gebhart/patrepeval huggingface dataset:
Circulating tumor DNA analysis of neuroendocrine tumors. (2019)

e15698 Background: Neuroendocrine tumors (NETs) and carcinomas (NECs) are a diverse group of tumors with an equally diverse biology and clinical behavior. Data on tissue-based genomic profiling of NETs exists, however, there is limited data using circulating tumor DNA (ctDNA) technology. We sought out to characterize NETs via ctDNA to identify genomic alterations. Methods: 27 patients with metastatic NET/NEC with 32 total plasma samples were analyzed using Guardant360 ctDNA assay. Breakdown of NET/NEC by location: 14 pancreatic NET (pNET), 11 NEC, 1 small bowel NET, 1 lung NET. The ctDNA test detects single nucleotide variants in 54-73 genes, copy number amplifications, fusions, and indels in selected genes. Results: Of the 27 patients, 19 (70%) had a detectable genomic alteration. The detectable (non-synonymous) alterations are as follows: TP53 (n = 14, 70%), NF1 (n = 8, 40%), EGFR (n = 5, 25%), BRCA2 (n = 4, 20%), KRAS (n = 4, 20%), ARID1A (n = 3, 15%), CDK6 (n = 3, 15%), ALK (n = 3, 15%), MET (n = 2, 10%), PTEN (n = 2, 10%), BRAF (n = 2, 10%), MTOR (n = 2, 10%) AKT1 (n = 1), BRCA1 (n = 1), CCND2 (n = 1), CCNE1 (n = 1), CTNNB1 (n = 1), ESR1 (n = 1), FGFR2 (n = 1), HRAS (n = 1), IDH1 (n = 1), KIT (n = 1), MYC (n = 1), NOTCH1 (n = 1), NRAS (n = 1), PDGFRA (n = 1), RAF1 (n = 1), RB1 (n = 1), SMAD4 (n = 1), STK11 (n = 1), TSC1 (n = 1), ERBB2 (n = 1), PIK3CA (n = 1). Conclusions: This experience highlights the feasibility of ctDNA to help identify genomic alterations in this patient population. Further studies incorporating ctDNA testing in this patient population are warranted.
General Programmable Growth of Hybrid Core–Shell Nanostructures with Liquid Metal Nanodroplets (2021)

Core-shell and hollow nanostructures have been receiving significant interest due to their potential in wide scientific and technological fields. Given such large scope, however, they still lag far behind in terms of the ambition toward controllably, or even programmatically, synthesizing libraries of core-shell structures on a large scale. Here, a general route for the programmable preparation of complex core-shell nanostructures by using liquid metal (LM) droplets as reformable templates is presented, and the triggering of a localized galvanic replacement reaction in one ultrasonication system is demonstrated. Benefiting from the activity and mobility of the metal components in LM templates, high-level compositional diversity control and quantitative regulation of both the core and the shell layers of the heterogeneous products are achieved, which cannot be realized with a solid-template synthetic route.
Synthesis and Functionality of Cyclophosphazene-Based Polymers (2001)

Abstract Linear poly(organophosphazene)s have been widely investigated, mainly to correlate the structure of inorganic –P=N– backbone bearing organic groups with their properties and functionalites. Our interests have been directed to relatively new types of polymers containing a cyclophosphazene unit in the side chains, main chains, or as central core and end groups. The phosphazene groups in these polymers can serve as modification sites of polymers, leading to new functionalized materials. The six or more reactive sites of cyclophosphazenes are suitable for the preparation of star-shaped polymers or hyperbranched polymers including dendrimers. Recent works related with polymeric self-assembly showed that some organocyclophosphazenes are useful motifs for the construction of supramolecules, reflecting the structural features of the cyclotri(phosphazene)s. In this review, we describe the synthesis and functionalities of polymers containing cyclotri(phosphazene)s.
Mesenchyme-Dependent Differentiation of Epithelial Progenitor Cells in the Gut (1987)

The digestive tract and the gut as a paradigm represents an attractive system for the study of mechanisms involved in the differentiation of two types of progenitor cells: the endodermal cells during embryonic life and the undifferentiated crypt cells during epithelial renewal of the adult intestine. The morphological and functional events that accompany the differentiation processes of progenitor cells into the polarized epithelial cell types characteristic of the intestine appear comparable in both situations (1,2). During organogenesis of the gut, histological observations underlined a close relationship between epithelial cells and their underlying mesenchymal cells (3,4). Developmental biologists have emphasized experimentally the importance of interactions between the endoderm and mesenchyme during organogenesis of the digestive tract. In the adult intestine, gastroenterologists have focused their attention on a specialized mesenchymal cell type (the pericryptal fibroblasts) that displays, like epithelial cells, proliferative activities and migrating properties. The aim of this review is to provide current knowledge on epithelial-mesenchymal interactions during ontogenesis of the digestive tract and also to relate some experiments supporting the view of the perpetuation of epithelial-mesenchymal interactions beyond embryonic life.
Near-infrared Electroluminescence from Ytterbium(III) Complex (2000)

Abstract The room temperature near-infrared electroluminescence(EL) was observed from organic EL devices using the ytterbium(III) [Yb(III)] complex as an emitter over 15 V, though there was no spectral overlap between the lowest triplet state of ligand and the emissive level of Yb(III) ion needed for the intramolecular energy transfer. The EL emission with a peak at 985 nm was assigned to the 2F5/2 → 2F7/2 transition of Yb(III) ion.
The CO Formation Reaction Pathway in Steam Methane Reforming by Rhodium (2010)

Three different pathways toward CO formation from adsorbed CH and O are compared by quantum-chemical density functional theory (DFT) calculations for planar and stepped Rh surfaces. The conventional pathway competes with the pathway involving a formyl (CHO) species. This holds for both types of surfaces. The barrier for carbon-oxygen bond formation for the planar surface (180 kJ/mol) is substantially higher than that for the stepped surface (90 kJ/mol). The reaction path through intermediate formyl formation competes with direct formation of CO from recombination via adsorbed C and O atoms. Calculations are used as a basis for the analysis of the overall kinetics of the methane steam reforming reaction as a function of the particle size and the metal.
Introduction to Mobile Communications: Technology, Services, Markets (2007)

The traditionally separate Fixed, Mobile, and Internet sectors have been evolving recently toward a single sector, offering numerous implications for those involved in technology and business. It is therefore essential for telecommunication professionals to get a keen grasp of where the industry is heading. Providing a solid foundation in the industry, Introduction to Mobile Communications: Technology, Services, Markets explores the core requirements of modern mobile telecommunications-from markets to technology. It explains how wireless systems work, how mobility is supported, the underlying infrastructure, and what interactions are needed among the different functional components. The book also examines how mobile communications are evolving in order to meet the changing needs of users. The information provided in the book comes primarily from the four core modules of the Certificate in Mobile Communications Distance Learning program run by the Informa Telecoms Academy in London. Designed by a highly experienced training development team, the program examines the complex and fascinating world of mobile communications. Designed to give a broad picture of mobile communications, the book provides an excellent grounding for those involved in both business and engineering-leaving them much better equipped to fulfill roles within their current or prospective companies
MtPAR MYB transcription factor acts as an on switch for proanthocyanidin biosynthesis in <i>Medicago truncatula</i> (2012)

MtPAR (Medicago truncatula proanthocyanidin regulator) is an MYB family transcription factor that functions as a key regulator of proanthocyanidin (PA) biosynthesis in the model legume Medicago truncatula. MtPAR expression is confined to the seed coat, the site of PA accumulation. Loss-of-function par mutants contained substantially less PA in the seed coat than the wild type, whereas levels of anthocyanin and other specialized metabolites were normal in the mutants. In contrast, massive accumulation of PAs occurred when MtPAR was expressed ectopically in transformed hairy roots of Medicago. Transcriptome analysis of par mutants and MtPAR-expressing hairy roots, coupled with yeast one-hybrid analysis, revealed that MtPAR positively regulates genes encoding enzymes of the flavonoid-PA pathway via a probable activation of WD40-1. Expression of MtPAR in the forage legume alfalfa (Medicago sativa) resulted in detectable levels of PA in shoots, highlighting the potential of this gene for biotechnological strategies to increase PAs in forage legumes for reduction of pasture bloat in ruminant animals.
Suppression of hyperinsulinaemia in growing female mice provides long-term protection against obesity (2015)

These data demonstrate that attenuation of hyperinsulinaemia in young, growing female mice provides a long-lasting protection against obesity. This protection persists despite a late-onset emergence of hyperinsulinaemia in HFD-fed Ins1(-/-):Ins2(+/-) mice. Given the evolutionary conserved roles of insulin, it is possible that suppressing hyperinsulinaemia early in life may have far-reaching consequences on obesity in full-grown adult humans.
Caspase-Dependent and -Independent Cell Death Pathways in Primary Cultures of Mesencephalic Dopaminergic Neurons after Neurotoxin Treatment (2003)

Although the cause of neuronal death in Parkinson's disease (PD) is mainly unknown, growing evidence suggests that both apoptotic and non-apoptotic death may occur in PD. Using primary cultures of mesencephalic dopaminergic neurons and the MN9D dopaminergic neuronal cell line, we attempted to evaluate specifically the existence of the mitochondrial apoptotic pathway, focusing on the mitochondrial release of cytochrome c to the activation of the caspases after 6-hydroxydopamine (6-OHDA) or 1-methyl-4-phenylpyridinium (MPP+) treatment. Both immunofluorescent labeling and immunoblot analysis indicated mitochondrial release of cytochrome c into the cytosol after 6-OHDA or MPP+ treatment. However, the appearance of activated caspase-3 immunoreactivity in tyrosine hydroxylase (TH)-positive neurons was detected only after 6-OHDA. Immunoblot and biochemical analysis also confirmed that activation of both caspase-9 and caspase-3 was induced by 6-OHDA, but not by MPP+. Consequently, cotreatment with a caspase inhibitor (zVAD-fmk) or with an antioxidant (N-acetylcysteine) not only deterred 6-OHDA-induced loss of TH-positive neurons but also abolished the appearance of activated caspase-3 in TH-positive neurons. In contrast, the same treatment did not spare MPP+-treated TH-positive neurons. Interestingly, a reconstitution assay indicated that the addition of ATP to the cytosolic fraction obtained from MPP+-treated cells was sufficient to activate both caspase-9 and caspase-3. Taken together, our results indicate that distinct mechanisms underlie neurotoxin-induced cell death. They also suggest that, after mitochondrial release of cytochrome c in dopaminergic neurons after neurotoxin treatment, intracellular levels of ATP may constitute a critical factor in determining whether a neuron will die by a caspase-dependent or -independent pathway.
Mesenchymal stem cells for treating autoimmune dacryoadenitis (2017)

Autoimmune dacryoadenitis, such as Sjögren syndrome, comprises multifactorial and complex diseases. Inflammation of the lacrimal gland plays a key role in the pathogenesis of diseases. Unfortunately, current treatment strategies, including artificial tears, anti-inflammatory drugs, punctual occlusion, and immunosuppressive drugs, are only palliative, and long-term administration of these strategies is associated with adverse effects that limit their utility. Hence, an effective and safe treatment for autoimmune dacryoadenitis is urgently needed. Mesenchymal stem cells (MSCs) have emerged as a promising tool for treating autoimmune dacryoadenitis, owing to their immunosuppressive properties, tissue repair functions, and powerful differentiation capabilities. A large number of studies have focused on the effect of MSCs on autoimmune diseases, such as autoimmune uveitis, inflammatory bowel disease, and collagen-induced arthritis, but few studies have, to date, unequivocally established the efficacy of MSCs for treating autoimmune dacryoadenitis. In this review, we discuss recent advances in MSC treatment for autoimmune dacryoadenitis.
Embedded Wafer Level Packaging for 77-GHz Automotive Radar Front-End With Through Silicon Via and its 3-D Integration (2013)

In this paper, a 77-GHz automotive radar sensor transceiver front-end module is packaged with a novel embedded wafer level packaging (EMWLP) technology. The bare transceiver die and the pre-fabricated through silicon via (TSV) chip are reconfigured to form a molded wafer through a compression molding process. The TSVs built on a high resistivity wafer serve as vertical interconnects, carrying radio-frequency (RF) signals up to 77 GHz. The RF path transitions are carefully designed to minimize the insertion loss in the frequency band of concern. The proposed EMWLP module also provides a platform to design integrated passive components. A substrate-integrated waveguide resonator is implemented with TSVs as the via fences, and it is later used to design a second-order 77-GHz high performance bandpass filter. Both the resonator and the bandpass filter are fabricated and measured, and the measurement results match with the simulation results very well.
Heterodimeric geranyl(geranyl)diphosphate synthase from hop ( <i>Humulus lupulus</i> ) and the evolution of monoterpene biosynthesis (2009)

Myrcene, which accounts for 30-50% of the essential oil in hop (Humulus lupulus L.) trichomes, derives from geranyl diphosphate (GPP), the common precursor of monoterpenes. Full-length sequences of heterodimeric GPP synthase small subunit (GPPS.SSU, belonging to the SSU I subfamily) and large subunit (LSU) cDNAs were mined from a hop trichome cDNA library. The SSU was inactive, whereas the LSU produced GPP, farnesyl diphosphate, and geranylgeranyl diphosphate (GGPP) from dimethylallyl diphosphate and isopentenyl diphosphate in vitro. Coexpression of both subunits in Escherichia coli yielded a heterodimeric enzyme exhibiting altered ratios of GPP and GGPP synthase activities and greatly enhanced catalytic efficiency. Transcript analysis suggested that the heterodimeric geranyl(geranyl)diphosphate synthase [G(G)PPS] is involved in myrcene biosynthesis in hop trichomes. The critical role of the conserved CxxxC motif (where "x" can be any hydrophobic amino acid residue) in physical interactions between the 2 subunits was demonstrated by using site-directed mutagenesis, and this motif was used in informatic searches to reveal a previously undescribed SSU subfamily (SSU II) present in both angiosperms and gymnosperms. The evolution and physiological roles of SSUs are discussed.
Apparatus and method for microwave processing of materials (2023)

A variable frequency microwave heating apparatus (10) designed to allow modulation of the frequency of the microwaves introduced into a furnace cavity (34) for testing or other selected applications. The variable frequency heating apparatus (10) is used in the method of the present invention to monitor the resonant processing frequency within the furnace cavity (34) depending upon the material, including the state thereof, from which the workpiece (36) is fabricated. The variable frequency microwave heating apparatus (10) includes a microwave signal generator (12) and a high-power microwave amplifier (20) or a microwave voltage-controlled oscillator (14). A power supply (22) is provided for operation of the high-power microwave oscillator (14) or microwave amplifier (20). A directional coupler (24) is provided for detecting the direction and amplitude of signals incident upon and reflected from the microwave cavity (34). A first power meter (30) is provided for measuring the power delivered to the microwave furnace (32). A second power meter (26) detects the magnitude of reflected power. Reflected power is dissipated in the reflected power load (28).
Text mining: Generating hypotheses from MEDLINE (2003)

Abstract Hypothesis generation, a crucial initial step for making scientific discoveries, relies on prior knowledge, experience, and intuition. Chance connections made between seemingly distinct subareas sometimes turn out to be fruitful. The goal in text mining is to assist in this process by automatically discovering a small set of interesting hypotheses from a suitable text collection. In this report, we present open and closed text mining algorithms that are built within the discovery framework established by Swanson and Smalheiser. Our algorithms represent topics using metadata profiles. When applied to MEDLINE, these are MeSH based profiles. We present experiments that demonstrate the effectiveness of our algorithms. Specifically, our algorithms successfully generate ranked term lists where the key terms representing novel relationships between topics are ranked high.
The ethics of multicultural and bilingual education (1993)

In this era of increasing emphasis on multicultural education, it is easy to get lost in the twin labyrinths of legal issues and cultural relativism as we seek the path that will allow all members of a diverse society to reconcile their differing visions and hopes for their children's futures. In Ethics of Multicultural and Bilingual Education, the authors propose an analytical approach that helps clarify these intercultural issues. This timely book aims to serve two main purposes. First, it offers readers an introduction to the ethical problems arising from cultural and linguistic differences among students, professional educators and parents in school settings. Second, it demonstrates and assesses the application of three different theories of political morality - Liberal, Democratic and Communitarian - that offer analytical approaches to solving these problems. The three theories are first explained in depth and then applied to ethical cases. These approaches are each based on a distinct set of moral concepts and patterns of agreement that specify how social decisions should be made. The authors analyse how these factors come into play and assess how well a given theory has worked in dealing with the issues presented in the case. This combination of theoretical understanding and insightful analysis provides an important foundation and encourages further thought and discussion. The book concludes with a chapter of additional cases for discussion that bring rights, moral obligations and cultural diversity to the fore. This book should be useful as a main text in courses and seminars - for in-service teachers, counsellors or administrators - that focus on cultural and ethnic diversity. It should also serve as a welcome supplemental text in a variety of preservice foundations courses. It should also be a useful resource for all concerned with multiculturalism and the role of ethics in education.
Distinct mechanisms mediate naïve and memory CD8 T-cell tolerance (2012)

Peripheral tolerance to developmentally regulated antigens is necessary to sustain tissue homeostasis. We have now devised an inducible and reversible system that allows interrogation of T-cell tolerance induction in endogenous naïve and memory CD8 T cells. Our data show that peripheral CD8 T-cell tolerance can be preserved through two distinct mechanisms, antigen addiction leading to anergy for naïve T cells and ignorance for memory T cells. Induction of antigen in dendritic cells resulted in substantial expansion and maintenance of endogenous antigen-specific CD8 T cells. The self-reactive cells initially exhibited effector activity but eventually became unresponsive. Upon antigen removal, the antigen-specific population waned, resulting in development of a self-specific memory subset that recalled to subsequent challenge. In striking contrast to naïve CD8 T cells, preexisting antigen-specific memory CD8 T cells failed to expand after antigen induction and essentially ignored the antigen despite widespread expression by dendritic cells. The inclusion of inflammatory signals partially overcame memory CD8 T-cell ignorance of self-antigen. Thus, peripheral CD8 T-cell tolerance for naïve CD8 T cells depended on the continuous presence of antigen, whereas memory CD8 T cells were prohibited from autoreactivity in the absence of inflammation.
Familial Hypocalciuric Hypercalcemia in a Woman with Metastatic Breast Cancer: A Case Report of Mistaken Identity (2003)

We describe a 45-yr-old woman with metastatic breast cancer and hypercalcemia previously diagnosed as hypercalcemia of malignancy and treated with bisphosphonates without changes of serum calcium (s-Ca). At the time of our evaluation, biochemical data [s-Ca, 10.8 mg/dl (2.70 mmol/liter); PTH, 24.4 pg/ml (2.6 pmol/liter); 24-h urinary calcium, 160 mg (4.0 mmol); calcium/creatinine clearance, 0.007] suggested the diagnosis of familial hypocalciuric hypercalcemia. Three of five relatives had mild hypercalcemia [s-Ca, 10.7-11.2 mg/dl (2.67-2.80 mmol/liter)] and detectable serum PTH [24.5-29.0 pg/ml (2.6-3.1 pmol/liter)]. A novel heterozygous I212T missense mutation in exon 4 of the calcium-sensing receptor (CaR) gene was found in the proband and affected relatives but not in unaffected relatives. Expression of the mutant I212T CaR in COS-7 cells resulted in no response of inositol phosphates to any calcium concentration. The calcium dose-response curve of the coexpressed receptors [wild-type/I212T] suggested that the mutant receptor interferes with the function of the wild-type receptor. In conclusion, we describe a case of familial hypocalciuric hypercalcemia due to a novel CaR mutation, in a woman with breast cancer in whom hypercalcemia was initially attributed to hypercalcemia of malignancy.
Targeted Integration of Single-Copy Transgenes in <i>Drosophila melanogaster</i> Tissue-Culture Cells Using Recombination-Mediated Cassette Exchange (2015)

Transfection of transgenes into Drosophila cultured cells is a standard approach for studying gene function. However, the number of transgenes present in the cell following transient transfection or stable random integration varies, and the resulting differences in expression level affect interpretation. Here we developed a system for Drosophila cell lines that allows selection of cells with a single-copy transgene inserted at a specific genomic site using recombination-mediated cassette exchange (RMCE). We used the φC31 integrase and its target sites attP and attB for RMCE. Cell lines with an attP-flanked genomic cassette were transfected with donor plasmids containing a transgene of interest (UAS-x), a dihydrofolate reductase (UAS-DHFR) gene flanked by attB sequences, and a thymidine kinase (UAS-TK) gene in the plasmid backbone outside the attB sequences. In cells undergoing RMCE, UAS-x and UAS-DHFR were exchanged for the attP-flanked genomic cassette, and UAS-TK was excluded. These cells were selected using methotrexate, which requires DHFR expression, and ganciclovir, which causes death in cells expressing TK. Pure populations of cells with one copy of a stably integrated transgene were efficiently selected by cloning or mass culture in ∼6 weeks. Our results show that RMCE avoids the problems associated with current methods, where transgene number is not controlled, and facilitates the rapid generation of Drosophila cell lines in which expression from a single transgene can be studied.