gebhart/patrepeval huggingface dataset:
Aggressive treatment and survival outcomes in NUT midline carcinoma (NMC) of the head and neck (HN). (2014)

6057 Background: NMC is a rare subtype of squamous cancer defined by rearrangement of the NUT gene. NMC is typically found in the thorax, although ~20% of cases arise in the HN. NMC is almost uniformly fatal. We report on a cohort of patients (pts) with HN NMC to identify disease characteristics, treatment and outcomes. Methods: A clinical database was established using demographic and outcomes data available on all known cases of HN NMC obtained from the International NMC Registry (www.NMCRegistry.org). Clinicopathologic variables were assessed for 40 pts, the largest cohort of HN NMC studied to date. Outcome data from 31 patients treated from 1990-2013 were available for survival analyses. Results: HN NMC incidence has increased annually since 2010. Median age was 21.9 years (range 0.1-81.7), male: female (%) was 45:55, sinonasal origin was 50%, and the BRD4-NUT fusion was found in 82%. At diagnosis, 36% had regional node metastases and 15% had distant metastases. Initial treatment was upfront surgery (S) +/- adjuvant chemoradiation (CRT) or adjuvant radiation (RT) (48%), upfront RT +/- chemotherapy (C) (21%), or upfront C +/- S or RT (31%). Median progression-free survival (PFS) was 7.2 months (range 6.3-8.7). Median overall survival (OS) was 9.8 months (range 6.6-15.6). The 2-year PFS was 27% (95% CI, 9-44). The 2-year OS was 31% (95% CI, 13-50). Upfront S +/- post-operative CRT or RT, and S with negative margins were significant predictors of improved PFS and OS. Initial RT or C, type of C regimen, and NUT translocation type were not significantly associated with improved outcome. Conclusions: HN NMC portends a poor prognosis. Aggressive initial surgical resection with or without post-operative CRT or RT may be associated with enhanced survival. C or RT alone is inadequate, and the development of targeted therapies is now underway. PFS and OS by treatment. Treatment n 2-year PFS (95% CI) P value 2-year OS (95% CI) P value Initial upfront strategy S +/- CRT or RT 14* 55 (26-85) 0.01 55 (26-85) 0.01 RT +/- C 6 0 0 C +/- S or RT 8 0 14 (1-27) Extent of surgical resection None 13 0 0.03 8 (0-24) 0.03 Debulking 4 33 (0-88) 33 (0-88) Gross total 6 40 (0-84) 40 (0-84) Complete with negative margins 5 75 (32-100) 75 (32-100) * 12/14 had S then CRT, 1/14 had S then RT.
Design of Large Effective Apertures for Millimeter Wave Systems Using a Sparse Array of Subarrays (2019)

We investigate synthesis of a large effective aperture using a sparse array of subarrays. We employ a multi-objective optimization framework for placement of subarrays within a prescribed area dictated by form factor constraints, trading off the smaller beam width obtained by spacing out the subarrays against the grating and side lobes created by sparse placement. We assess the performance of our designs for the fundamental problem of bearing estimation for one or more sources, comparing performance against estimation-theoretic bounds. Our tiled architecture is motivated by recent progress in low-cost hardware realizations of moderately sized antenna arrays (which play the role of subarrays) in the millimeter wave band, and our numerical examples are based on 16-element (4 × 4) subarrays in the 60 GHz unlicensed band.
Reliable Detection of Somatic Mutations in Fine Needle Aspirates of Pancreatic Cancer With Next-generation Sequencing (2015)

FNA sequencing is feasible and subsets of patients may harbor actionable mutations that could potentially impact therapy. Moreover, preoperative FNA sequencing has the potential to influence the timing of surgery relative to systemic therapy. FNA sequencing opens the door to clinical trials in which patients undergo neoadjuvant or a surgery-first approach based on their tumor genetics with the goal of utilizing cancer genomics in the clinical management of pancreatic cancer.
Logan graphical analysis for quantitative evaluation of calcium channel activity in the pituitary gland using manganese-enhanced MRI (MEMRI) (2010)

Logan graphical analysis (LGA), common in PET for the quantitative analysis of neuroreceptors, was performed with MRI to investigate the influence of stimulants and inhibitors on the Calcium channel activity in animal brain tissue. In this study LGA is applied to data which was acquired by measuring the concentrations of Manganese (Mn) in tissue and blood over a certain period of time after Mn-injection. The Mn uptake between experiments was varied by the excitatory neurotransmitter Glutamate and the Calcium channel blocker Verapamil. The analysis successfully delivers information about the varying in- and outflow of Mn from blood to tissue.
Radiofrequency Heating of Painful Annular Disruptions (2005)

Radiofrequency heating of annular tears can lead to an improvement in the pain of internal disc disruption. The improvement gained by this treatment method is significantly better than that obtained from conservative management.
Accelerated lifetime testing methodology for lifetime estimation of Lithium-ion batteries used in augmented wind power plants (2013)

The development of lifetime estimation models for Lithium-ion battery cells, which are working under highly variable mission profiles characteristic for wind power plant applications, requires a lot of expenditures and time resources. Therefore, batteries have to be tested under accelerated lifetime ageing conditions. This paper presents a three-stage methodology used for accelerated lifetime testing of Lithiumion batteries. The results obtained at the end of the accelerated ageing process can be used for the parameterization of a performance-degradation lifetime model. In the proposed methodology both calendar and cycling lifetime tests are considered since both components are influencing the lifetime of Lithium-ion batteries. The methodology proposes also a lifetime model verification stage, where Lithium-ion battery cells are tested at normal operating conditions using an application specific mission profile.
Designing Liquid‐Infused Surfaces for Medical Applications: A Review (2018)

The development of new technologies is key to the continued improvement of medicine, relying on comprehensive materials design strategies that can integrate advanced therapeutic and diagnostic functions with a variety of surface properties such as selective adhesion, dynamic responsiveness, and optical/mechanical tunability. Liquid-infused surfaces have recently come to the forefront as a unique approach to surface coatings that can resist adhesion of a wide range of contaminants on medical devices. Furthermore, these surfaces are proving highly versatile in enabling the integration of established medical surface treatments alongside the antifouling capabilities, such as drug release or biomolecule organization. Here, the range of research being conducted on liquid-infused surfaces for medical applications is presented, from an understanding of the basics behind the interactions of physiological fluids, microbes, and mammalian cells with liquid layers to current applications of these materials in point-of-care diagnostics, medical tubing, instruments, implants, and tissue engineering. Throughout this exploration, the design parameters of liquid-infused surfaces and how they can be adapted and tuned to particular applications are discussed, while identifying how the range of controllable factors offered by liquid-infused surfaces can be used to enable completely new and dynamic approaches to materials and devices for human health.
Melanosis of the Bladder (2011)

No AccessJournal of UrologyPathology Page1 May 2011Melanosis of the Bladder Peter P. Stuhldreher, Lee E. Ponsky, and Gregory T. MacLennan Peter P. StuhldreherPeter P. Stuhldreher , Lee E. PonskyLee E. Ponsky , and Gregory T. MacLennanGregory T. MacLennan View All Author Informationhttps://doi.org/10.1016/j.juro.2011.02.028AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Melanosis of the Bladder." The Journal of Urology, 185(5), pp. 1908–1909 References 1 : Urinary bladder melanosis: case report of a rare mucosal lesion. Pathology2011; 43: 164. Google Scholar 2 : A unique case of urinary bladder simple melanosis: a case report and review of the literature. Diagn Pathol2009; 4: 24. Google Scholar 3 : Simple melanosis of the bladder: a rare entity. Int J Surg Pathol2010; 18: 547. Google Scholar 4 : High-grade transitional cell carcinoma and melanosis of urinary bladder: case report and review of the literature. Urology2009; 73: 928.e13. Google Scholar 5 : Multifocal malignant melanoma arising in vesicovaginal melanosis. Arch Pathol Lab Med1991; 115: 950. Google Scholar Departments of Urology and Pathology, University Hospitals of Cleveland, Case Western Reserve University, Cleveland, Ohio© 2011 by American Urological Association Education and Research, Inc.FiguresReferencesRelatedDetails Volume 185Issue 5May 2011Page: 1908-1909 Advertisement Copyright & Permissions© 2011 by American Urological Association Education and Research, Inc.Metrics Author Information Peter P. Stuhldreher More articles by this author Lee E. Ponsky More articles by this author Gregory T. MacLennan More articles by this author Expand All Advertisement PDF downloadLoading ...
Rapid molecular mass and structural determination of plant cell wall‐derived oligosaccharides using off‐line high‐performance anion‐exchange chromatography/mass spectrometry (1998)

A method has been developed for the rapid molecular mass determination and structural elucidation of mixtures of oligosaccharides derived from plant cell walls. The oligosaccharides were fractionated using gel permeation chromatography and ‘analytical’ high-performance anion-exchange chromatography (HPAEC), neutralized, dried and the mixtures of eluent salt and oligosaccharides were per-O-acetylated directly. The derivatized oligosaccharides were isolated by dissolution in dichloromethane and the salts were removed by aqueous partitioning. The per-O-acetylated oligosaccharides were analysed using electrospray (ES) and matrix-assisted laser desorption/ionization time of flight mass spectrometry (MS). Exploiting the fact that acid-catalysed per-O-acetylation of oligosaccharides can be achieved even under the extremely salty conditions that are found in post-column neutralized HPAEC fractions, and combining this derivatization step with off-line ESMS, allow rapid screening for molecular mass and thus yield information on the composition of the various oligosaccharides in these complex mixtures. Subsequent per-O-methylation of the per-O-acetylated, salt-free fractions and collision-induced dissociation tandem mass spectrometric analysis was used for additional sequence and branching determination of the oligosaccharides. © 1998 John Wiley & Sons, Ltd.
A novel therapeutic vaccination delays cART-resistant HIV-1 reservoir rebound in HIV-1 infected humanized mice (2016)

Abstract Highly active anti-retroviral therapy (HAART) prevents disease progression but does not eradiate HIV, and this therapy often does not fully restore HIV patients’ immune status. Thus, there remains an unmet need to develop new stratagies to “cure” (eradication or control of HIV-1 with no ART) individuals of HIV infection. Modulating host’s cellular immune response is a promising way to cure HIV infection. We have developed a prototype vaccine with a string of 5 highly conserved T cell epitope rich regions of HIV-1 Gag, Nef and Pol fused to a monoclonal antibody that bind the antigen presenting cell activating receptor CD40(aCD40.HIV5pep). Here we use the humanized mouse model to evaluate the therapeutic effect of the aCD40.HIV5pep vaccine to chronic HIV infection. We first screened a batch of novel TLR adjuvants which have the potential to enhance the immunogenicity of aCD40.HIV5pep in vivo and showed that when vaccinated with Poly I:C as adjuvants, aCD40.HIV5pep can induce human CD8+ CTL response in humanized mice. Interestingly, we found that Poly I:C treatment can activate cART-resistant HIV-1 reservoir in in the presence of cART in chronically infected humanized mice. Finally, we showed that Poly I:C plus aCD40.HIV5pep therapeutic vaccination significantly delayed HIV virus rebound in HIV-1 infected humanized mice after withdraw of cART treatment. Our proof-of-concept study in humanized mice has significant implication for the development of therapeutic vaccine to cue HIV infection.
Delphi: Predition-based Page Prefetching to Improve the Performance of Shared Virtual Memory Systems (2002)

Software distributed shared memory (SDSM) systems traditionally exhibit poor performance on applications with significant fine-grain or false sharing. Techniques such as relaxedconsistency models and multiple -writers protocols improve the performance of SDSM systems significantly, but their performance still lags that of hardware shared memory implementations. This paper describes Delphi, a system that borrows techniques from microarchitectural research on value prediction and applies them to software distributed shared memory. We run a small software predictor on each node in the Delphi system to predict which virtual pages will be needed in the future. We use the predictions to prefetch pages in order to reduce the number of accesses to invalid data and thereby reduce expensive network accesses. Experimental results show that Delphi is able to reduce the number of read misses to virtual pages by up to 62% on a set of well-known scientific benchmarks with minimal runtime overhead in extra processing and memory requirements. This translates into a 14% reduction in execution time over a comparable base system that does not employ prediction techniques.
Experimental study on hundreds of MW at X-band for relativistic backward wave oscillator (RBWO) (2009)

BWO-circuit was designed to generate hundreds MW electromagnetic wave on X-band in this study. A RF coupler is designed and fabricated to measure the power of an electromagnetic wave which is generated in the slow wave structure of a relativistic backward wave oscillator (RBWO) before this wave is radiated through an antenna. To pickup about -63 dB of total output power and avoid a RF breakdown in this coupler, a 2 mm times 5 mm slot is made in a cylindrical waveguide. This coupler is installed before the radiation antenna and the measured value is compared with the power which is measured after the radiation. In the end, the radiation pattern was identified by using of fluorescent lamps.
Substituted 7-Amino-5-thio-thiazolo[4,5-d]pyrimidines as Potent and Selective Antagonists of the Fractalkine Receptor (CX3CR1) (2013)

We have developed two parallel series, A and B, of CX3CR1 antagonists for the treatment of multiple sclerosis. By modifying the substituents on the 7-amino-5-thio-thiazolo[4,5-d]pyrimidine core structure, we were able to achieve compounds with high selectivity for CX3CR1 over the closely related CXCR2 receptor. The structure-activity relationships showed that a leucinol moiety attached to the core-structure in the 7-position together with α-methyl branched benzyl derivatives in the 5-position displayed promising affinity, and selectivity as well as physicochemical properties, as exemplified by compounds 18a and 24h. We show the preparation of the first potent and selective orally available CX3CR1 antagonists.
Data from MicroRNA Polymorphisms and Risk of Colorectal Cancer (2023)

&lt;div&gt;Abstract&lt;p&gt;&lt;b&gt;Background:&lt;/b&gt; miRNAs act as post-transcriptional regulators of gene expression. Genetic variation in miRNA-encoding sequences or their corresponding binding sites may affect the fidelity of the miRNA–mRNA interaction and subsequently alter the risk of cancer development.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Methods:&lt;/b&gt; This study expanded the search for miRNA-related polymorphisms contributing to the etiology of colorectal cancer across the genome using a novel platform, the Axiom miRNA Target Site Genotyping Array (237,858 markers). After quality control, the study included 596 cases and 429 controls from the Molecular Epidemiology of Colorectal Cancer study, a population-based case–control study of colorectal cancer in northern Israel. The association between each marker and colorectal cancer status was examined assuming a log-additive genetic model using logistic regression adjusted for sex, age, and two principal components.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Results:&lt;/b&gt; Twenty-three markers had &lt;i&gt;P&lt;/i&gt; values less than 5.0E−04, and the most statistically significant association involved rs2985 (chr6:34845648; intronic of &lt;i&gt;UHRF1BP1&lt;/i&gt;; OR = 0.66; &lt;i&gt;P&lt;/i&gt; = 3.7E−05). Furthermore, this study replicated a previously published risk locus, rs1051690, in the 3′-untranslated region of the insulin receptor gene &lt;i&gt;INSR&lt;/i&gt; (OR = 1.38; &lt;i&gt;P&lt;/i&gt; = 0.03), with strong evidence of differences in INSR gene expression by genotype.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Conclusions:&lt;/b&gt; This study is the first to examine associations between genetic variation in miRNA target sites and colorectal cancer using a genome-wide approach. Functional studies to identify allele-specific effects on miRNA binding are needed to confirm the regulatory capacity of genetic variation to influence risk of colorectal cancer.&lt;/p&gt;&lt;p&gt;&lt;b&gt;Impact:&lt;/b&gt; This study demonstrates the potential for an miRNA-targeted genome-wide association study to identify candidate susceptibility loci and prioritize them for functional characterization. &lt;i&gt;Cancer Epidemiol Biomarkers Prev; 24(1); 65–72. ©2014 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
Very large temperature-induced absorptive loss in high Te-containing chalcogenide fibers (2000)

The change in the absorption loss relative to room temperature of the infrared (IR)-transmitting Ge/sub 15/As/sub 35/Se/sub (50-x)/Te/sub x/ glass fibers in the temperature range of -110/spl deg/C/spl les/T/spl les/110/spl deg/C was investigated. The attenuation increased significantly at T/spl ges/40/spl deg/C. This is mainly attributed to thermally activated free carriers associated with the semimetallic character of the Te atom. For /spl lambda//spl les/4.2 /spl mu/m, the loss due to electronic and free-carrier absorption was strongly affected by temperature. In the wavelength region of 5-11 /spl mu/m, the loss was mainly due to free-carrier absorption. Beyond /spl lambda//spl ges/11 /spl mu/m, multiphonon absorption dominated the loss spectrum at T/spl les/60/spl deg/C while free-carrier absorption contributed mainly to the total loss at T/spl ges/80/spl deg/C.
Mixed-signal implementation of differential decoding using binary message passing algorithms (2015)

This paper presents the mixed-signal circuit implementation of reduced complexity algorithms for decoding low-density parity check (LDPC) codes. Based on modified differential decoding using binary message passing (MDD-BMP), binary addition using discrete-time digital circuits is replaced by continuous-time analog-current summation. Potential degradation due to the mismatch between current sources, P/N strength mismatch and inverter-threshold mismatch is considered in behavioural simulation and shown to be tolerable. Area estimates suggest a reduction from 0.27 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> to 0.11 mm <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</sup> for the FG(273, 191) code. Finally, transistor level simulation of the FG(273, 191) code using TSMC 65 nm technology shows an efficiency of 0.56 pJ/bit.
Challenges and Opportunities in Numerical Weather Prediction (2023)

© 2023 American Meteorological Society. For information regarding reuse of this content and general copyright information, consult the AMS Copyright Policy (www.ametsoc.org/PUBSReuseLicenses). Corresponding author: Jerald A. Brotzge, jerald.brotzge@wku.edu
Comparing offline decoding performance in physiologically defined neuronal classes (2016)

These findings suggest that the utility of neural ensembles in brain machine interfaces may be predicted from their spike waveform widths.
All Human Genes of the Uteroglobin Family Are Localized on Chromosome 11q12.2 and Form a Dense Cluster (2000)

Rabbit uteroglobin is the founder member of a family of mammalian proteins that has expanded to more than 20 members within the last few years. All members are small, secretory, rarely glycosylated dimeric proteins with unclear physiological functions and are mainly expressed in mucosal tissues. A phylogenetic analysis shows that the family can be grouped into five subfamilies, A to E. Subfamily A contains rabbit uteroglobin and its orthologues from various species; most of these have been described to form antiparallel homodimers via two intermolecular disulfide bonds. All other subfamily members contain a third conserved cysteine and, from existing biochemical data, it can be predicted that a member of subfamily B or C will likely form heterodimers with a partner from subfamily E or D, respectively. Besides the mentioned cysteines, only one central lysine is conserved in all family members. In the known uteroglobin structures, this lysine forms an exposed salt bridge with an aspartate side chain, which is conserved in almost all sequences. Using radiation hybrid mapping and P1 clone analysis and utilizing data from the human genome project, we show that all known five human family members (Clara cell 10-kDa protein, lipophilins A and B, lacryglobin, mammaglobin) and a new member, we call lymphoglobin, are localized on chromosome 11q12.2 in a dense cluster spanning not more than approximately 400 kbp.
Statistical mechanical foundation of the peridynamic nonlocal continuum theory: Energy and momentum conservation laws (2011)

The purpose of this paper is to derive the energy and momentum conservation laws of the peridynamic nonlocal continuum theory using the principles of classical statistical mechanics. The peridynamic laws allow the consideration of discontinuous motion, or deformation, by relying on integral operators. These operators sum forces and power expenditures separated by a finite distance and so represent nonlocal interaction. The integral operators replace the differential divergence operators conventionally used, thereby obviating special treatment at points of discontinuity. The derivation presented employs a general multibody interatomic potential, avoiding the standard assumption of a pairwise decomposition. The integral operators are also expressed in terms of a stress tensor and heat flux vector under the assumption that these fields are differentiable, demonstrating that the classical continuum energy and momentum conservation laws are consequences of the more general peridynamic laws. An important conclusion is that nonlocal interaction is intrinsic to continuum conservation laws when derived using the principles of statistical mechanics.