gebhart/patrepeval huggingface dataset:
Serum-neutralizing antibody to VP4 and VP7 proteins in infants following vaccination with WC3 bovine rotavirus (1990)

Serum specimens from infants 2 to 12 months old vaccinated with the WC3 bovine rotavirus were analyzed to determine the relative concentrations of neutralizing antibody to the VP4 and VP7 proteins of the vaccine virus. To do this, reassortant rotaviruses that contained the WC3 genome segment for only one of these two neutralization proteins were made. The segment for the other neutralization protein in these reassortants was from heterotypic rotaviruses that were serotypically distinct from WC3. Sera were examined from 31 infants who had no evidence of a previous rotavirus infection and the highest postvaccination WC3-neutralizing antibody titers (i.e., 160 to 600) of the 103 subjects administered the vaccine. A reassortant (3/17) that contained both neutralization proteins from the heterotypic rotaviruses, i.e., EDIM (EW strain of mouse rotavirus) VP7 and rhesus rotavirus VP4, was not neutralized by these sera (geometric mean titer [GMT], less than 20). A reassortant (E19) that contained EDIM VP7 and WC3 VP4 was also very poorly neutralized by these antisera (GMT = 20). In contrast, antibody titers to a reassortant (R20) that contained WC3 VP7 and rhesus rotavirus VP4 were higher than those against WC3 (GMTs of 458 and 313, respectively). Thus, VP7 appeared to be the dominant immunogen for production of neutralizing antibody after intestinal infection of previously uninfected infants vaccinated with WC3 bovine rotavirus.
Implementation and Analyses of the Mobile-IP Protocol (1996)

This report is the result of a masters degree project conducted at the Department of Teleinformatics at the Royal Institute of Technology during the autumn 1995. The area investigated is the Mobile Internet Protocol, especially its implementation and efficiency.&#13;\n&#13;\nThe thesis work is divided into three areas. The first area includes the development and implementation of a Management Information Base for the Mobile-IP protocol. The second area deals with the porting of a Mobile-IP implementation for SunOS to MachOS and Solaris. The last area covers the tests done to measure the throughput and latency of the protocol.
Liver sinusoidal endothelial cells and liver regeneration (2013)

Liver sinusoidal endothelial cells (LSECs) have long been noted to contribute to liver regeneration after liver injury. In normal liver, the major cellular source of HGF is the hepatic stellate cell, but after liver injury, HGF expression has been thought to increase markedly in proliferating LSECs. However, emerging data suggest that even after injury, LSEC expression of HGF does not increase greatly. In contrast, bone marrow progenitor cells of LSECs (BM SPCs), which are rich in HGF, are recruited to the liver after injury. This Review examines liver regeneration from the perspective that BM SPCs that have been recruited to the liver, rather than mature LSECs, drive liver regeneration.
Isolation and characterization of nitrogenase-derepressed mutant strains of cyanobacterium Anabaena variabilis (1986)

A positive selection method for isolation of nitrogenase-derepressed mutant strains of a filamentous cyanobacterium, Anabaena variabilis, is described. Mutant strains that are resistant to a glutamate analog, L-methionine-D,L-sulfoximine, were screened for their ability to produce and excrete NH4+ into medium. Mutant strains capable of producing nitrogenase in the presence of NH4+ were selected from a population of NH4+-excreting mutants. One of the mutant strains (SA-1) studied in detail was found to be a conditional glutamine auxotroph requiring glutamine for growth in media containing N2, NO3-, or low concentrations of NH4+ (less than 0.5 mM). This glutamine requirement is a consequence of a block in the assimilation of NH4+ produced by an enzyme system like nitrogenase. Glutamate and aspartate failed to substitute for glutamine because of a defect in the transport and utilization of these amino acids. Strain SA-1 assimilated NH4+ when the concentration in the medium reached about 0.5 mM, and under these conditions the growth rate was similar to that of the parent. Mutant strain SA-1 produced L-methionine-D,L-sulfoximine-resistant glutamine synthetase activity. Kinetic properties of the enzyme from the parent and mutant were similar. Mutant strain SA-1 can potentially serve as a source of fertilizer nitrogen to support growth of crop plants, since the NH4+ produced by nitrogenase, utilizing sunlight and water as sources of energy and reductant, respectively, is excreted into the environment.
An Ultra-Low Power 2.4GHz RF Transceiver for Wireless Sensor Networks in 0.13/spl mu/m CMOS with 400mV Supply and an Integrated Passive RX Front-End (2006)

A 2.4GHz RF transceiver in 130nm CMOS for sensor networks is presented. The transceiver operates from 400mV to accommodate a single solar cell power supply. The RX dissipates 200 to 750μW and achieves a 6.7dB NF and a -6.2dBm IIP3 at 330μW. At 300μW output power, the PA is 44% efficient and the overall TX is 30% efficient
TScratch: a novel and simple software tool for automated analysis of monolayer wound healing assays (2009)

Cell migration plays a major role in development, physiology, and disease, and is frequently evaluated in vitro by the monolayer wound healing assay. The assay analysis, however, is a time-consuming task that is often performed manually. In order to accelerate this analysis, we have developed TScratch, a new, freely available image analysis technique and associated software tool that uses the fast discrete curvelet transform to automate the measurement of the area occupied by cells in the images. This tool helps to significantly reduce the time needed for analysis and enables objective and reproducible quantification of assays. The software also offers a graphical user interface which allows easy inspection of analysis results and, if desired, manual modification of analysis parameters. The automated analysis was validated by comparing its results with manual-analysis results for a range of different cell lines. The comparisons demonstrate a close agreement for the vast majority of images that were examined and indicate that the present computational tool can reproduce statistically significant results in experiments with well-known cell migration inhibitors and enhancers.
Pattern generation on semiconductor surfaces by a scanning tunneling microscope operating in air (1991)

Recent results employing scanning tunneling microscope-based techniques for the generation of nanometer-scale patterns on passivated semiconductor surfaces are presented. Preparation and characterization of hydrogen-passivated silicon and sulfur-passivated gallium arsenide surfaces are described and the determination of the chemical and morphological properties of the patterned regions by scanning electron microscopy and time-of-flight secondary ion mass spectrometry are discussed. Our recent demonstration that ultrashallow, oxide features written by scanning tunneling microscope (STM) can serve as an effective mask for selective-area GaAs heteroepitaxy on silicon is used to illustrate key requirements necessary for the realization of a unique, STM-based nanotechnology.
An unusual dimer resulting from the addition of ethyl chloroformate to a 2-lithio-1,3-dithiane (1982)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAn unusual dimer resulting from the addition of ethyl chloroformate to a 2-lithio-1,3-dithianeJohn C. Sih, David R. Graber, Stephen A. Mizsak, and Terrence A. ScahillCite this: J. Org. Chem. 1982, 47, 22, 4362–4364Publication Date (Print):October 1, 1982Publication History Published online1 May 2002Published inissue 1 October 1982https://pubs.acs.org/doi/10.1021/jo00143a046https://doi.org/10.1021/jo00143a046research-articleACS PublicationsRequest reuse permissionsArticle Views75Altmetric-Citations4LEARN 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
Autistic enterocolitis: is it a histopathological entity?—reply (2007)

A series of studies in children with pervasive developmental disorder and gastrointestinal symptoms has reported the presence of a subtle mucosal inflammation, immunohistochemical abnormalities of structure and cellular infiltrate, pro‐inflammatory lymphocyte cytokine profiles, and functional intestinal abnormalities. MacDonald and Domizio question the existence of the mucosal lesion. In contrast, independent replication of the original findings has come from Europe, and North and South America; the data are presented. The willingness of the authors to attribute any mucosal changes to chronic constipation relies heavily on what appears to be a misinterpretation of data that is confounded by the association between cow's milk intolerance and constipation in children. A re‐challenge effect on intestinal symptoms and a biological gradient of mucosal inflammation is evident for an alternative environmental exposure in some children. Application of the research tools and methods that have been developed to examine the pathogenesis of inflammatory bowel disease should be applied to the investigation of affected children in order to further advance our understanding and treatment of this lesion.
The World Wide Web - Past, Present and Future (2006)

Tim Berners-Lee was awarded a Distinguished Fellowship of the British Computer Society on July 17, 1996 at the new British Library in London. The following is a transcript of his presentation.
Interactive data analysis: the Control project (1999)

Data analysis is fundamentally an iterative process in which you issue a query, receive a response, formulate the next query based on the response, and repeat. You usually don't issue a single, perfectly chosen query and get the information you want from a database; indeed, the purpose of data analysis is to extract unknown information, and in most situations, there is no one perfect query. People naturally start by asking broad, big-picture questions and then continually refine their questions based on feedback and domain knowledge. In the Control (Continuous Output and Navigation Technology with Refinement Online) project at the University of California, Berkeley, the authors are working with collaborators at IBM, Informix, and elsewhere to explore ways to improve human-computer interaction during data analysis. The Control project's goal is to develop interactive, intuitive techniques for analyzing massive data sets.
Fast and accurate recurrent neural network acoustic models for speech recognition (2015)

We have recently shown that deep Long Short-Term Memory (LSTM) recurrent neural networks (RNNs) outperform feed forward deep neural networks (DNNs) as acoustic models for speech recognition. More recently, we have shown that the performance of sequence trained context dependent (CD) hidden Markov model (HMM) acoustic models using such LSTM RNNs can be equaled by sequence trained phone models initialized with connectionist temporal classification (CTC). In this paper, we present techniques that further improve performance of LSTM RNN acoustic models for large vocabulary speech recognition. We show that frame stacking and reduced frame rate lead to more accurate models and faster decoding. CD phone modeling leads to further improvements. We also present initial results for LSTM RNN models outputting words directly.
Bone Morphogenetic Protein Type I Receptor Antagonists Decrease Growth and Induce Cell Death of Lung Cancer Cell Lines (2013)

Bone morphogenetic proteins (BMPs) are highly conserved morphogens that are essential for normal development. BMP-2 is highly expressed in the majority of non-small cell lung carcinomas (NSCLC) but not in normal lung tissue or benign lung tumors. The effects of the BMP signaling cascade on the growth and survival of cancer cells is poorly understood. We show that BMP signaling is basally active in lung cancer cell lines, which can be effectively inhibited with selective antagonists of the BMP type I receptors. Lung cancer cell lines express alk2, alk3, and alk6 and inhibition of a single BMP receptor was not sufficient to decrease signaling. Inhibition of more than one type I receptor was required to decrease BMP signaling in lung cancer cell lines. BMP receptor antagonists and silencing of BMP type I receptors with siRNA induced cell death, inhibited cell growth, and caused a significant decrease in the expression of inhibitor of differentiation (Id1, Id2, and Id3) family members, which are known to regulate cell growth and survival in many types of cancers. BMP receptor antagonists also decreased clonogenic cell growth. Knockdown of Id3 significantly decreased cell growth and induced cell death of lung cancer cells. H1299 cells stably overexpressing Id3 were resistant to growth suppression and induction of cell death induced by the BMP antagonist DMH2. These studies suggest that BMP signaling promotes cell growth and survival of lung cancer cells, which is mediated through its regulation of Id family members. Selective antagonists of the BMP type I receptors represents a potential means to pharmacologically treat NSCLC and other carcinomas with an activated BMP signaling cascade.
Breast-Cancer Stromal Cells with TP53 Mutations and Nodal Metastases (2007)

Stroma-specific loss of heterozygosity or allelic imbalance is associated with somatic TP53 mutations and regional lymph-node metastases in sporadic breast cancer but not in hereditary breast cancer.
NOX4 NADPH Oxidase-Dependent Mitochondrial Oxidative Stress in Aging-Associated Cardiovascular Disease (2020)

Aims: Increased oxidative stress and vascular inflammation are implicated in increased cardiovascular disease (CVD) incidence with age. We and others demonstrated that NOX1/2 NADPH oxidase inhibition, by genetic deletion of p47phox, in Apoe−/− mice decreases vascular reactive oxygen species (ROS) generation and atherosclerosis in young age. The present study examined whether NOX1/2 NADPH oxidases are also pivotal to aging-associated CVD. Results: Both aged (16 months) Apoe−/− and Apoe−/−/p47phox−/− mice had increased atherosclerotic lesion area, aortic stiffness, and systolic dysfunction compared with young (4 months) cohorts. Cellular and mitochondrial ROS (mtROS) levels were significantly higher in aortic wall and vascular smooth muscle cells (VSMCs) from aged wild-type and p47phox−/− mice. VSMCs from aged mice had increased mitochondrial protein oxidation and dysfunction and increased vascular cell adhesion molecule 1 expression, which was abrogated with (2-(2,2,6,6-Tetramethylpiperidin-1-oxyl-4-ylamino)-2-oxoethyl)triphenylphosphonium chloride (MitoTEMPO) treatment. NOX4 expression was increased in the vasculature and mitochondria of aged mice and its suppression with shRNA in VSMCs from aged mice decreased mtROS levels and improved function. Increased mtROS levels were associated with enhanced mitochondrial NOX4 expression in aortic VSMCs from aged subjects, and NOX4 expression levels in arterial wall correlated with age and atherosclerotic severity. Aged Apoe−/− mice treated with MitoTEMPO and 2-(2-chlorophenyl)-4-methyl-5-(pyridin-2-ylmethyl)-1H-pyrazolo[4,3-c]pyridine-3,6(2H,5H)-dione had decreased vascular ROS levels and atherosclerosis and preserved vascular and cardiac function. Innovation and Conclusion: These data suggest that NOX4, but not NOX1/2, and mitochondrial oxidative stress are mediators of CVD in aging under hyperlipidemic conditions. Regulating NOX4 activity/expression and using mitochondrial antioxidants are potential approaches to reducing aging-associated CVD. Antioxid. Redox Signal. 23, 1389–1409.
Lysophosphatidic acid mediates the rapid activation of platelets and endothelial cells by mildly oxidized low density lipoprotein and accumulates in human atherosclerotic lesions (1999)

Oxidized low density lipoprotein (LDL) is a key factor in the pathogenesis of atherosclerosis and its thrombotic complications, such as stroke and myocardial infarction. It activates endothelial cells and platelets through mechanisms that are largely unknown. Here, we show that lysophosphatidic acid (LPA) was formed during mild oxidation of LDL and was the active compound in mildly oxidized LDL and minimally modified LDL, initiating platelet activation and stimulating endothelial cell stress-fiber and gap formation. Antagonists of the LPA receptor prevented platelet and endothelial cell activation by mildly oxidized LDL. We also found that LPA accumulated in and was the primary platelet-activating lipid of atherosclerotic plaques. Notably, the amount of LPA within the human carotid atherosclerotic lesion was highest in the lipid-rich core, the region most thrombogenic and most prone to rupture. Given the potent biological activity of LPA on platelets and on cells of the vessel wall, our study identifies LPA as an atherothrombogenic molecule and suggests a possible strategy to prevent and treat atherosclerosis and cardiocerebrovascular diseases.
Comparison of Discrimination Methods for the Classification of Tumors Using Gene Expression Data (2002)

A reliable and precise classification of tumors is essential for successful diagnosis and treatment of cancer. cDNA microarrays and high-density oligonucleotide chips are novel biotechnologies increasingly used in cancer research. By allowing the monitoring of expression levels in cells for thousands of genes simultaneously, microarray experiments may lead to a more complete understanding of the molecular variations among tumors and hence to a finer and more informative classification. The ability to successfully distinguish between tumor classes (already known or yet to be discovered) using gene expression data is an important aspect of this novel approach to cancer classification. This article compares the performance of different discrimination methods for the classification of tumors based on gene expression data. The methods include nearest-neighbor classifiers, linear discriminant analysis, and classification trees. Recent machine learning approaches, such as bagging and boosting, are also considered. The discrimination methods are applied to datasets from three recently published cancer gene expression studies.
Chemical modification of ligands for cell receptors to introduce foreign compounds into the cells (1994)

The inhibitory effect of c-myb antisense oligodeoxynucleotides conjugate to modified transferrin on LoVo Dx cell proliferation was examined. Protocols to modify physiologic ligands to be used as vehicles for a selective delivery are shown. Modified ligand molecules should also be used to covalently bind liposome-carrying compounds able to affect neoplastic growth.
Estrogen Receptor Alpha (ER-α) and Beta (ER-β) mRNAs in Normal Ovary, Ovarian Serous Cystadenocarcinoma and Ovarian Cancer Cell Lines: Down-Regulation of ER-β in Neoplastic Tissues (1998)

The prognosis in ovarian carcinoma, the most lethal of the gynecologic neoplasms, is poor and has changed little in the last three decades. Only a small number respond to antiestrogen therapy, although the classic estrogen receptor, ER-alpha, has been identified in ovarian surface epithelium, from which approximately 90% of ovarian cancers originate. We have previously shown that ER-beta mRNA is most abundant in human fetal ovaries, suggesting that it might play an important role in ovarian development. Therefore, we investigated the mRNA levels of both ERs in normal ovaries, ovarian serous cystadenocarcinomas, granulosa cells from patients undergoing in vitro fertilization (IVF), the ovarian surface epithelium cell line IOSE-Van, and the ovarian cancer cell lines SKOV3, HEY and OCC1. Northern blots of normal and neoplastic ovaries were hybridized with an ER-beta riboprobe that spans the A/B domain. We detected two major hybridizing bands at approximately 8 and 10 kb. An RNase protection assay using the same probe revealed a single band of the expected size. Hybridizing the same blot with an ER-alpha riboprobe showed a strong hybridizing band at approximately 6.5 kb. In ovarian cancer samples, ER-beta mRNA level was decreased when compared to normal ovaries. Using 25 cycles of RT-PCR followed by Southern blotting, we found equal amounts of ER-alpha and -beta mRNAs in normal ovaries in all age groups from 33 to 75 years; however, in ovarian cancer tissue, the level of ER-alpha mRNA was similar or slightly higher, comparable to 10(3) to 10(4) copies of plasmid DNA, but ER-beta mRNA levels were markedly decreased. Granulosa cells from IVF patients expressed high levels of ER-beta mRNA. The OSE cell line expressed a low level of ER-alpha, detectable after 40 cycles of RT-PCR and no ER-beta mRNA. SKOV3 showed a low level of ER-alpha and -beta mRNAs, whereas OCC1 showed a low level of ER-beta and a relatively high level of ER-alpha. HEY did not contain detectable amounts of either ER after 40 cycles of RT-PCR. We found no evidence of differential splicing or major deletions in almost the entire coding region of ER-beta in either normal ovaries or tumor samples.
Modification of tomato taste in transgenic plants carrying a thaumatin gene from Thaumatococcus daniellii Benth (2003)

Abstract Fruit taste is an important component of fruit quality, but its genetic basis is complex, making it difficult to alter by plant breeding. Thaumatin is a sweet‐tasting, flavour‐enhancing protein produced by fruits of the African plant Thaumatococcus daniellii Benth. Agrobac‐terium‐mediated transformation was used to produce two transgenic tomato lines expressing biologically active thaumatin in fruits. Transgenic tomato fruits from the T 2 plant generation were sweeter than the controls and possessed a specific aftertaste as determined by sensory evaluation. These results demonstrate that transgenic expression of thaumatin could be useful for modifying tomato fruit taste, especially in breeding lines possessing poor fruit taste, such as those carrying a non‐ripening (nor) mutation.