gebhart/patrepeval huggingface dataset:
Immunocytochemistry in Contemporary Cytology:The Technique and Its Application (1994)

Journal Article Immunocytochemistry in Contemporary Cytology: The Technique and Its Application Get access Mehrdad Nadji, MD, Mehrdad Nadji, MD Department of Pathology, University of Miami, Jackson Memorial Medical Center, and Sylvester Comprehensive Cancer Center, Miami, Florida. Reprint requests to Dr Nadji, Department of Pathology, PO Box 016960, Miami, FL 33101 Search for other works by this author on: Oxford Academic PubMed Google Scholar Parvin Ganjei, MD, Parvin Ganjei, MD Department of Pathology, University of Miami, Jackson Memorial Medical Center, and Sylvester Comprehensive Cancer Center, Miami, Florida. Search for other works by this author on: Oxford Academic PubMed Google Scholar Azorides R. Morales, MD Azorides R. Morales, MD Department of Pathology, University of Miami, Jackson Memorial Medical Center, and Sylvester Comprehensive Cancer Center, Miami, Florida. Search for other works by this author on: Oxford Academic PubMed Google Scholar Laboratory Medicine, Volume 25, Issue 8, 1 August 1994, Pages 502–508, https://doi.org/10.1093/labmed/25.8.502 Published: 01 August 1994
Signaling Pathways Recruited by the Cardiotrophin-like Cytokine/Cytokine-like Factor-1 Composite Cytokine (2001)

Ciliary neurotrophic factor (CNTF) is a cytokine supporting the differentiation and survival of a number of neural cell types. Its receptor complex consists of a ligand-binding component, CNTF receptor (CNTFR), associated with two signaling receptor components, gp130 and leukemia inhibitory factor receptor (LIFR). Striking phenotypic differences between CNTF- and CNTFR-deficient mice suggest that CNTFR serves as a receptor for a second developmentally important ligand. We recently demonstrated that cardiotrophin-like cytokine (CLC) associates with the soluble orphan receptor cytokine-like factor-1 (CLF) to form a heterodimeric cytokine that displayed activities only on cells expressing the tripartite CNTF receptor on their surface. In this present study we examined the membrane binding of the CLC/CLF composite cytokine and observed a preferential interaction of the cytokine with the CNTFR subunit. Signaling pathways recruited by the CLC/CLF complex in human neuroblastoma cell lines were also analyzed in detail. The results obtained showed an activation of Janus kinases (JAK1, JAK2, and TYK2) leading to a tyrosine phosphorylation of the gp130 and LIFR. The phosphorylated signaling receptors served in turn as docking proteins for signal transducing molecules such as STAT3 and SHP-2. In vitro analysis revealed that the gp130-LIFR pathway could also stimulate the phosphatidylinositol 3-kinase and the mitogen-activated protein kinase pathways. In contrast to that reported before for CNTF, soluble CNTFR failed to promote the action CLC/CLF, and an absolute requirement of the membrane form of CNTFR was required to generate a functional response to the composite cytokine. This study reinforces the functional similarity between CNTF and the CLC/CLF composite cytokine defining the second ligand for CNTFR.
Methylome of Fetal and Maternal Monocytes and Macrophages at the Feto‐Maternal Interface (2012)

The findings herein indicate that DNA methylation patterns change during monocyte-macrophage differentiation at the feto-maternal interface. It is also suggested that DNA methylation is an important component of the biological machinery conferring an anti-inflammatory phenotype to macrophages at the feto-maternal interface.
Properties of organic diradicaloid molecules predicted by semiempirical molecular orbital theory. A practical procedure (1989)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTProperties of organic diradicaloid molecules predicted by semiempirical molecular orbital theory. A practical procedurePaul M. Lahti, Andrew S. Ichimura, and Jerome A. BersonCite this: J. Org. Chem. 1989, 54, 4, 958–965Publication Date (Print):February 1, 1989Publication History Published online1 May 2002Published inissue 1 February 1989https://pubs.acs.org/doi/10.1021/jo00265a042https://doi.org/10.1021/jo00265a042research-articleACS PublicationsRequest reuse permissionsArticle Views160Altmetric-Citations41LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
Patients Undergoing Total Shoulder Arthroplasty on the Dominant Extremity Attain Greater Postoperative ROM (2015)

Level III, therapeutic study.
IL6 inhibition of inflammatory S100A8/9 proteins is NF‐κB mediated in essential thrombocythemia (2019)

This study has been performed to determine the mechanism of activation of the myeloid related S100A proteins by inflammatory cytokines in myeloproliferative neoplasm (MPN). Besides microarray analysis of MPN-derived CD34<sup>+</sup> cells, we analysed the pro-inflammatory IL6 and anti-inflammatory IL10 dependence of NF-κB, PI3K-AKT, and JAK-STAT signalling during induction of S100A proteins in mononuclear cells of MPN, by immunoblotting and flow cytometry. We observed the reduced gene expression linked to NF-κB and inflammation signalling in MPN-derived CD34<sup>+</sup> cells. Both IL6 and IL10 reduced S100A8 and 100A9 protein levels mediated via NF-κB and PI3K signalling, respectively, in mononuclear cells of essential thrombocythemia (ET). We also determined the increased percentage of S100A8 and S100A9 positive granulocytes in ET and primary myelofibrosis, upgraded by the JAK2V617F mutant allele burden. S100A8/9 heterodimer induced JAK1/2-dependent mitotic arrest of the ET-derived granulocytes. SIGNIFICANCE OF THE STUDY: We demonstrated that inflammation reduced the myeloid related S100A8/9 proteins by negative feedback mechanism in ET. S100A8/9 can be a diagnostic marker of inflammation in MPN, supported by the concomitant NF-κB and JAK1/2 signalling inhibition in regulation of myeloproliferation and therapy of MPN.
Nonaqueous development of silsesquioxane electron beam resist (2004)

While the primary use of hydrogen silsesquioxane (HSQ) is as a dielectric in microelectronics fabrication, this material is also capable of forming high resolution, negative-tone features with low roughness when patterned with an electron beam. Unfortunately, under common processing conditions HSQ is relatively insensitive to electron beam exposure; poor reproducibility has also been observed. HSQ postexposure processing typically consists of development via immersion in an industry-standard aqueous solution of base, followed by rinsing with water or isopropanol. While other resist materials have been specifically designed for compatibility with aqueous base processing, HSQ is known to be chemically unstable in the presence of base. We report that several organic solvents that are not reactive towards HSQ are less aggressive at removing the exposed regions of the film. As a result, it is possible to successfully image HSQ with markedly reduced exposure dose. The considerable difference in exposure dose can be largely attributed to the difference in reactivity toward HSQ between organic solvents and aqueous base, but other factors must also be considered. For example, HSQ structures can be formed at low doses when developed with isopropanol, but the structures are very rough and irregular. This paper reports an alternative approach to HSQ processing that provides insight into mechanistic phenomena while offering certain advantages over standard processing techniques.
HSV-1 single-cell analysis reveals the activation of anti-viral and developmental programs in distinct sub-populations (2019)

Viral infection is usually studied at the population level by averaging over millions of cells. However, infection at the single-cell level is highly heterogeneous, with most infected cells giving rise to no or few viral progeny while some cells produce thousands. Analysis of Herpes Simplex virus 1 (HSV-1) infection by population-averaged measurements has taught us a lot about the course of viral infection, but has also produced contradictory results, such as the concurrent activation and inhibition of type I interferon signaling during infection. Here, we combine live-cell imaging and single-cell RNA sequencing to characterize viral and host transcriptional heterogeneity during HSV-1 infection of primary human cells. We find extreme variability in the level of viral gene expression among individually infected cells and show that these cells cluster into transcriptionally distinct sub-populations. We find that anti-viral signaling is initiated in a rare group of abortively infected cells, while highly infected cells undergo cellular reprogramming to an embryonic-like transcriptional state. This reprogramming involves the recruitment of β-catenin to the host nucleus and viral replication compartments, and is required for late viral gene expression and progeny production. These findings uncover the transcriptional differences in cells with variable infection outcomes and shed new light on the manipulation of host pathways by HSV-1.
Design and efficacy of a single‐use bioreactor for heart valve tissue engineering (2015)

Heart valve tissue engineering offers the promise of improved treatments for congenital heart disorders; however, widespread clinical availability of a tissue engineered heart valve (TEHV) has been hindered by scientific and regulatory concerns, including the lack of a disposable, bioreactor system for nondestructive valve seeding and mechanical conditioning. Here we report the design for manufacture and the production of full scale, functional prototypes of such a system. To evaluate the efficacy of this bioreactor as a tool for seeding, ovine aortic valves were decellularized and subjected to seeding with human mesenchymal stem cells (hMSC). The effects of pulsatile conditioning using cyclic waveforms tuned to various negative and positive chamber pressures were evaluated, with respect to the seeding of cells on the decellularized leaflet and the infiltration of seeded cells into the interstitium of the leaflet. Infiltration of hMSCs into the aortic valve leaflet was observed following 72 h of conditioning under negative chamber pressure. Additional conditioning under positive pressure improved cellular infiltration, while retaining gene expression within the MSC-valve interstitial cell phenotype lineage. This protocol resulted in a subsurface pilot population of cells, not full tissue recellularization. © 2015 Wiley Periodicals, Inc. J Biomed Mater Res Part B: Appl Biomater, 105B: 249-259, 2017.
CYP2C76-mediated species difference in drug metabolism: A comparison of pitavastatin metabolism between monkeys and humans (2006)

The monkey is often used to predict metabolism of drugs in humans since it generally shows a metabolic pattern similar to humans. However, metabolic profiles different from humans are occasionally seen in monkeys for some drugs including pitavastatin. Recently, we have successfully identified a monkey-specific cytochrome P450 (CYP) 2C76, which possibly accounts for a species difference between monkeys and humans because of its sequence and functional uniqueness. The present study on the role of CYP2C76 and other monkey CYP2Cs in pitavastatin metabolism, as an example, has revealed that CYP2C76 is important for the metabolism of the lactone form, indicating a major role of CYP2C76 for the difference in the metabolism of pitavastatin and possibly other drugs between monkeys and humans. The current investigation on the involvement of CYP2C76 in the metabolism of other drugs is expected to reveal further the further importance of this monkey-specific drug-metabolizing enzyme.
Supplementary Figure 1 from Down-Regulation of Phosphoglucose Isomerase/Autocrine Motility Factor Results in Mesenchymal-to-Epithelial Transition of Human Lung Fibrosarcoma Cells (2023)

Supplementary Figure 1 from Down-Regulation of Phosphoglucose Isomerase/Autocrine Motility Factor Results in Mesenchymal-to-Epithelial Transition of Human Lung Fibrosarcoma Cells
Intramolecular ene reaction of the unsaturated acyloin 3-(but-3-enyl)-2-hydroxy-3-methylcyclohexanone (1988)

D. S. Brown, B. A. Marples and C. D. Spilling, J. Chem. Soc., Perkin Trans. 1, 1988, 2033 DOI: 10.1039/P19880002033
Neural network ambient occlusion (2016)

We present Neural Network Ambient Occlusion (NNAO), a fast, accurate screen space ambient occlusion algorithm that uses a neural network to learn an optimal approximation of the ambient occlusion effect. Our network is carefully designed such that it can be computed in a single pass allowing it to be used as a drop-in replacement for existing screen space ambient occlusion techniques.
A 3-DIMENSIONAL MATRIX ASSAY THAT MAY HELP PREDICT TREATMENT RESPONSE TO TEMOZOLOMIDE IN PATIENTS WITH GLIOBASTOMA: SUBGROUP ANALYSIS OF PATIENTS UNDERGOING MGMT TESTING (2014)

BACKGROUND: (blind field). METHODS: Records for patients treated for newly diagnosed or recurrent glioblastoma were analyzed. All patients had undergone surgical resection and tumor specimens at time of surgery were available for culture in a 3-dimensional matrix assay and observed for growth and invasion. Drug effects on mean invasion and growth were expressed as a ratio relative to control conditions. Length of survival was compared between temozolomide treated patients whose screening results had predicted a positive or negative response to temozolomide. The MGMT status of a subgroup of these patients was analyzed and correlated with the response of tumor tissue in the assay to temozolomide. RESULTS: Fifty-eight patients with glioblastoma were assessed. Each patient's tumor displayed a unique invasion and response profile. We looked in particular at the correlation between the outcome of a patient with glioblastoma treated with temozolomide and the response of that patient's tumor tissue to temozolomide in the 3-dimensional assay. Mean survival time for patients whose tumors were not significantly sensitive to temozolomide in the assay was 181.7 +/- 43 days. Mean survival time for patients whose tumors were significantly sensitive to temozolomide in the assay was 290.0 +/- 33 days. Twelve patients underwent MGMT testing. In 10 of the 12 patients there was a correlation between tumor response in the assay and MGMT status. CONCLUSIONS: The 3-dimensional assay may help predict glioblastoma patients who will show a treatment response to temozolomide. There appears to be a positive correlation between the response profiles in the assay to the MGMT status of the patient's tumor. SECONDARY CATEGORY: n/a.
Development of a novel enzyme-redox-mediator system based on a fungal laccase and ruthenium complexes (2006)

The laccase produced by the fungus Coriolus hirsutus has been coordinatively modified with ruthenium complexes [Ru(phpy)(phen)(MeCN)2]PF6 and Ru(bpy)2CO3 under aerobic and anaerobic conditions. The amount of the complexes per enzyme molecule does not depend on the oxygen concentration, equaling 5 for [Ru(phpy)(phen)(MeCN)2]PF6 and 3 for Ru(bpy)2CO3. The pH dependence of the enzymatic activity, thermostability, and catalytical and electrocatalytical properties of the modified laccase are reported. It has been shown that, during the modification, at least one molecule of the ruthenium compound was coordinated near the T1 active center of the laccase, being directly involved in the catalysis and enhancing its efficiency.
A high-quality reference genome of the kelp surfperch, Brachyistius frenatus (Embiotocidae), a wide-ranging Eastern Pacific reef fish with no pelagic larval stage (2023)

The surfperches (family Embiotocidae) are a unique group of mostly marine fishes whose phylogenetic position within the Ovalentaria clade (Percomorpha) is still unresolved. As a result of their viviparity and lack of a dispersive larval stage, surfperches are an excellent model for the study of speciation, gene flow, and local adaptation in the ocean. They are also the target of an immensely popular recreational fishery. Very few high-quality molecular resources, however, are available for this group and only for a single species. Here, we describe a highly complete reference genome for the kelp surfperch, Brachyistius frenatus, assembled using a combination of short-read (Illumina, ~47× coverage) and long-read (Oxford Nanopore Technologies, ~27× coverage) sequencing. The 596 Mb assembly has a completeness level of 98.1% (BUSCO), a contig N50 of 2.6 Mb (n = 56), and a contig N90 of 406.6 kb (n = 293). Comparative analysis revealed a high level of synteny between B. frenatus and its close relative, Embiotoca jacksoni. This assembly will serve as a valuable molecular resource upon which future evolutionary dynamics research will build, such as the investigation of local adaptation and the genomic potential for climate adaptation in wild populations.
Characterization of a Six-Coordinate Ferrous High-Spin Heme with Both Intramolecular Axial Carboxylic Acid and Pyridine (2010)

Synthesis of a bis-strapped porphyrin with a pyridyl residue on one side and a malonic acid on the other side gives after iron(II) insertion a six-coordinate complex in which both apical groups are the two axial ligands of the iron atom. Unexpectedly, this six-coordinate iron(II) complex proves to be high-spin, likely due to some stabilization of the axial metal-ligand antibonding orbitals.
Use of Scale Models for Studying Power Transformer Audible Noise (1956)

First Page
Voltage variant source side injection for multilevel charge storage in flash EEPROM (1997)

The growing demand for high-density Flash memories in portable computing, smart cards, and telecommunications applications has boosted the efforts on Flash memory cell size scaling and cost reduction. In order to further increase the storage capability and, consequently, reduce the cost per bit of Flash memories, multilevel charge storage (MLCS) techniques have recently gained a lot of interest. Furthermore, MLCS is considered a viable route for increasing embedded Flash density as well. The devices investigated so far, rely either on conventional channel hot electron (CHE) injection or on Fowler-Nordheim tunneling (FNT) for programming. For the first time, this paper shows that source side injection (SSI) is also an excellent candidate for MLCS. The main advantages of SSI for MLCS are the very narrow threshold-voltage distributions after SSI programming, the symmetrical threshold-voltage window and the overerase immunity, which allows an overall wider threshold-voltage window, and hence more separated distributions.
Apply Data Mining to Defense-in-Depth Network Security System (2005)

This paper proposes a defense in depth network security architecture and applies the data mining technologies to analyze the alerts collected from distributed intrusion detection and prevention systems (IDS/IPS). The proposed defense in depth architecture consists of a global policy server (GPS) to manage the scattered intrusion detection and prevention systems, each of which is managed by a local policy server (LPS). The key component of the GPS is the security information management (SIM) module where data mining technology is employed to analyze the events (alerts) collected from the LPSs. Once a DDoS attack is recognized by the SIM module, the GPS informs the LPS (IDS/IPS) to adjust the thresholds immediately to block the attack from the sources. To evaluate the effectiveness of the proposed defense in depth architecture, a prototyping is implemented, where three different data mining tools are employed. Experiment results demonstrate that for detecting the DDOS attacks, the proposed data mining-based defense in depth architecture performs very well on attack detection rate and false alarm rate.
T2VOC. Numerical Simulator of Flow of Water, Air, Volatile Organic Compound (VOC) (1993)

T2VOC is a module which must be linked with the basic TOUGH2 general purpose simulation program to form the code TOUGH2/T2VOC described in this abstract and other T2VOC documentation. T2VOC is a numerical simulator for 3-phase, three component, non-isothermal flow of water, air, and a volatile organic compound (VOC) in multidimensional heterogeneous porous media. T2VOC was designed to simulate processes such as the migration of hazardous non-aqueous phase liquids (NAPLs) in variably saturated media, forced vacuum extraction of organic chemical vapors from the unsaturated zone (soil vapor extraction), evaporation and diffusion of chemical vapors in the unsaturated zone, air injection into the saturated zone for removal of volatile organics (air sparging), direct pumping of contaminated water and free product, and steam injection for the removal of NAPLs from contaminated soils and aquifers.
Adaptive traits of cysts of the snow alga Sanguina nivaloides unveiled by 3D subcellular imaging (2023)

Abstract Sanguina nivaloides is the main alga forming red snowfields in high mountains and Polar Regions. It is non-cultivable. Analysis of environmental samples by X-ray tomography, focused-ion-beam scanning-electron-microscopy, physicochemical and physiological characterization reveal adaptive traits accounting for algal capacity to reside in snow. Cysts populate liquid water at the periphery of ice, are photosynthetically active, can survive for months, and are sensitive to freezing. They harbour a wrinkled plasma membrane expanding the interface with environment. Ionomic analysis supports a cell efflux of K+, and assimilation of phosphorus. Glycerolipidomic analysis confirms a phosphate limitation. The chloroplast contains thylakoids oriented in all directions, fixes carbon in a central pyrenoid and produces starch in peripheral protuberances. Analysis of cells stored in the dark show that starch is a short-term carbon storage. The biogenesis of cytosolic droplets shows that they are loaded with triacylglycerol and carotenoids for long-term carbon storage and protection against oxidative stress.
Gorter-Mellink scale, and critical velocities in liquid—helium-II counterflow (1974)

It is found that, in liquid---helium-II pure counterflow, the dimensionless number $\mathcal{A}={\ensuremath{\rho}}_{s}A\overline{w}l$ (where $A$ is the Gorter-Mellink constant, $\overline{w}$ is the mean relative velocity between the two fluids, and $l$ is a characteristic dimension of the geometry) scales the mutual friction between the two fluids. Critical relative velocities in cylindrical channels are shown to be correlated by the rule ${\mathcal{A}}_{c}\ensuremath{\equiv}{\ensuremath{\rho}}_{s}A{\overline{w}}_{c}\ensuremath{\pi}d\ensuremath{\simeq}1$.