gebhart/patrepeval huggingface dataset:
Mimicry of the a determinant of hepatitis B surface antigen by an antiidiotypic antibody. I. Evaluation in hepatitis B surface antigen responder and nonresponder strains. (1993)

B and T cell responses of several strains of mice, immunized with a monoclonal antiidiotype (anti-Id) that mimics the a determinant of hepatitis B surface antigen (HBsAg), were studied to determine if the immune response to the anti-Id was regulated by H-2-linked immune response genes as has been previously observed for HBsAg. We report that immunization with anti-Id could elicit HBsAg-specific antibodies in mice of the H-2d,q, or f haplotype and in an outbred wild mouse strain (Mus spretus), thus circumventing the H-2 haplotype restriction pattern observed when immunizing with HBsAg in H-2f mice. Purified lymph node T cells from mice of the H-2d or q haplotype and M. spretus that were primed in vivo with HBsAg or anti-Id could be stimulated in vitro with either HBsAg or anti-Id but not with an irrelevant antibody of the same subclass as the anti-Id. However, purified lymph node T cells from H-2f mice that were primed in vivo with the anti-Id could only be stimulated in vitro with anti-Id. No in vitro stimulation whatsoever was observed in H-2f mice immunized with HBsAg. The effect of processing and presentation of the anti-Id by antigen-presenting cells (APC) was studied in mice of the H-2d haplotype. Stimulation of purified lymph node T cells by HBsAg and anti-Id was shown to be strictly dependent on APC and restricted by major histocompatibility complex class II antigens at the I-A locus. Treatment of APC with paraformaldehyde or chloroquine abrogated the T cell response to all antigens except for a nine-amino acid synthetic peptide representing a partial analogue of the group a determinant of HBsAg S(139-147). The significance of these results is discussed in the context of understanding the mechanism of mimicry elicited by the anti-Id.
The origin of soft vibrational modes of alkanes adsorbed on Cu: An experimental and theoretical investigation (2003)

A detailed experimental and theoretical analysis of the metal-induced softening of C–H vibrational modes has been carried out for highly symmetric cyclic saturated hydrocarbons and short chain linear saturated hydrocarbons. The softening of the C–H stretching modes of cyclopropane, cyclohexane, as well as propane and its deuterated analogs adsorbed on Cu(111) was examined experimentally using reflection absorption infrared spectroscopy and theoretically using ab initio Hartree–Fock and correlated calculations. The investigation showed that molecules are present in two bound orientations for both cyclopropane and propane. The data further reveal that significant mode softening is associated with only some (not all) of the bound states of these molecules. Soft modes with significant intensity were found to be present for cyclohexane and propane bound on Cu(111) in a planar orientation. A theoretical analysis of the various adsorbed forms of these three types of molecules confirms the surprising experimental observation that cyclopropane has no soft mode that attends its binding on Cu(111). The calculations show that the occurrence of soft modes in the vibrational spectra of cyclohexane (where a broad, intense soft C–H mode exists) and propane (where a weaker, more narrow linewidth soft mode is found) correlates with a small, but still significant degree of charge transfer that governs the alkane–metal interaction. No evidence is found to support a previously proposed theory of a weak hydrogen-bonding interaction that mediates the metal/H–C interaction.
Stereochemistry of the intramolecular enamine/enal (enone) cycloaddition reaction and subsequent transformations (1986)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTStereochemistry of the intramolecular enamine/enal (enone) cycloaddition reaction and subsequent transformationsStuart L. Schreiber, Harold V. Meyers, and Kenneth B. WibergCite this: J. Am. Chem. Soc. 1986, 108, 26, 8274–8277Publication Date (Print):December 1, 1986Publication History Published online1 May 2002Published inissue 1 December 1986https://pubs.acs.org/doi/10.1021/ja00286a034https://doi.org/10.1021/ja00286a034research-articleACS PublicationsRequest reuse permissionsArticle Views1948Altmetric-Citations58LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information Get e-Alerts
Molecular Imaging of β-Amyloid Plaques with Near-Infrared Boron Dipyrromethane (BODIPY)-Based Fluorescent Probes (2013)

The formation of β-amyloid (Aβ) plaques is a critical neurodegenerative change in Alzheimer disease (AD). We designed and synthesized novel boron dipyrromethane (BODIPY)-based Aβ probes (BAPs) and evaluated their utility for near-infrared fluorescence imaging of Aβ plaques in the brain. In binding experiments in vitro, BAPs showed high affinity for synthetic Aβ aggregates (Kd = 18-149 nM). Furthermore, BAPs clearly stained Aβ plaques in sections of Tg2576 mice. In mouse brain tissue, BAPs showed sufficient uptake for optical imaging. In addition, ex vivo fluorescent staining of brain sections from Tg2576 mice after the injection of BAP-2 showed selective binding of Aβ plaques with little nonspecific binding. BAPs may be useful as a near-infrared fluorescent probe for imaging Aβ plaques.
High temporal resolution breathheld 3D FIESTA CINE imaging: Validation of ventricular function in patients with chronic myocardial infarction (2007)

High temporal resolution 3D CINE SSFP imaging of the whole heart can be obtained in a single breathhold and yield ventricular function measurements similar to 2D CINE methods.
Improvement of AlGaN∕GaN high electron mobility transistor structures by in situ deposition of a Si3N4 surface layer (2005)

We have made AlGaN∕GaN high electron mobility transistors with a Si3N4 passivation layer that was deposited in situ in our metal-organic chemical-vapor deposition reactor in the same growth sequence as the rest of the layer stack. The Si3N4 is shown to be of high quality and stoichiometric in composition. It reduces the relaxation, cracking, and surface roughness of the AlGaN layer. It also neutralizes the charges at the top AlGaN interface, which leads to a higher two-dimensional electron-gas density. Moreover, it protects the surface during processing and improves the Ohmic source and drain contacts. This leads to devices with greatly improved characteristics.
PECVD Silicon Nitride Passivation of AlGaN/GaN Heterostructures (2013)

This paper investigates the optimization of PECVD <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$\alpha$</tex></formula> -SiN-passivated AlGaN/GaN heterostructures to achieve higher 2-D electron gas (2DEG) densities and lower the electric fields residing in the AlGaN barrier layer. A model is developed to calculate the 2DEG density of passivated AlGaN/GaN heterostructures taking into account the piezoelectric and spontaneous polarization effects together with strain relaxation. The model is validated with 2DEG measurements and data from the literature. The optimized passivation layer thickness is calculated for different Al mole fractions and AlGaN thicknesses to achieve targeted 2DEG densities and polarization electric field. Fabrication of samples with different <formula formulatype="inline" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink"><tex Notation="TeX">$\alpha$</tex></formula> -SiN thicknesses and effects of postannealing on 2DEG density are reported. The model accurately predicts the experimental results.
CEREALS - Cost-Effective REgion-based Active Learning for Semantic Segmentation (2018)

State of the art methods for semantic image segmentation are trained in a supervised fashion using a large corpus of fully labeled training images. However, gathering such a corpus is expensive, due to human annotation effort, in contrast to gathering unlabeled data. We propose an active learning-based strategy, called CEREALS, in which a human only has to hand-label a few, automatically selected, regions within an unlabeled image corpus. This minimizes human annotation effort while maximizing the performance of a semantic image segmentation method. The automatic selection procedure is achieved by: a) using a suitable information measure combined with an estimate about human annotation effort, which is inferred from a learned cost model, and b) exploiting the spatial coherency of an image. The performance of CEREALS is demonstrated on Cityscapes, where we are able to reduce the annotation effort to 17%, while keeping 95% of the mean Intersection over Union (mIoU) of a model that was trained with the fully annotated training set of Cityscapes.
Intravesically administered antisense oligonucleotides targeting heat‐shock protein‐27 inhibit the growth of non‐muscle‐invasive bladder cancer (2008)

Intravesical OGX-427 instillation therapy showed promising antitumour activity and minimal toxicity in an orthotopic mouse model of high-grade bladder cancer. These findings provide pre-clinical proof-of-principle for the use of ASO as intravesical agents for non-muscle-invasive bladder cancer, and warrant further evaluation of efficacy and safety in early-phase clinical trials.
A low complexity stopping criterion for reducing power consumption in turbo decoders (2011)

International audience
Foot force production and asymmetries in elite rowers (2014)

The rowing stroke is a leg-driven action, in which forces developed by the lower limbs provide a large proportion of power delivered to the oars. In terms of both performance and injury, it is important to initiate each stroke with powerful and symmetrical loading of the foot stretchers. The aims of this study were to assess the reliability of foot force measured by footplates developed for the Concept2 indoor ergometer and to examine the magnitude and symmetry of bilateral foot forces in different groups of rowers. Five heavyweight female scullers, six heavyweight female sweep rowers, and six lightweight male (LWM) rowers performed an incremental step test on the Concept2 ergometer. Vertical, horizontal, and resultant forces were recorded bilaterally, and asymmetries were quantified using the absolute symmetry index. Foot force was measured with high consistency (coefficient of multiple determination > 0.976 +/- 0.010). Relative resultant, vertical, and horizontal forces were largest in LWM rowers, whilst average foot forces significantly increased across stroke rates for all three groups of rowers. Asymmetries ranged from 5.3% for average resultant force to 28.9% for timing of peak vertical force. Asymmetries were not sensitive to stroke rate or rowing group, however, large inter-subject variability in asymmetries was evident.
Abstract 11592: Real-World Performance of Heartlogic Index in Subjects With CRT and ICD Devices (2022)

Introduction: The HeartLogic heart failure (HF) diagnostic was developed from data in subjects implanted with CRT-D devices. Diagnostic performance in subjects with ICDs (without CRT) is less well characterized. Objective: Compare HeartLogic performance in ICD and CRT subgroups. Methods: Data from US post-market HeartLogic CRT/ICD devices were directly linked with Medicare claims and subjects with continuous Medicare Part A&amp;B fee-for-service coverage were analyzed. Claims HF events (HFE) were defined using primary HF diagnosis codes (DRG 291-3, I50.xx) and included acute inpatient events, and outpatient events with IV diuretic therapy. Baseline characteristics included patient demographics, implant data, and claims chronic conditions flags (CCFs). Diagnostic performance was defined as the sensitivity to detect HFEs and the false-positive alert rate (FPR), from which a modified receiver operator characteristic (ROC) curve was generated. Continuous variables were expressed as mean±SD and categorical variables as proportions. Two-sided 95% confidence intervals (CI) were calculated for sensitivity (binomial distribution) and FPR (negative binomial model). Results: Out of 4190 subjects,1567 linked subjects were included in the analysis with an average follow-up of 1.4±0.5 years. The CRT group (N=1078, 69%) was more likely to be Caucasian (88% vs 82%), less likely to have de novo devices (62% vs 80%), more likely to have CCFs of AF (43% vs 33%) and congestive HF (89% vs 75%), and a HF hospitalization in the year prior to implant (23% vs 16%). CRT and ICD groups provided 296 and 139 HFEs for performance evaluation. HeartLogic ROCs were similar in both groups with no difference in the nominal sensitivity (83% [CI: 78, 87] vs 80% [72, 86%], p =0.41) or FPR (1.386 [CI: 1.337,1.511] vs 1.322 [1.238,1.488], p =0.41). Conclusions: HeartLogic diagnostic performance determined using real-world claims data was not different in subjects implanted with ICDs and CRT-Ds.
Improved sinusoidal gating with balanced InGaAs/InP Single Photon Avalanche Diodes (2013)

We report balanced InGaAs/InP single photon avalanche diodes (SPADs) operated in sinusoidal gating mode with a tunable phase shifter to reduce common mode noise. This technique enables detection of small avalanche pulses, which results in reduced afterpulsing. For laser repletion rate of 20 MHz at 240 K, the dark count rate for photon detection efficiency of 10% is 8.9 kHz.
Fabrication of Bi2Sr2Ca2Cu,0, Thin Film Grain Boundary Junctions (1995)

As-grown high-quality superconducting thin films of the Bi,Sr,Ca.&~O, were prepared by RF magnetron sputtering with a regulated shuttering technique. 2223 phase films with a 2201 phase buffer layer were deposited on MgO (100) substrates under rigorous control of the bismuth content and valence. -As a source of bismuth, Bi (metal) and Bi,Sr,CuO, targets were used. At the preparation no post-treatment steps were performed. The zero resistivity critical temperature of the as-grown film was 107.3 K. Using these films, BizSr,~Cu,O, step-edge and bicrystal Josephson junctions were prepared. At step-edge junctions, Josephson current was observed up to 41 K, below this temperature I-V curves were RSJ-like. On the other hand, bicrystal junctions were fabricated on the bicrystal MgO (100) substrate With a misorientation angle of 24'. Typical RSJ model I-V curves were observed up to 60 K. The modulation depth goes up to 90 %. IcRn values were about 1.0 mV at 4.2 K.
Bacterial virulence phenotypes of Escherichia coli and host susceptibility determine risk for urinary tract infections (2017)

Urinary tract infections (UTIs) are caused by uropathogenic <i>Escherichia coli</i> (UPEC) strains. In contrast to many enteric <i>E. coli</i> pathogroups, no genetic signature has been identified for UPEC strains. We conducted a high-resolution comparative genomic study using <i>E. coli</i> isolates collected from the urine of women suffering from frequent recurrent UTIs. These isolates were genetically diverse and varied in their urovirulence, that is, their ability to infect the bladder in a mouse model of cystitis. We found no set of genes, including previously defined putative urovirulence factors (PUFs), that were predictive of urovirulence. In addition, in some patients, the <i>E. coli</i> strain causing a recurrent UTI had fewer PUFs than the supplanted strain. In competitive experimental infections in mice, the supplanting strain was more efficient at colonizing the mouse bladder than the supplanted strain. Despite the lack of a clear genomic signature for urovirulence, comparative transcriptomic and phenotypic analyses revealed that the expression of key conserved functions during culture, such as motility and metabolism, could be used to predict subsequent colonization of the mouse bladder. Together, our findings suggest that UTI risk and outcome may be determined by complex interactions between host susceptibility and the urovirulence potential of diverse bacterial strains.
Testing for anti-p53 antibodies increases the diagnostic sensitivity of conventional tumor markers (2006)

The aim of this study was to determine whether anti-p53 antibodies are of clinical significance as a serological marker in the diagnosis and monitoring of malignancies. A total of 1874 serum samples from 591 patients with various types of cancer, esophageal, gastric, colorectal, pancreatic, hepatocellular, breast, and urogenital cancer, and 436 control individuals were analyzed by immunoblot for antibodies against p53. The anti-p53 antibody test was correlated with expression of conventional tumor markers, survival and the clinicopathological features of malignant disease. Anti-p53 antibodies were found in 23.4% (138/591) of the sera of patients with malignant disease (range 11.5-34%). The detection of anti-p53 serum antibodies had a specificity of 100% for malignancy (p<0.0001). The overall sensitivity of measuring established tumor markers was 62.9% (372/591). The elevation of conventional tumor markers and the presence of anti-p53 antibodies in the sera of patients with malignant disease turned out to be an independent variable (p<0.05). Combination of established tumor markers with the anti-p53 antibody test led to an increase in diagnostic sensitivity of 8% (49/591) (p<0.01). Thus, the independence of anti-p53 antibodies from established tumor markers allows the serological detection of additional tumor patients. Kaplan-Meier analysis revealed a trend toward a poorer prognosis in hepatocellular carcinoma and breast cancer patients who were anti-p53 serum positive. In conclusion, testing for anti-p53 antibodies can increase the diagnostic sensitivity when used in combination with measurement of conventional tumor markers. This increase is achieved without a parallel decrease in specificity.
OMIC-08. COMPOUND HETEROZYGOSITY OF POLE AND PMS2 LEADS TO CMMRD-LIKE PHENOTYPE- “POLYNCH” SYNDROME (2021)

Abstract Mono-allelic germline pathogenic variants (PV) in one of the mismatch repair (MMR) system genes cause Lynch syndrome, associated mainly with colon and endometrial cancer in adults. Germline PVs in DNA polymerase epsilon (POLE) are associated with a dominantly inherited syndrome which confers risk for polyposis and colon cancer. Brain tumors have been described as part of Lynch syndrome and POLE associated syndrome, mostly in adults. Constitutional mismatch repair deficiency (CMMRd) is caused by bi-allelic mutations in the MMR genes, associated with multiple café au lait macules (CAMs) and high incidence of pediatric cancer, including brain tumors. Both MMRD and POLE associated tumors have high tumor mutation burden (TMB), however, microsatellite status is usually unstable in MMR tumors, and stable in POLE. Germline POLE and CMMRd tumors have different mutational signatures, as is signature of MMR tumors with secondary somatic POLE. We describe a 4.5 y/o male who presented with a grossly metastatic SHH-activated, TP53-wildtype desmoplastic medulloblastoma. Physical examination was noted for CAMs. Family history was positive for a heterozygous POLE variant with variable clinical manifestations. Immunohistochemistry of the tumor showed loss of nuclear expression of the MMR gene PMS2, specifically in tumor cells. Analysis showed exceptionally high TMB (up to 276 Mut/Mb) and both the MMR and the POLE signatures. Germline analysis detected the familial POLE variant as well as a de novo heterozygous PMS2 PV. The phenotype of the patient together with the tumor’s features, led us to classify this case as a CMMRd-like. The patient had a partial response to intensive chemotherapy and is currently on immunotherapy without radiation. Collectively, our data suggest that heterozygous simultaneous germline mutations in MMR and polymerase genes can lead to novel “POLYNCH syndrome” that manifests with an ultra-hypermutant aggressive tumor and requires appropriate treatment and surveillance.
A Stereoselective Synthesis of BMS-262084, an Azetidinone-Based Tryptase Inhibitor (2002)

A highly stereoselective synthesis of the novel tryptase inhibitor BMS-262084 was developed. Key to this synthesis was the discovery and development of a highly diastereoselective demethoxycarbonylation of diester 12 to form the trans-azetidinone 13. BMS-262084 was prepared in 10 steps from D-ornithine in 30% overall yield.
Activation during ventricular defibrillation in open-chest dogs. Evidence of complete cessation and regeneration of ventricular fibrillation after unsuccessful shocks. (1986)

To test the hypothesis that a defibrillation shock is unsuccessful because it fails to annihilate activation fronts within a critical mass of myocardium, we recorded epicardial and transmural activation in 11 open-chest dogs during electrically induced ventricular fibrillation (VF). Shocks of 1-30 J were delivered through defibrillation electrodes on the left ventricular apex and right atrium. Simultaneous recordings were made from septal, intramural, and epicardial electrodes in various combinations. Immediately after all 104 unsuccessful and 116 successful defibrillation shocks, an isoelectric interval much longer than that observed during preshock VF occurred. During this time no epicardial, septal, or intramural activations were observed. This isoelectric window averaged 64 +/- 22 ms after unsuccessful defibrillation and 339 +/- 292 ms after successful defibrillation (P less than 0.02). After the isoelectric window of unsuccessful shocks, earliest activation was recorded from the base of the ventricles, which was the area farthest from the apical defibrillation electrode. Activation was synchronized for one or two cycles following unsuccessful shocks, after which VF regenerated. Thus, after both successful and unsuccessful defibrillation with epicardial shocks of greater than or equal to 1 J, an isoelectric window occurs during which no activation fronts are present; the postshock isoelectric window is shorter for unsuccessful than for successful defibrillation; unsuccessful shocks transiently synchronize activation before fibrillation regenerates; activation leading to the regeneration of VF after the isoelectric window for unsuccessful shocks originates in areas away from the defibrillation electrodes. The isoelectric window does not support the hypothesis that defibrillation fails solely because activation fronts are not halted within a critical mass of myocardium. Rather, unsuccessful epicardial shocks of greater than or equal to 1 J halt all activation fronts after which VF regenerates.
Drug Discovery Accelerated by Computational Methods (2013)

Presented on April 30, 2013 from 11:00 am to 12:00 pm in the Klaus Advanced Computing Building, Room 1116E.