-based test being inferior. Over all tests, the haplotype-based test performed within chance, while GMM and AMM had low power (~10%). The haplotype-based and mixed models detected signals at different SNPs. The haplotype-based test detected a signal in 50 unique replicates; GMM and AMM featured both shared and distinct SNPs and replicates (65 replicates shared, 41 GMM, 27 AMM). Overall, the statistical signal for the weak gene-gene interaction appears sensitive to the sample structure of the replicates. We conclude that using more than one statistical approach may increase power to detect such signals in studies with limited number of loci such as replications. There were no results significant at the conservative 10-7 genome-wide level.
Analysis and segmentation of Brain MR images with Blind-Source-Separation techniques (2009)

The intensity value of each voxel in a brain MR image is considered to be a linear combination of signal intensities emitted from protons in aqueous and lipid environments inside that voxel. A novel model describing the proton density (PD) and fraction of protons in aqueous environment (Water Fraction - WF) as independent sources of an MR image is suggested. We consider an input set of registered T <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">1</sub> and T <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sub> weighted images to be the mixtures. The sources are separated from these mixtures by applying a geometrical blind-source-separation technique on sparse projection of the mixtures. A novel model is proposed to relate between the observed scatter-plot and the actual orientations of the mixing matrix and its estimation. The resulting PD source-image is compared to available PD weighted image of the same patient. WF image is used for anatomic classification of the image into brain tissues - White Matter (WM), Grey Matter (GM), and Cerebrospinal Fluid (CSF).
Early Endoscopic Evaluation After Initiation of Biologic Therapy Reduces Disease-Related Complications in Inflammatory Bowel Disease, Supporting the Concept of Treat-to-Target (2018)

Introduction: The STRIDE consensus recommended that inflammatory bowel disease (IBD) patients undergo routine follow-up with lower endoscopy within 6 months of biologic initiation to document endoscopic improvement (treat-to-target). The adoption and impact of this monitoring approach on the subsequent occurrence of disease-related complications are yet to be assessed. The aim of this study was to evaluate whether early endoscopic evaluation after biologic initiation reduced disease-related complications. Methods: IBD patients who initiated biologics were identified in the Truven MarketScan® (2007-2016), a large commercial health claims database. Kaplan-Meier and Cox models evaluated composite rates of disease-related complications (corticosteroid use, emergency department [ED] visit, hospitalization, and bowel surgery) in patients who did or did not undergo lower endoscopy within 6 months of biologic initiation. We controlled for age, corticosteroid use, ED visits, hospitalizations, bowel surgery, and concomitant medications. Subgroup analyses evaluated the effect of endoscopy timing on the rates of disease-related complications. Results: Only 12.8% (2,279/17,807) CD patients and 16.3% (757/4,643) UC patients underwent endoscopy within 6 months of biologic initiation. Early endoscopy was associated with a reduction in 24-month risk of disease-related complications in CD (aHR 0.87, P=0.02) and UC (aHR 0.68, P<0.01). Patients who underwent an endoscopy were more likely to change biologic (CD: aHR 1.15, P<0.01; UC: aHR 1.25, P<0.01), and a change in biologic was associated with a reduction in disease-related complications (CD: aHR 0.35, P<0.01; UC: aHR 0.28, P<0.01). The benefit of early endoscopy was greater within 4 months of biologic initiation for CD and within 6 months for UC. Conclusion: Among the 13-16% of IBD patients who underwent early endoscopy after biologic initiation, endoscopy was associated with a lower composite risk of corticosteroid use, ED visit, hospitalization, or surgery. Early endoscopy led to a greater need to change biologic, and the change in biologic was associated with a reduction in disease-related complications. These findings suggest that the benefit of early endoscopy may relate to proactive disease monitoring and early treatment optimization. Further studies are needed to understand the generalizability of these findings, since only a minority of patients underwent follow-up endoscopy, and unmeasured confounders may have impacted the results observed.574_A Figure 1. Longitudinal rates of disease-related complications among patients with Crohn's disease who did or did not undergo lower endoscopy within 6 months of biologic therapy initiation.574_B Figure 2. Longitudinal rates of disease-related complications among patients with ulcerative colitis who did or did not undergo lower endoscopy within 6 months of biologic therapy initiation.
Supplementary Figure Legends 1-3 from Runx2 Transcriptional Activation of Indian Hedgehog and a Downstream Bone Metastatic Pathway in Breast Cancer Cells (2023)

Supplementary Figure Legends 1-3 from Runx2 Transcriptional Activation of Indian Hedgehog and a Downstream Bone Metastatic Pathway in Breast Cancer Cells
Prioritized contention resolution for random access networked control systems (2017)

Decentralized scheduling schemes offer low-cost, easy-to-install, and scalable resource allocation mechanisms suitable for networked control systems (NCS) with a large number of loops. However, contentions are unavoidable as collisions randomly occur in the communication link which lowers channel throughput and consequently compromises control performance. In this paper, we introduce a novel deterministic state-dependent prioritization policy to resolve the contention in a multi-loop NCS with random access medium. The proposed prioritization scheme can be realized within most of the shared medium technologies, e.g. ad-hoc and bus networks, aiming to decrease the collision probability. The priority for an individual control loop depends on the current local network-induced errors with a larger error leading to higher priority. We show stability of the described NCS under the proposed collision reduction mechanism according to stochastic Lyapunov-based techniques. It is demonstrated that the proposed state-dependent contention resolution is considerably effective in lowering the collision rate, though incapable of eliminating it due to the decentralized nature of the medium access control.
Transmission of Multiple HD-TV Signals Over a Wired/Wireless Line Millimeter-Wave Link With 60 GHz (2007)

For the first time to our knowledge, we demonstrate a transmission of 37 channels a 64 quadratic-amplitude-modulation (QAM)-coded high-definition television (HD-TV) signal over a fiber-optic millimeter-wave link. The 60-GHz upconverter/downconverter is implemented based on a Gunn oscillator and a nonradiative dielectric waveguide. For the remote delivery of 37 channels of HD-TV signal through 20 km of single-mode fiber, we use a laser diode operating at 1554 nm and an electroabsorption modulator. We evaluate the performances of HD-TV by measuring error vector magnitude and confirm transmission qualities by observing video contents coded with moving picture expert group-2 (MPEG-2).
Discriminative adaptive training with VTS and JUD (2009)

Adaptive training is a powerful approach for building speech recognition systems on non-homogeneous training data. Recently approaches based on predictive model-based compensation schemes, such as joint uncertainty decoding (JUD) and vector Taylor series (VTS), have been proposed. This paper reviews these model-based compensation schemes and relates them to factor-analysis style systems. Forms of maximum likelihood (ML) adaptive training with these approaches are described, based on both second-order optimisation schemes and expectation maximisation (EM). However, discriminative training is used in many state-of-the-art speech recognition. Hence, this paper proposes discriminative adaptive training with predictive model-compensation approaches for noise robust speech recognition. This training approach is applied to both JUD and VTS compensation with minimum phone error training. A large scale multi-environment training configuration is used and the systems evaluated on a range of in-car collected data tasks.
Advances in regrown all-semiconductor photonic crystal surface-emitting lasers (Conference Presentation) (2020)

We outline advances in the design, manufacture, and characterisation of a range of all-semiconductor photonic crystal surface emitting lasers (PCSELs). We initially discuss AlAs/GaAs based PC devices that enjoy improved index contrast compared to our previous GaInP/GaAs devices. We will also discuss all-semiconductor InGaAsP/InP based PC PCSELs operating at 1550 nm. For these high aspect ratio structures, the infill of the PC is a significant epitaxial challenge, and optimisation of MOVPE growth conditions such as growth temperature, rate of temperature increase, and V:III ratio, is demonstrated through TEM structural analysis. We will also discuss the optoelectronic properties of our devices.
Anaphylactoid reactions mediated by autoantibodies to cholesterol in miniature pigs. (1989)

Antoantibodies to cholesterol were detected and purified from normal (nonimmunized) pig serum. The antibodies were assayed by ELISA with crystalline cholesterol as an Ag and by C-dependent damage to cholesterol-laden liposomes. Intravenous injection of liposomes containing cholesterol into anesthetized animals caused decreased hemolytic complement titers, and induced a reaction consisting of transient neutropenia, thrombocytopenia, respiratory distress, cyanosis, pulmonary and systemic hypertension, and decreased cardiac output. Plasma levels of thromboxane B2 and 6-keto-prostaglandin F1 alpha increased 1300 and 200%, respectively, and leukocyte and platelet counts decreased by 36 and 38%, respectively. Injection of cholesterol-free liposomes did not induce the reaction. These results show that naturally occurring autoantibodies to cholesterol can initiate C activation and can be associated with anaphylactoid reaction to exogenously administered cholesterol in pigs.
ChemInform Abstract: Benzofused Heterocycles via Solid‐Phase SNAr Reactions (2001)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Performance characterization of components with group delay fluctuations (2003)

A variety of components in optical communication systems exhibit group delay fluctuations, which degrade the quality of transmitted signals. In this letter, we present a method to derive two independent figures-of-merit, based on the measured group delay, which accurately determine the system performance degradation caused by any type of group delay fluctuations in a component. These two parameters can be used to estimate the performance of concatenated components and are, therefore, suited for component specifications.
All over the map: An interobserver agreement study of tumor location based on the PI‐RADSv2 sector map (2018)

3 Technical Efficacy: Stage 2 J. MAGN. RESON. IMAGING 2018;48:482-490.
Expression of cyclooxygenase‐2 in chronic hepatitis B and the effects of anti‐viral therapy (2002)

Chronic hepatitis B is associated with elevated cyclooxygenase-2 levels in hepatocytes, and the over-expression of this enzyme does not reflect inflammatory activity. Up-regulation of cyclooxygenase-2 persists after successful anti-viral therapy.
Dietary effect of actinidin enzyme on growth, digestive enzymes activity, immunity, liver and intestine histology of juvenile sterlet sturgeon (Acipenser ruthenus) (2022)

This 56-day experiment examined the effect of actinidin added to commercial feed at concentrations of 0 g (control group C), 10 g (A1 group) and 20 g (A2 group) kg−1 diet on growth, feed utilization, intestinal morphology, digestive enzyme and immune response of juvenile sterlet (Acipenser ruthenus). A total of 270 juvenile sterlet with an average body weight of (46.21 ± 0.37 g) were divided into nine tanks (280 L for each), with 30 fish per tank (three replicates each) under a recirculating aquaculture system (RAS). At the end of the experiment, distinct differences in the mean body weights of the fish were observed, with the greatest differences (P < 0.05) noted in A1 group (112.88 ± 1.20 g). The mean body weight in group A2 (106.40 ± 1.37 g) was statistically significantly (P < 0.05) higher compared with control group C (87.80 ± 1.51 g). A significant decrease in the activity of alkaline phosphatase (ALP) was noted in the liver in A2 group (57.72 IU g−1) compared with the control group (127.38 IU g−1). In the hindgut part of the intestine, a significant increase in the activity of alkaline phosphatase (ALP) was noted in A2 group (179.06 IU g−1) compared with the control group (92.44 IU g−1). An analysis of the immunity response showed an increase in the lysozyme value in A1 and A2 groups. In these groups, the immunoglobulin (Ig) content increased statistically significantly compared with the control group. A significant increase was noted in the phagocytic killing activity in the pronephros of fish fed feed supplemented with actinidin. A higher metabolic activity of macrophages and a higher phagocytic killing activity were also noted in the spleen in A1 and A2 groups. Based on the experiment, it can be concluded that the actinidin has a positive effect on Sterlet growth and stimulates its immune system.
Defects at the Two-Dimensional Limit (2015)

ADVERTISEMENT RETURN TO ISSUEGuest CommentaryNEXTDefects at the Two-Dimensional LimitMark C. Hersam*View Author Information Department of Materials Science and Engineering, Department of Chemistry, and Department of Medicine, Northwestern University, 2220 Campus Drive, Evanston, Illinois 60208-3108, United States*E-mail: [email protected]Cite this: J. Phys. Chem. Lett. 2015, 6, 14, 2738–2739Publication Date (Web):July 16, 2015Publication History Published online16 July 2015Published inissue 16 July 2015https://pubs.acs.org/doi/10.1021/acs.jpclett.5b01218https://doi.org/10.1021/acs.jpclett.5b01218editorialACS PublicationsCopyright © 2015 American Chemical Society. This publication is available under these Terms of Use. Request reuse permissions This publication is free to access through this site. Learn MoreArticle Views2021Altmetric-Citations16LEARN 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 PDF (148 KB) Get e-AlertscloseSUBJECTS:Chemical vapor deposition,Defects,Defects in solids,Grain boundaries,Two dimensional materials Get e-Alerts
Photophysical and redox chemical NIR sensitivity enhancement in photorefractive polymer composites (2003)

Reversible holographic storage media are very useful for temporal storage of a buffer hologram, in associative retrieval, and photo-EMF detection. A particularly interesting application is optical coherence tomography (OCT), a noninvasive medical imaging method. Skin tissue or bone are highly scattering media, but nevertheless exhibit a transparence window in the NIR of the light spectrum (800-850 nm). Ballistic photons coming from a certain depth within the medium can be separated from diffusely scattered photons by holographic time gating enabling depth-resolved holographic imaging. Due to the extremely low number of ballistic in comparison with scattered photons, this technique requires holographic storage media with very high sensitivity in the NIR. The necessity to use NIR light excludes most commonly used reversible holographic media, such as Bakteriorhodopsin or azo-dye-containing systems to name only a few. By contrast, photorefractive (PR) materials, in particular amorphous organic PR systems, are highly promising for this application. However, their NIR performance is insufficient so far. In this paper, we introduce a novel organic PR material, a composite based on the poly(arylene vinylene) copolymer TPD-PPV (inset Fig. 2). Under normal conditions, the material exhibits a reasonably fast hologram recording speed in the NIR, much faster than more traditional (e.g. PVK-based) materials under identical conditions. With this material, we discovered that pre-illumination ("gating") improves the sensitivity by a factor of > 50. These effects are reversible, but can be partly permanent by redox-chemical doping. We demonstrate multiple-video-rate holographic recording under practical conditions, underlining the outstanding NIR-sensitivity of the new material.
Ischemic heart disease and magnesium. (1988)

Globally, among mortality and morbidity indices for man, ischemic heart disease (IHD) ranks at the top of the list. In the industrialized world, IHD is the leading killer and accounts for approximately 35% of all deaths each year. This most common cause of death results from insufficient coronary blood flow. IHD is a general term used to describe a pathophysiologic state in which cardiac output is inadequate as a consequence of coronary blood flow deficits brought about when the latter cannot deliver enough O2 to meet the needs of the myocardium. This review is concerned with the etiology of IHD, special forms of IHD such as angina pectoris and variant angina, as well as sudden death ischemia heart disease. The diverse conditions that cause IHD are discussed. Important etiologic factors such as the pathogenesis of atherosclerotic obstruction as well as localized coronary vasospasm are reviewed. Implications of dietary and metabolic alterations in electrolytes are a special focus of this view. Evidence implicating Mg2+-K+ and Mg2+-Ca2+ alterations in the pathogenesis of IHD is reviewed. Special attention is devoted to the role of Mg in vascular tone, coronary blood flow and in clinical management of IHD. It is concluded that judicious use of Mg salts in IHD could be expected to reduce myocardial oxygen demand and influence the myocardial oxygen supply/demand ratio in a favorable manner.
β2-Adrenergic and Several Other G Protein–Coupled Receptors in Human Atrial Membranes Activate Both Gsand Gi (2000)

Cardiac G protein-coupled receptors that couple to Galpha(s) and stimulate cAMP formation (eg, beta-adrenergic, histamine, serotonin, and glucagon receptors) play a key role in cardiac inotropy. Recent studies in rodent cardiac myocytes and transfected cells have revealed that one of these receptors, the beta(2)-adrenergic receptor (AR), also couples to the inhibitory G protein Galpha(i) (activation of which inhibits cAMP formation). If beta(2)ARs could be shown to couple to Galpha(i) in the human heart, it would have important ramifications, because levels of Galpha(i) increase with age and in failing human heart. Therefore, we investigated whether beta(2)ARs in the human heart activate Galpha(i). By photoaffinity labeling human atrial membranes with [(32)P]azidoanilido-GTP, followed by immunoprecipitation with antibodies specific for Galpha(i), we found that Galpha(i) is activated by stimulation of beta(2)ARs but not of beta(1)ARs. In addition, we found that other Galpha(s)-coupled receptors also couple to Galpha(i), including histamine, serotonin, and glucagon. When coupling of these receptors to Galpha(i) is disrupted by pertussis toxin, their ability to stimulate adenylyl cyclase is enhanced. These data provide the first evidence that beta(2)AR and many other Galpha(s)-coupled receptors in human atrium also couple to Galpha(i) and that abolishing the coupling of these receptors to Galpha(i) increases the receptor-mediated adenylyl cyclase activity.