gebhart/patrepeval huggingface dataset:
450 mm carrier interoperability effects on particle Generation (2014)

The semiconductor industry continues to scale up silicon wafer size in an effort to drive lower costs associated with high volume manufacturing. This effort has begun in earnest at the SUNY College of Nanoscale Science and Engineering, driven by the Global 450 mm Consortium (G450C). The focus of the G450C is to be a public-private partnership (CNSE, Intel, TSMC, Samsung, IBM and GLOBALFOUNDRIES) that develops cost-effective test wafer fabrication infrastructure, equipment prototypes and high-volume tools to enable a coordinated industry transition to the next silicon wafer size. This includes discovering and remedying challenges in carrier efficacy in maintaining wafer cleanliness through wafer and carrier testing and measurement within the G450C equipment and fab infrastructure. The authors will discuss the current status of 450 mm carrier, wafer, and equipment learning and improvements towards reducing or eliminating the defectivity contributions of carrier components and carrier/tool interoperability, including the contribution of automated material handling systems (AMHS).
Comparisons of Ion Pair Acidities of Some Acidic Carbon Acids1 (2000)

ADVERTISEMENT RETURN TO ISSUEPREVNoteNEXTComparisons of Ion Pair Acidities of Some Acidic Carbon Acids1Antonio Facchetti, Yeong-Joon Kim, and Andrew StreitwieserView Author Information Department of Chemistry, University of California, Berkeley, California 94720-1460 Cite this: J. Org. Chem. 2000, 65, 13, 4195–4197Publication Date (Web):June 7, 2000Publication History Received13 January 2000Published online7 June 2000Published inissue 1 June 2000https://pubs.acs.org/doi/10.1021/jo000054rhttps://doi.org/10.1021/jo000054rbrief-reportACS PublicationsCopyright © 2000 American Chemical SocietyRequest reuse permissionsArticle Views219Altmetric-Citations11LEARN 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 SUBJECTS:Acidity,Cesium,Ions,Lithium,Salts Get e-Alerts
The Arabidopsis thaliana mobilome and its impact at the species level (2016)

Transposable elements (TEs) are powerful motors of genome evolution yet a comprehensive assessment of recent transposition activity at the species level is lacking for most organisms. Here, using genome sequencing data for 211 Arabidopsis thaliana accessions taken from across the globe, we identify thousands of recent transposition events involving half of the 326 TE families annotated in this plant species. We further show that the composition and activity of the 'mobilome' vary extensively between accessions in relation to climate and genetic factors. Moreover, TEs insert equally throughout the genome and are rapidly purged by natural selection from gene-rich regions because they frequently affect genes, in multiple ways. Remarkably, loci controlling adaptive responses to the environment are the most frequent transposition targets observed. These findings demonstrate the pervasive, species-wide impact that a rich mobilome can have and the importance of transposition as a recurrent generator of large-effect alleles.
Unsupervised Analysis of Transcriptomics in Bacterial Sepsis Across Multiple Datasets Reveals Three Robust Clusters (2018)

The three sepsis subtypes may represent a unifying framework for understanding the molecular heterogeneity of the sepsis syndrome. Further study could potentially enable a precision medicine approach of matching novel immunomodulatory therapies with septic patients most likely to benefit.
Proteome of theCaenorhabditis elegansOocyte (2011)

Oocytes were purified from the temperature-sensitive fertilization-defective fer-1(b232ts) mutant of the nematode Caenorhabditis elegans and used for comprehensive mass spectrometric analysis. Using stringent criteria, 1165 C. elegans proteins were identified; at lower stringency, an additional 288 proteins were identified. We validate the high degree of sample purity and evaluate several possible sources of bias in the proteomic data. We compare the classes of proteins identified in the current oocyte proteome with protein classes identified in our previously determined oocyte transcriptome. The oocyte proteome appears enriched in proteins likely to be needed immediately upon fertilization, whereas the transcriptome appears enriched in molecules and processes needed later in embryogenesis. The current study provides fundamental background information for future more detailed studies of oocyte biology.
THE LONG-TERM SURVIVAL RESULTS OF TKA IN PATIENTS UNDER THE AGE OF 60. (2009)

Purpose: The aim of this study is to compare the long-term survival results of TKA in patients under the age of 60, using revision surgery and poor functional outcome as the end-points. Method: From our knee database we identified a cohort of 60 total knee replacements that had been performed over 15 years previously. We identified those who had died, those who had been revised and established the Oxford Knee Score (OKS) for all those still surviving. Results Using the following endpoint criteria the cumulative 15-year survival was (A) revision surgery alone = 78% (CI 12), (B) revision surgery or an OKS less than or equal to 24 (50% of total OKS) = 63% (CI 13), and (C) revision surgery or moderate pain = 48% (CI 14). Conclusion The functional survival of TKA in patients under the age of 60 decreases in the second decade following implantation with a significant number of prostheses failing the patient due to knee pain
Magnetospinography: Instruments and Application to Functional Imaging of Spinal Cords (2013)

Magnetospinography (MSG) is one of the most promising techniques to detect the nerve activity of spinal cords thanks to its noninvasiveness and high spatial/temporal resolutions. Multichannel superconducting quantum interference device (SQUID) MSG measurement systems optimized for supine subjects have been developed previously and employed in clinical applications in hospitals. Magnetic source analyses of MSG data based on spatial filter techniques reveal the transition of reconstructed current distributions adjacent to the spinal cord. The propagation of the neural signals was noninvasively visualized. The MSG measurements provide significant diagnostic information such as irregularities in the transitions of the reconstructed current distribution and/or considerable decreases in the current intensity at the lesion. Such functional imaging of the spinal cord in addition to conventional neurologic examinations and morphological imaging will be fairly effective in presurgical lesion localizations of the spinal cord.
Brillouin Scattering in Optical Fibers and Its Application to Distributed Sensors (2015)

Brillouin based distributed optical fiber sensors have been studied for more than two decades because they have incomparable abilities over the pointed or multiplexed fiber-optic sensors based on fiber Bragg grating and/or inline Fabry-Perot resonator. They originated from the intrinsic fiber-optic nonlinearity in optical fibers, i.e. Brillouin scattering, and have many distinguished advantages, such as high accuracy due to the frequency revolved interrogation, multiple sensitivities of measurands (strain, temperature etc.), no dead zones of sensing location due to the distributed sensing ability, and immunity to the electro-magnetic interfer‐ ence. Nowadays, they have been thought as great potentials in industrial applications to smart materials and smart structures.
Data from An Antibody Targeting ICOS Increases Intratumoral Cytotoxic to Regulatory T-cell Ratio and Induces Tumor Regression (2023)

&lt;div&gt;Abstract&lt;p&gt;The immunosuppressive tumor microenvironment constitutes a significant hurdle to immune checkpoint inhibitor responses. Both soluble factors and specialized immune cells, such as regulatory T cells (Treg), are key components of active intratumoral immunosuppression. Inducible costimulatory receptor (ICOS) can be highly expressed in the tumor microenvironment, especially on immunosuppressive Treg, suggesting that it represents a relevant target for preferential depletion of these cells. Here, we performed immune profiling of samples from tumor-bearing mice and patients with cancer to demonstrate differential expression of ICOS in immune T-cell subsets in different tissues. ICOS expression was higher on intratumoral Treg than on effector CD8 T cells. In addition, by immunizing an &lt;i&gt;Icos&lt;/i&gt; knockout transgenic mouse line expressing antibodies with human variable domains, we selected a fully human IgG1 antibody called KY1044 that bound ICOS from different species. We showed that KY1044 induced sustained depletion of ICOS&lt;sup&gt;high&lt;/sup&gt; T cells but was also associated with increased secretion of proinflammatory cytokines from ICOS&lt;sup&gt;low&lt;/sup&gt; effector T cells (T&lt;sub&gt;eff&lt;/sub&gt;). In syngeneic mouse tumor models, KY1044 depleted ICOS&lt;sup&gt;high&lt;/sup&gt; Treg and increased the intratumoral T&lt;sub&gt;Eff&lt;/sub&gt;:Treg ratio, resulting in increased secretion of IFNγ and TNFα by T&lt;sub&gt;Eff&lt;/sub&gt; cells. KY1044 demonstrated monotherapy antitumor efficacy and improved anti–PD-L1 efficacy. In summary, we demonstrated that using KY1044, one can exploit the differential expression of ICOS on T-cell subtypes to improve the intratumoral immune contexture and restore an antitumor immune response.&lt;/p&gt;&lt;/div&gt;
Glycine-based treatment ameliorates NAFLD by modulating fatty acid oxidation, glutathione synthesis, and the gut microbiome (2020)

Nonalcoholic fatty liver disease (NAFLD) including nonalcoholic steatohepatitis (NASH) has reached epidemic proportions with no pharmacological therapy approved. Lower circulating glycine is consistently reported in patients with NAFLD, but the causes for reduced glycine, its role as a causative factor, and its therapeutic potential remain unclear. We performed transcriptomics in livers from humans and mice with NAFLD and found suppression of glycine biosynthetic genes, primarily alanine-glyoxylate aminotransferase 1 (<i>AGXT1</i>). Genetic (<i>Agxt1</i> <sup>-/-</sup> mice) and dietary approaches to limit glycine availability resulted in exacerbated diet-induced hyperlipidemia and steatohepatitis, with suppressed mitochondrial/peroxisomal fatty acid β-oxidation (FAO) and enhanced inflammation as the underlying pathways. We explored glycine-based compounds with dual lipid/glucose-lowering properties as potential therapies for NAFLD and identified a tripeptide (Gly-Gly-L-Leu, DT-109) that improved body composition and lowered circulating glucose, lipids, transaminases, proinflammatory cytokines, and steatohepatitis in mice with established NASH induced by a high-fat, cholesterol, and fructose diet. We applied metagenomics, transcriptomics, and metabolomics to explore the underlying mechanisms. The bacterial genus <i>Clostridium</i> sensu stricto was markedly increased in mice with NASH and decreased after DT-109 treatment. DT-109 induced hepatic FAO pathways, lowered lipotoxicity, and stimulated de novo glutathione synthesis. In turn, inflammatory infiltration and hepatic fibrosis were attenuated via suppression of NF-κB target genes and TGFβ/SMAD signaling. Unlike its effects on the gut microbiome, DT-109 stimulated FAO and glutathione synthesis independent of NASH. In conclusion, impaired glycine metabolism may play a causative role in NAFLD. Glycine-based treatment attenuates experimental NAFLD by stimulating hepatic FAO and glutathione synthesis, thus warranting clinical evaluation.
Expression of SCM-1alpha/Lymphotactin and SCM-1beta in Natural Killer Cells Is Upregulated by IL-2 and IL-12 (1999)

Recruitment of lymphocytes is an important feature of the host immune response against pathogens. However, the mechanisms by which lymphocytes are attracted are not yet fully understood. Recently, the cDNA of a lymphocyte-specific chemokine, lymphotactin (Lptn), was isolated from murine and human T cells and was also found to be expressed in murine NK cells and human NK cell clones. This study investigated the influence of interleukin (IL)-2 and IL-12 on the expression of Lptn, also known as SCM (single cysteine motif)-1alpha, and SCM-1beta, a 97% homolog of Lptn, in freshly isolated human NK cells and the human NK cell line NK-92. Northern blot analysis and RT-PCR confirmed that nonactivated human NK cells expressed both genes at low level. After activation with IL-2 or IL-12, the expression of both Lptn and SCM-1beta was upregulated within hours. NK-92 cells maintained in medium supplemented with IL-2 constitutively expressed SCM-1 mRNA. However, after 24 h of IL-2 starvation and subsequent culturing at various IL-2 concentrations, the expression of Lptn/SCM-1alpha was upregulated in a dose-dependent manner, whereas the expression of SCM-1beta remained consistently high. These observations indicate that NK cells, in addition to T lymphocytes, express Lptn/SCM-1alpha and SCM-1beta after cytokine activation. The upregulation of these chemokines in NK cells on activation likely acts to increase the number of effector cells reaching the site of an immune response such as inflammation.
Workload characterization for the design of future servers (2006)

Workload characterization has become an integral part of the design of future servers since their characteristics can guide the developers to understand the workload requirements and how the underlying architecture would optimize the performance of the intended workload. In this paper, we give an overview of the POWER5 architecture. We also introduce the POWER5 performance monitor facilities and performance events that lead to the construction of a CPI (cycles per instruction) breakdown model. For our study, we characterize four different groups of workloads: commercial, HPC, memory, and scientific. Using the data obtained from the POWER5 performance counters, we breakdown the CPI stack into a base component, when the processor is completing work and a stall component when the processor is not completing instructions. The stall component can be further divided into cycles when the pipeline was empty and cycles when the pipeline was not empty but completion is stalled. With this model, we enumerate the number of processing cycles, i.e., a fraction of the CPI, a workload spent while progressing through the core resources and the incurred penalty upon encountering those resource usage inhibitors. The results show the CPI breakdown for each workload, identify where each workload spends its processing cycles and the associated CPI cost when accessing the core resources.
Loop-Assisted Multi-Input-Multi-Output Coherent Matched Detector for Ultra High-Bandwidth Parallel Optical Time-Frequency Domain Sampling (2015)

We demonstrate loop-assisted multi-input-multi-output coherent matched detector, enabling ultra-wideband parallel optical sampling in time-frequency domain. 8-subchannels packed in 80 GHz in single polarization was simultaneously captured in parallel only using a single 10-Gbaud coherent receiver.
Supervised multi-view canonical correlation analysis: fused multimodal prediction of disease diagnosis and prognosis (2014)

While the plethora of information from multiple imaging and non-imaging data streams presents an opportunity for discovery of fused multimodal, multiscale biomarkers, they also introduce multiple independent sources of noise that hinder their collective utility. The goal of this work is to create fused predictors of disease diagnosis and prognosis by combining multiple data streams, which we hypothesize will provide improved performance as compared to predictors from individual data streams. To achieve this goal, we introduce supervised multiview canonical correlation analysis (sMVCCA), a novel data fusion method that attempts to find a common representation for multiscale, multimodal data where class separation is maximized while noise is minimized. In doing so, sMVCCA assumes that the different sources of information are complementary and thereby act synergistically when combined. Although this method can be applied to any number of modalities and to any disease domain, we demonstrate its utility using three datasets. We fuse (i) 1.5 Tesla (T) magnetic resonance imaging (MRI) features with cerbrospinal fluid (CSF) proteomic measurements for early diagnosis of Alzheimer’s disease (n = 30), (ii) 3T Dynamic Contrast Enhanced (DCE) MRI and T2w MRI for <i>in vivo</i> prediction of prostate cancer grade on a per slice basis (n = 33) and (iii) quantitative histomorphometric features of glands and proteomic measurements from mass spectrometry for prediction of 5 year biochemical recurrence postradical prostatectomy (n = 40). Random Forest classifier applied to the sMVCCA fused subspace, as compared to that of MVCCA, PCA and LDA, yielded the highest classification AUC of 0.82 +/- 0.05, 0.76 +/- 0.01, 0.70 +/- 0.07, respectively for the aforementioned datasets. In addition, sMVCCA fused subspace provided 13.6%, 7.6% and 15.3% increase in AUC as compared with that of the best performing individual view in each of the three datasets, respectively. For the biochemical recurrence dataset, Kaplan-Meier curves generated from classifier prediction in the fused subspace reached the significance threshold (p = 0.05) for distinguishing between patients with and without 5 year biochemical recurrence, unlike those generated from classifier predictions of the individual modalities.
Structure-activity relationships among analogues of pemedolac, cis-1-ethyl-1,3,4,9-tetrahydro-4-(phenylmethyl)pyrano[3,4-b]indole-1-acetic acid, a potent analgesic agent (1988)

The syntheses of analogues of pemedolac (cis-1-ethyl-1,3,4,9-tetrahydro-4-(phenylmethyl)pyrano[3,4-b]indol e-1-acetic acid), a potent analgesic, are described. They were tested for analgesic and antiinflammatory effects in vivo and for inhibition of prostaglandin production in vitro. Analysis of structure-activity relationships shows that analgesic activity in this series is associated with 1S-cis stereochemistry, the presence of a pi-system (allyl or benzyl) at position 4, and a log P value greater than 4.0.
Renal Replacement Therapy for Acute Kidney Injury: Let's follow the Evidence (2007)

Selection of a dialysis modality for critically ill patients with acute kidney injury (AKI) continues to be a controversial topic. Available studies can be divided into: 1) randomized controlled trials assessing the effect of treatment dose on patient outcome; 2) randomized controlled outcome comparisons of CRRT and IRRT; and 3) observational outcome comparisons of CRRT and IRRT. Clinical outcome comparisons of CRRT and HD continue to be very problematic. With the availability of the recent CRRT dose/outcome data, the interpretation of CRRT vs HD trial data now becomes nearly impossible because of the low-dose ""handicap"" that has existed in all of the comparative trials in the CRRT arms. Randomized and observational outcome studies suffer from several methodological problems and a final statement cannot be made. In the end, CRRT and HD are vastly different therapies that are not mutually exclusive but rather are complementary - they provide different options for patients at variable stages of their AKI course. Very preliminary data from SLED studies suggest this therapy also can be part of the continuum of AKI dialytic modalities. However, the lack of any meaningful outcome data for this therapy invalidates any claims of clinical "equivalence" to the other established modalities.
Assembly Materials and Processes for High-Temperature Geothermal Electronic Modules (2012)

Geothermal well logging and instrumentation applications require high-temperature logging tools and sensors with long-term operation capability at 300°C. Advanced SiC technology has enabled high-temperature electronics. To build functional systems operating at high temperatures, an interconnection and packaging technology must be developed to interconnect SiC devices and passive components. Off-eutectic AuSn has been evaluated for SiC and passive component attachment to PtPdAu/Au thick film metallization on alumina substrates and on thick film dielectric. A functional SiC-based oscillator module was fabricated and tested to demonstrate the assembly technologies developed for 300°C applications.
The generalized finite amplitude insert-substitution method for B/A measurement of tissues and liquids (2020)

B/A holds promise as a biomarker for tissue characterization. Moreover, measuring B/A enables identifying isomer types in biological liquids, potentially aiding diagnosis of some diseases. The standard finite amplitude insert-substitution method of measuring B/A has several limitations. It assumes a linear dependency of the attenuation coefficient on frequency, limiting it to tissue applications, and necessitates sample positioning close to the receiver. Here we propose the generalized finite amplitude insert-substitution method, which allows for B/A measurement of tissues and liquids, and gives freedom in sample positioning. In this work, we present the derived formula and validate the experimental procedure. For this purpose, B/A measurements of corn oil, porcine fat and porcine liver were conducted. For each substance, several conditions were tested, including various distances between the source and the receiver, various sample positions and amplitudes of the transmitted pulses. A better agreement with literature data was found for lower source pressure amplitudes and distances within the near field of the source transducer. In these conditions, the measurement error was confined to 8% and 25% of the literature values of corn oil and the considered tissues, respectively. No clear indication of the influence of sample position on the measurement accuracy was found.
Competitive Cellular Uptake of Nanoparticles Made From Polystyrene, Poly(methyl methacrylate), and Polylactide (2012)

The uptake behavior of negatively charged fluorescent nanoparticles made from different polymers (PS, PMMA, and PLLA) is studied on HeLa cells. All particles are obtained by the miniemulsion process using sodium dodecylsulfate as anionic surfactant. The size of the particles is in the range 105-125 nm. Cell uptake is analyzed by flow cytometry and reveals a higher uptake of PLLA particles compared to PMMA and PS particles. In competitive uptake studies two different types of particles are co-incubated with the HeLa cells; the results indicate a mutual influence of the particles on their uptake behavior. A reduced internalization of PLLA particles in the presence of PS particles is observed, although neither the co-incubation of PMMA and PLLA nor of PMMA and PS shows similar effect.