gebhart/patrepeval huggingface dataset:
Epigenetic and genetic features of 24 colon cancer cell lines (2013)

Cell lines are invaluable biomedical research tools, and recent literature has emphasized the importance of genotype authentication and characterization. In the present study, 24 out of 27 cell line identities were confirmed by short tandem repeat profiling. The molecular phenotypes of the 24 colon cancer cell lines were examined, and microsatellite instability (MSI) and CpG island methylator phenotype (CIMP) were determined, using the Bethesda panel mononucleotide repeat loci and two epimarker panels, respectively. Furthermore, the BRAF, KRAS and PIK3CA oncogenes were analyzed for mutations in known hotspots, while the entire coding sequences of the PTEN and TP53 tumor suppressors were investigated. Nine cell lines showed MSI. Thirteen and nine cell lines were found to be CIMP positive, using the Issa panel and the Weisenberger et al. panel, respectively. The latter was found to be superior for CIMP classification of colon cancer cell lines. Seventeen cell lines harbored disrupting TP53 mutations. Altogether, 20/24 cell lines had the mitogen-activated protein kinase pathway activating mutually exclusive KRAS or BRAF mutations. PIK3CA and PTEN mutations leading to hyperactivation of the phosphoinositide 3-kinase/AKT pathway were observed in 13/24 cell lines. Interestingly, in four cell lines there were no mutations in neither BRAF, KRAS, PIK3CA nor in PTEN. In conclusion, this study presents molecular features of a large number of colon cancer cell lines to aid the selection of suitable in vitro models for descriptive and functional research.
Plerixafor+G-CSF–mobilized CD34+ cells represent an optimal graft source for thalassemia gene therapy (2015)

Globin gene therapy requires abundant numbers of highly engraftable, autologous hematopoietic stem cells expressing curative levels of β-globin on differentiation. In this study, CD34+ cells from 31 thalassemic patients mobilized with hydroxyurea+granulocyte colony-stimulating factor (G-CSF), G-CSF, Plerixafor, or Plerixafor+G-CSF were transduced with the TNS9.3.55 β-globin lentivector and compared for transducibility and globin expression in vitro, as well as engraftment potential in a xenogeneic model after partial myeloablation. Transduction efficiency and vector copy number (VCN) averaged 48.4 ± 2.8% and 1.91 ± 0.04, respectively, whereas expression approximated the one-copy normal β-globin output. Plerixafor+G-CSF cells produced the highest β-globin expression/VCN. Long-term multilineage engraftment and persistent VCN and vector expression was encountered in all xenografted groups, with Plerixafor+G-CSF-mobilized cells achieving superior short-term engraftment rates, with similar numbers of CD34+ cells transplanted. Overall, Plerixafor+G-CSF not only allows high CD34+ cell yields but also provides increased β-globin expression/VCN and enhanced early human chimerism under nonmyeloablative conditions, thus representing an optimal graft for thalassemia gene therapy.
Nonconstrained Blood Pressure Measurement by Photoplethysmography (2006)

Blood pressure was predicted from photoplethysmography (PPG). To obtain PPG, backscattered light from a fingertip was measured and its waveform was analyzed. Systolic upstroke time and diastolic time in the pulse waveform were used as parameters to predict blood pressure. The experiment was carried out with five subjects on five different days. The systolic upstroke time had a correlation coefficient of -0.605 with respect to systolic blood pressure and the diastolic time had a correlation coefficients of -0.764 for diastolic pressure. This PPG method does not require an air-cuff installation on the arm and can predict blood pressure continuously. This simple LED/photo detector setup can be a good candidate for nonconstrained monitoring of blood pressure variations.
Synthesis of a New Nanosilica-Based Antioxidant and Its Influence on the Anti-Oxidation Performance of Natural Rubber (2012)

Abstract Nanosilica was modified with a silane coupling agent 3-Glycidoxypro- pyltrimethoxysilane (KH-560) and then reacted with p-aminodiphenylamine (RT) to obtain a new nanosilica-based antioxidant. Fourier transform infrared and thermogravimetric (TGA) analysis measurements confirmed the successful grafting of RT to the nanosilica surface. Scanning electron microscope analysis showed that the nanosilica-based antioxidant could be homogeneously dispersed in a natural rubber matrix. Differential scanning calorimetry and TGA were used to measure the thermal oxidative behavior of rubber vulcanizates with different types of fillers. It was found that the thermal oxidative stability of rubber vulcanizates with the nanosilica-based antioxidant was improved to a greater extent than that with other fillers examined. Keywords: nanosilicanatural rubber p-aminodiphenylaminethermal oxidative stability
Low-binding alleles of Fc? receptor types IIA and IIIA are inherited independently and are associated with systemic lupus erythematosus in Hispanic patients (2001)

We observed an increase in the frequency of low-binding FcgammaR alleles in an SLE population with a high prevalence of renal disease. The apparent selection for the FcgammaRIIa-R131;FcgammaRIIIa-F176 haplotype in Hispanic patients suggests that low-binding alleles of both FcgammaRIIa and FcgammaRIIIa confer risk for SLE and may act additively in the pathogenesis of disease, whereas the high-binding haplotype FcgammaRIIa-H131;FcgammaRIIIa-V176 is protective, particularly in the homozygous state.
Repeated administrations of interleukin (IL)-12 are associated with persistently elevated plasma levels of IL-10 and declining IFN-gamma, tumor necrosis factor-alpha, IL-6, and IL-8 responses. (2003)

Induction of pro-inflammatory cytokines and associated fluctuations in leukocyte subset counts decrease on repeated administrations of rHuIL-12. The steady increment of IL-10 plasma levels may mediate the observed down-regulation of clinical and immunological effects.
Development of a CRISPR/Cas9 system for high efficiency multiplexed gene deletion in Rhodosporidium toruloides (2019)

The oleaginous yeast Rhodosporidium toruloides is considered a promising candidate for production of chemicals and biofuels thanks to its ability to grow on lignocellulosic biomass, and its high production of lipids and carotenoids. However, efforts to engineer this organism are hindered by a lack of suitable genetic tools. Here we report the development of a CRISPR/Cas9 system for genome editing in R. toruloides based on a fusion 5S rRNA-tRNA promoter for guide RNA (gRNA) expression, capable of greater than 95% gene knockout for various genetic targets. Additionally, multiplexed double-gene knockout mutants were obtained using this method with an efficiency of 78%. This tool can be used to accelerate future metabolic engineering work in this yeast.
β4 integrin activates a Shp2–Src signaling pathway that sustains HGF-induced anchorage-independent growth (2006)

Despite being a cell–matrix adhesion molecule, β4 integrin can prompt the multiplication of neoplastic cells dislodged from their substrates (anchorage-independent growth). However, the molecular events underlying this atypical behavior remain partly unexplored. We found that activation of the Met receptor for hepatocyte growth factor results in the tyrosine phosphorylation of β4, which is instrumental for integrin-mediated recruitment of the tyrosine phosphatase Shp2. Shp2 binding to β4 enhances the activation of Src, which, in turn, phosphorylates the multiadaptor Gab1 predominantly on consensus sites for Grb2 association, leading to privileged stimulation of the Ras–extracellular signal-regulated kinase (ERK) cascade. This signaling axis can be inhibited by small interfering RNA–mediated β4 depletion, by a β4 mutant unable to bind Shp2, and by pharmacological and genetic inhibition of Shp2 or Src. Preservation of the β4 docking sites for Shp2 as well as the integrity of Shp2, Src, or ERK activity are required for the β4-mediated induction of anchorage-independent growth. These results unravel a novel pathway whereby β4 directs tyrosine kinase–based signals toward adhesion-unrelated outcomes.
Polymer‐Based Photonic Crystals (2001)

In this report, we highlight the development of polymers as 1D photonic crystals and subsequently place special emphasis on the activities in self-assembled block copolymers as a promising platform material for new photonic crystals. We review recent progress, including the use of plasticizer and homopolymer blends of diblock copolymers to increase periodicity and the role of self-assembly in producing 2D and 3D photonic crystals. The employment of inorganic nanoparticles to increase the dielectric contrast and the application of a biasing field during self-assembly to control the long-range domain order and orientation are examined, as well as in-situ tunable materials via a mechanochromic materials system. Finally, the inherent optical anisotropy of extruded polymer films and side-chain liquid-crystalline polymers is shown to provide greater degrees of freedom for further novel optical designs.
THE STRATEGIC ALIGNMENT BETWEEN INFORMATION TECHNOLOGY ANDBUSINESS AREAS: A STUDY IN BRAZILIAN STATE BANK (2008)

This study evaluated the perception of employees in the
					area of the Information Technology (IT), of a great Brazilian state
					bank, with respect to the strategies in this area of business
					units, in function of the strategic planning of the institution.
					The descriptive research, with quantitative method was conducted
					with a structured questionnaire. The social citizens were the
					professionals who occupy positions of management, coordination,
					analysis business-oriented and analyze of systems in the studied
					bank. The collected data were processed by STATISTICAL techniques,
					with SPSSe V13. The results were presented in the form of through
					factors that demonstrate the understanding that the staff of the IT
					company has in relation to business policies established by the
					administration for the institution. The results highlight, among
					others, the strategic alignment of the area of IT and technology
					strategies as factors that define the role of the area of IT to the
					business of the institution.
Prostaglandin D2 mediates neuronal protection via the DP1 receptor (2004)

Cyclo-oxygenases (COXs) catalyze the first committed step in the synthesis of the prostaglandins PGE(2), PGD(2), PGF(2alpha), PGI(2) and thomboxane A(2). Expression and enzymatic activity of COX-2, the inducible isoform of COX, are observed in several neurological diseases and result in significant neuronal injury. The neurotoxic effect of COX-2 is believed to occur through downstream effects of its prostaglandin products. In this study, we examined the function of PGD(2) and its two receptors DP1 and chemoattractant receptor-homologous molecule expressed on Th2 cells (CRTH2) (DP2) in neuronal survival. PGD(2) is the most abundant prostaglandin in brain and regulates sleep, temperature and nociception. It signals through two distinct G protein-coupled receptors, DP1 and DP2, that have opposing effects on cyclic AMP (cAMP) production. Physiological concentrations of PGD(2) potently and unexpectedly rescued neurons in paradigms of glutamate toxicity in cultured hippocampal neurons and organotypic slices. This effect was mimicked by the DP1-selective agonist BW245C but not by the PGD(2) metabolite 15d-PGJ(2), suggesting that neuroprotection was mediated by the DP1 receptor. Conversely, activation of the DP2 receptor promoted neuronal loss. The protein kinase A inhibitors H89 and KT5720 reversed the protective effect of PGD(2), indicating that PGD(2)-mediated neuroprotection was dependent on cAMP signaling. These studies indicate that activation of the PGD(2) DP1 receptor protects against excitotoxic injury in a cAMP-dependent manner, consistent with recent studies of PGE(2) receptors that also suggest a neuroprotective effect of prostaglandin receptors. Taken together, these data support an emerging and paradoxical neuroprotective role of prostaglandins in the CNS.
Thionins: Plant Peptides that Modify Membrane Permeability in Cultured Mammalian Cells (1981)

Thionins, which are high-sulphur polypeptides present in the endosperm of wheat and related species, have ben found to prevent growth and to inhibit macromolecular synthesis in cultured mammalian cells. Baby hamster kidney (BHK) cells were markedly more sensitive to thionins than the other cell lines tested (monkey CV1, mouse L, human HeLa). A thionin concentration of 5 microgram/ml (1 microM) completely blocked translation in BHK cells. It was later found that omission of both calcium and magnesium ions from the medium strongly enhanced the inhibitory effects of thionins (BHK cells, 80% inhibition, 0.5 microgram/ml). Several lines of evidence indicate that thionins might act at the membrane level. Indeed, both the 86Rb+ content and the nucleotide pool of BHK cells were drastically decreased at thionin concentrations that inhibited translation. In addition, thionin concentrations that did not affect macromolecular synthesis in these cells, allowed inhibition of translation by antibiotics, such as hygromycin B, that are not able to cross the cell plasma membrane by themselves. Our results suggest that the inhibition of protein, RNA and DNA synthesis in BHK cells might be a consequence of membrane leakiness induced by thionin treatment. In this respect, particularly striking was the parallelism found between 86Rb+ leakage and inhibition of protein synthesis by treatment with different genetic variants of thionins (alpha 1 purothionin, alpha 2 purothionin, beta purothionin from wheat; hordothionin from barley), as well as with the viscotoxins, which are homologous polypeptides from the European mistletoe.
Improving Potato Storage and Processing Characteristics through All-Native DNA Transformation (2006)

The dominant potato (Solanum tuberosum) variety for French fry production in the United States is the 131-year-old Russet Burbank. Market penetration of the higher yielding and more uniform Ranger Russet variety is limited to about one-fifth of that of the Russet Burbank because of two storage deficits: black spot bruise sensitivity and high levels of cold-induced sweetening. Here, these trait weaknesses are turned into strengths by simultaneously lowering the expression of Ranger Russet's tuber-expressed polyphenol oxidase (Ppo), starch-associated R1, and phosphorylase-L (PhL) genes. This genetic modification was accomplished without inserting any foreign DNA into the plant genome. French fries from the intragenic potatoes also contained reduced amounts of the antinutritional compound acrylamide while, unexpectedly, displaying enhanced sensory characteristics.
Genetic Analysis of Vaccinia Virus Lister Strain and Its Attenuated Mutant LC16m8: Production of Intermediate Variants by Homologous Recombination (1987)

We prepared vaccinia virus variants by introducing part of the HindIII D fragment of the DNA of the parental Lister (LO) strain (temperature-resistant and forming large plaques and pocks) into the attenuated LC16m8 strain (temperature-sensitive and forming small plaques and pocks) by the use of a homologous recombination technique in vivo. Special attention was paid to the HindIII D fragment, since this fragment has an extra XhoI site in LC16m8 which is absent from LO. After HindIII D of LO was introduced as a calcium phosphate precipitate into rabbit kidney (RK13) cells which had been infected with LC16m8, five virus variants (LOTC-1 to LOTC-5) forming much larger plaques than LC16m8 were cloned. In LOTC-2, LOTC-4 and LOTC-5, the introduction of at least part of HindIII D of LO into the corresponding HindIII D region of the LC16m8 genome was apparent as judged by the disappearance of the XhoI site, whereas variants LOTC-1 and LOTC-3 retained the site. The biological characteristics of all the LOTC variants were similar to each other. Their plaque size and pock size were similar to those of LO, whereas they were rather akin to LC16m8 with regard to temperature sensitivity and neurovirulence. The present results strongly suggested that part of the HindIII D fragment was involved in determining biological characteristics affecting plaque size and pock size, but had little influence on temperature sensitivity and neurovirulence.
SALIVA AS A DIAGNOSTIC MEDIUM (2009)

Doubtless, the diagnostic value of saliva, aided by current technological development will increase rapidly in the near future.
Preparation of Laponite Bioceramics for Potential Bone Tissue Engineering Applications (2014)

We report a facile approach to preparing laponite (LAP) bioceramics via sintering LAP powder compacts for bone tissue engineering applications. The sintering behavior and mechanical properties of LAP compacts under different temperatures, heating rates, and soaking times were investigated. We show that LAP bioceramic with a smooth and porous surface can be formed at 800°C with a heating rate of 5°C/h for 6 h under air. The formed LAP bioceramic was systematically characterized via different methods. Our results reveal that the LAP bioceramic possesses an excellent surface hydrophilicity and serum absorption capacity, and good cytocompatibility and hemocompatibility as demonstrated by resazurin reduction assay of rat mesenchymal stem cells (rMSCs) and hemolytic assay of pig red blood cells, respectively. The potential bone tissue engineering applicability of LAP bioceramic was explored by studying the surface mineralization behavior via soaking in simulated body fluid (SBF), as well as the surface cellular response of rMSCs. Our results suggest that LAP bioceramic is able to induce hydroxyapatite deposition on its surface when soaked in SBF and rMSCs can proliferate well on the LAP bioceramic surface. Most strikingly, alkaline phosphatase activity together with alizarin red staining results reveal that the produced LAP bioceramic is able to induce osteoblast differentiation of rMSCs in growth medium without any inducing factors. Finally, in vivo animal implantation, acute systemic toxicity test and hematoxylin and eosin (H&E)-staining data demonstrate that the prepared LAP bioceramic displays an excellent biosafety and is able to heal the bone defect. Findings from this study suggest that the developed LAP bioceramic holds a great promise for treating bone defects in bone tissue engineering.
fMRI studies of associative encoding in young and elderly controls and mild Alzheimer's disease (2002)

The pattern of fMRI activation during the encoding of novel associations is differentially altered in the early stages of Alzheimer's disease compared with normal aging.
ChemInform Abstract: Ketone‐Ketone Condensations of Polyhaloalkyl Phenyl Ketones. (1993)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Stereotactic radiotherapy for treatment of juxtapapillary choroidal melanoma: 3-year follow-up (2009)

Stereotactic radiotherapy offers a non-invasive alternative to enucleation and brachytherapy in the management of juxtapapillary choroidal melanoma with a high tumour control rate, however, at the expense of a significant rate of long-term ocular complications.
Characteristics of cell lines established from human gastric carcinoma. (1990)

We report the establishment and characterization of four continuous cell lines derived from human primary and metastatic gastric carcinomas, and we compare their properties with a panel of colorectal carcinoma cell lines previously established and reported by us. Our success rate in culturing gastric carcinomas was relatively low, especially from primary tumors, compared to colorectal carcinoma. These observations may reflect the relatively modest number of gastric carcinoma cell lines established (mainly from Japan), compared to the abundance of colorectal carcinoma lines established worldwide. All four gastric lines expressed the surface glycoproteins carcinoembryonic antigen and TAG-72 and three lines expressed CA 19-9. Two of the lines expressed aromatic amino acid decarboxylase but lacked other markers for neuroendocrine differentiation. All four lines were positive for vasoactive intestinal peptide receptors but lacked gastrin receptors. In addition, two lines expressed receptors for muscarinic/cholinergic receptors but not beta-adrenergic receptors. Cytogenetic evidence for gene amplification was present in the cell lines. All four lines contained varying numbers of double-minute chromosomes. One line, SNU-16, was amplified for the c-myc proto-oncogene and contained four homogeneously staining regions. While c-myc and c-erb-B-2 RNA were expressed by all lines, there was no evidence of amplification or overexpression of several other proto-oncogenes and growth factors. The multiple properties we have described in our gastric carcinoma cell lines are remarkably similar to those found in the panel of colorectal carcinoma cell lines. These properties include morphology, growth characteristics, expression of surface glycoproteins, partial expression of neuroendocrine cell markers, frequent chromosomal evidence of gene amplification, and occasional amplification of the c-myc proto-oncogene. Our four well characterized cell lines should provide useful additions to the modest number currently available for in vitro studies of gastric carcinoma.
A Class of Efficient Contention Resolution Algorithms for Multiple Access Channels (1985)

A discrete time multiaccess channel is considered where the outcome of a transmission is either "idle," "success," or "collision," depending on the number of users transmitting simultaneously. Messages involved in a "collision" must be retransmitted. An efficient access allocation policy is developed for the case where infinitely many sources generate traffic in a Poisson manner and can all observe the outcomes of the previous transmissions. Its rate of success is 0.48776. Modifications are presented for the cases where the transmission times depend on the transmission outcomes and where observations are noisy.
Very high efficiency silicon solar cells-science and technology (1999)

Although it has been close to 60 years since the first operational silicon solar cell was demonstrated, the last 15 years have seen large improvements in the technology, with the best confirmed cell efficiency improved by over 50 %. The main drivers have been improved electrical and optical design of the cells. Improvements in the former area include improved passivation of contact and surface regions of the cells and a reduction in the volume of heavily doped material within the cell. Optically, reduced reflection and improved trapping of light within the cell have had a large impact. Such features have increased silicon cell efficiency to a recently confirmed value of 24.7%. Over recent years, good progress has been made in transferring some of the corresponding design improvements into commercial product with commercial cells of 17-18% efficiency now commercially available, record values of a mere 15 years ago. The theory supporting these improvements in bulk cell efficiency shows that thin layers of silicon, only a micron or so in thickness, should be capable of comparably high efficiency.
Long wavelength sensitizers for europium(iii) luminescence based on acridone derivatives (2002)

The preparation of several acridone derivatives which have been shown to act as sensitizers for europium(III) luminescence at wavelengths longer than 400 nm is described. The efficiency of sensitization increases as the chromophore is held closer to the ion and the inner sphere hydration number of the ion lowered.