gebhart/patrepeval huggingface dataset:
Targeted sequencing identifies associations between IL7R-JAK mutations and epigenetic modulators in T-cell acute lymphoblastic leukemia (2015)

T-cell acute lymphoblastic leukemia is caused by the accumulation of multiple oncogenic lesions, including chromosomal rearrangements and mutations. To determine the frequency and co-occurrence of mutations in T-cell acute lymphoblastic leukemia, we performed targeted re-sequencing of 115 genes across 155 diagnostic samples (44 adult and 111 childhood cases). NOTCH1 and CDKN2A/B were mutated/deleted in more than half of the cases, while an additional 37 genes were mutated/deleted in 4% to 20% of cases. We found that IL7R-JAK pathway genes were mutated in 27.7% of cases, with JAK3 mutations being the most frequent event in this group. Copy number variations were also detected, including deletions of CREBBP or CTCF and duplication of MYB. FLT3 mutations were rare, but a novel extracellular mutation in FLT3 was detected and confirmed to be transforming. Furthermore, we identified complex patterns of pairwise associations, including a significant association between mutations in IL7R-JAK genes and epigenetic regulators (WT1, PRC2, PHF6). Our analyses showed that IL7R-JAK genetic lesions did not confer adverse prognosis in T-cell acute lymphoblastic leukemia cases enrolled in the UK ALL2003 trial. Overall, these results identify interconnections between the T-cell acute lymphoblastic leukemia genome and disease biology, and suggest a potential clinical application for JAK inhibitors in a significant proportion of patients with T-cell acute lymphoblastic leukemia.
REVIEWS (1959)

REVIEWS Get access D. W. HOMAS, The Hebrew Bible since Claude Montefiore. (Claude Montefiore Centenary Lecture.) 1958. Pp. 18. ( Liberal Jewish Synagogue, London. Price: 2s. 6d.) B.J. ROBERTS B.J. ROBERTS Search for other works by this author on: Oxford Academic Google Scholar Journal of Semitic Studies, Volume 4, Issue 2, April 1959, Pages 151-a–151, https://doi.org/10.1093/jss/4.2.151-a Published: 01 April 1959
Size- and Shape-Controlled Synthesis of Bismuth Nanoparticles (2008)

Near-monodisperse Bi dots in the diameter range of 3−115 nm are synthesized by a simple, solution-based one-step approach by varying the amounts of Bi[N(SiMe3)2]3, Na[N(SiMe3)2], and a polymer surfactant, poly(1-hexadecene)0.67-co-(1-vinylpyrrolidinone)0.33, employed. The reaction conditions are further modified to produce Bi nanorods and nanoplates. Alternatively, near-monodisperse Bi dots in the diameter range of 30−45 nm are synthesized by a secondary-addition technique. With a slight modification of this technique, nanoribbons are obtained. The roles of polymer and Na[N(SiMe3)2] in the size and shape control of these Bi nanoparticles are discussed.
A prospective clinical trial of radiofrequency ablation for pulmonary metastases (2015)

Pulmonary oligometastases can be treated by local treatment options, such as resection, radiofrequency ablation (RFA), and radiotherapy, in selected patients. In the present study, 67 patients with 115 pulmonary metastases were treated, and all the lesions were treated by RFA and followed with a computed tomography scan. The local control, overall survival (OS), progression-free survival (PFS) and treatment-related toxicity were observed. Median follow-up duration after the initial RFA was 24 months (range, 3-39 months). The median PFS from RFA was 14 months [95% confidence interval (CI), 11.6-16.4]. The 6-, 12- and 18-month PFS rates were 82.1, 55.7 and 27.5%, respectively. The median OS rate from RFA was 24 months (95% CI, 18.2-29.8). The 1-, 2- and 3-year OS rates were 83.6, 46.3 and 14.3%, respectively. Primary tumor was significantly correlated to PFS and OS on multivariate analysis, and other variates showed no significance. Therefore, RFA is safe for patient treatment and can be considered as a promising treatment option for patients with pulmonary metastases.
Amino Acids and Peptides (1998)

This text is suitable for advanced undergraduate and beginning graduate students in chemistry and biochemistry studying amino acids and peptides. The authors concentrate on amino acids and peptides without detailed discussions of proteins, although the book gives all the essential background chemistry, including sequence determination, synthesis and spectroscopic methods, to enable the reader to appreciate protein behaviour at the molecular level. The approach is intended to encourage the reader to cross classical boundaries, as in the later chapters on the biological roles of amino acids and the design of peptide-based drugs. For example, there is a section on the enzyme-catalysed synthesis of peptides, with suitable examples, an area often neglected in texts describing peptide synthesis. This modern text will be of value in the amino acid, peptide and protein field, to advanced undergraduates, graduate students and research workers.
Single-pulse laser-induced OH fluorescence in an atmospheric flame, spatially resolved with a diode array detector (1982)

Laser-induced fluorescence measurements of OH have been performed in an atmospheric stoichiometric CH(4)/air flame and in a highly sooting propane flame. The measurements were realized with a single 6-nsec pulse from a frequency-doubled dye laser pumped by a Nd:YAG laser and with a spatial resolution of ~25 microm. This was achieved by imaging through a suitably chosen filter set a section of the laser beam onto a gated and intensified diode array.
Cardiovascular response to insertion of Brain's laryngeal mask (1990)

Summary This study was designed to investigate the cardiovascular effects related to insertion of the Brain laryngeal mask airway and to compare these effects with those after insertion of a Guedel oral airway. Arterial pressure and heart rate in 100 patients were measured using an Ohmeda 2300 Finapres arterial pressure monitor. Arterial pressure decreased significantly (p < 0.001) and heart rate increased significantly (p < 0.001) after induction of anaesthesia with 2.5 mg/kg of propofol. A significant increase in arterial pressure (p < 0.02) and in heart rate (p < 0.001) followed insertion of the laryngeal mask and the Guedel airway, with no difference between the two groups at any time. The changes in arterial pressure and heart rate returned to ‘at insertion’ levels within 60 seconds of the stimulus.
Polyamine-Induced Compaction and Aggregation of DNA: A Major Factor in Radioprotection of Chromatin under Physiological Conditions (1996)

Spermine at physiological levels and ionic strength induces compaction and aggregation of SV40 DNA and minichromosomes resulting in marked radioprotection of the DNA against gamma-ray-induced formation of single-strand breaks. This phenomenon, termed the PICA effect, results in yields of single-strand breaks in DNA and minichromosomes comparable to those found with intact cells and is considered to be a major mechanism responsible for radioprotection of cellular DNA.
Highly efficient metal salt catalyst for the esterification of biomass derived levulinic acid under microwave irradiation (2015)

The esterification of the biomass derived platform molecule, levulinic acid, to its alkyl levulinates was carried out over metal salt catalysts under microwave condition, which achieved near-quantitative product yields in a few minutes.
Increasing the speed of microstrip line-type PDLC devices (2005)

We measure how the microwave band dielectric properties and response time characteristics of microstrip line-type PDLC (polymer dispersed liquid crystal) devices vary with polymer concentration, and we measure how their response time characteristics vary with the thickness of the PDLC layer. The physical significance of these results is also examined. With a layer thickness of 50 /spl mu/m, an applied voltage of 100 V and a polymer concentration of 7 wt%, we show that the decay time can be reduced to about 1/30th that of a plain liquid crystal at the expense of an increase in rise time of about 2.5 times and a deterioration of dielectric birefringence of about 50%. Also, by varying the PDLC layer thickness with a polymer concentration of 5 wt% and an applied electric field fixed at 1.8 /spl times/ 10/sup 6/ V/m, we show that increasing the layer thickness causes the decay time to increase and the rise time to decrease. The rise time obtained with a PDLC layer thickness of 100 /spl mu/m is half the value obtained with a thickness of 20 /spl mu/m, while the decay time is approximately 3.6 times larger.
Facial affect recognition training in autism: Can we animate the fusiform gyrus? (2006)

One of the most consistent findings in the neuroscience of autism is hypoactivation of the fusiform gyrus (FG) during face processing. In this study the authors examined whether successful facial affect recognition training is associated with an increased activation of the FG in autism. The effect of a computer-based program to teach facial affect identification was examined in 10 individuals with high-functioning autism. Blood oxygenation level-dependent (BOLD) functional magnetic resonance imaging (fMRI) changes in the FG and other regions of interest, as well as behavioral facial affect recognition measures, were assessed pre- and posttraining. No significant activation changes in the FG were observed. Trained participants showed behavioral improvements, which were accompanied by higher BOLD fMRI signals in the superior parietal lobule and maintained activation in the right medial occipital gyrus.
Immunohistochemistry of Two Different Types of Placental Fibrinoid (1994)

The structure and composition of human placental fibrinoid were studied on cryostat and paraffin sections and by transmission electron microscopy as well as immunohistochemistry using antibodies directed against fibrin, fibronectin isoforms, collagens IV and VI, laminin and tenascin. The findings suggest two structurally and immunohistochemically different subtypes of fibrinoid: fibrin-type fibrinoid and matrix-type fibrinoid. Fibrin-type fibrinoid was characterized by immunoreactivity for fibrin and cellular fibronectin, including the ED-A sequence. Immunostaining for all other extracellular matrix molecules was negative. Ultrastructurally, this fibrinoid subtype consisted of a meshwork of fibers with 20-nm cross striation typical of fibrin. Fibrin-type fibrinoid never contained extravillous trophoblast cells. It is therefore primarily a blood clot product derived from maternal and fetal blood. In contrast, matrix-type fibrinoid showed virtually no evidence of fibrin; it was immunopositive for extracellular matrix molecules such as the fibronectins, particularly oncofetal fibronectin (containing the ED-B sequence), collagen IV, laminin and tenascin. Oncofetal fibronectin, which was neither expressed in fibrin-type fibrinoid nor in the villous stromal core, seemed to be a specific marker for matrix-type fibrinoid. Single or clustered nonproliferative extravillous trophoblast cells were embedded within the matrix molecules. It is very likely that these cells secrete the matrix in a non-polarized fashion. Fibrin-type fibrinoid would appear to be involved in shaping the intervillous space and in replacing damaged syncytiotrophoblast acting as a transport and immune barrier. Matrix-type fibrinoid, as a secretory product of the extravillous trophoblast, should be discussed in context with the invasive properties of this cell population.
Francis Bacon, Philosopher of Industrial Science (1951)

The present book is described as the first English edition. It had been published in America in 1949.
Uveal Melanoma Metastasis Models (2015)

Metastatic disease is the leading cause of death among patients with uveal melanoma. Treatment options for patients with clinically disseminated disease are usually unsuccessful. In vitro and in vivo models are important tools to investigate the pathogenesis of metastatic uveal melanomas and develop treatments for the metastases. In vitro experimental approaches focusing on cell invasion/migration which mimic the steps of the complex metastatic process may also be used for the identification of potential anti-invasion/migration drugs that may inhibit the spreading of tumor cells or the development of metastases. The effects of these drugs must subsequently be confirmed in reliable in vivo models before entering the clinical trial phase. Several models of intraocular melanoma with metastases in rodents and rabbits are currently being used. Most experimental models of uveal melanoma metastases require injection or implantation of melanoma cells into orthotopic locations, including into the liver, spleen, tail vein, or the left ventricle of the heart, in order to mimic the metastatic process.
Detecting Concealment of Intent in Transportation Screening: A Proof of Concept (2009)

Transportation and border security systems have a common goal: to allow law-abiding people to pass through security and detain those people who intend to harm. Understanding how intention is concealed and how it might be detected should help in attaining this goal. In this paper, we introduce a multidisciplinary theoretical model of intent concealment along with three verbal and nonverbal automated methods for detecting intent: message feature mining, speech act profiling, and kinesic analysis. This paper also reviews a program of empirical research supporting this model, including several previously published studies and the results of a proof-of-concept study. These studies support the model by showing that aspects of intent can be detected at a rate that is higher than chance. Finally, this paper discusses the implications of these findings in an airport-screening scenario.
Direct evidence for a role of Nox2 in superoxide production, reduced nitric oxide bioavailability and early atherogenesis in ApoE-/- mice (2010)

The Nox family NADPH oxidases are reactive oxygen species (ROS)-generating enzymes that are strongly implicated in atherogenesis. However, no studies have examined which Nox isoform(s) are involved. Here we investigated the role of the Nox2-containing NADPH oxidase in atherogenesis in apolipoprotein E-null (ApoE−/−) mice. Wild-type (C57Bl6/J), ApoE−/−, and Nox2−/y/ApoE−/− mice were maintained on a high-fat (21%) diet from 5 wk of age until they were 12 or 19 wk old. Mice were euthanized and their aortas removed for measurement of Nox2 expression (Western blot analysis and immunohistochemistry), ROS production (L012-enhanced chemiluminescence), nitric oxide (NO) bioavailability (contractions to Nω-nitro-L-arginine), and atherosclerotic plaque development along the aorta and in the aortic sinus. Nox2 expression was upregulated in the aortic endothelium of ApoE−/− mice before the appearance of lesions, and this was associated with elevated ROS levels. Within developing plaques, macrophages were also a prominent source of Nox2. The absence of Nox2 in Nox2−/y/ApoE−/− double-knockout mice had minimal effects on plasma lipids or lesion development in the aortic sinus in animals up to 19 wk of age. However, an en face examination of the aorta from the arch to the iliac bifurcation revealed a 50% reduction in lesion area in Nox2−/y/ApoE−/− versus ApoE−/− mice, and this was associated with a marked decrease in aortic ROS production and an increased NO bioavailability. In conclusion, this is the first demonstration of a role for Nox2-NADPH oxidase in vascular ROS production, reduced NO bioavailability, and early lesion development in ApoE−/− mice, highlighting this Nox isoform as a potential target for future therapies for atherosclerosis.
Aspects of the pharmacology of eczema (1992)

(1992). Aspects of the pharmacology of eczema. Journal of Dermatological Treatment: Vol. 3, No. sup2, pp. 9-12.
Vanadate effect on the Na,K-ATPase and the Na-K pump in in vitro-grown rat vascular smooth muscle cells. (1983)

The impact of vanadate on the Na,K-ATPase system in the vascular smooth muscle cell is poorly understood. The present study describes the kinetics of the effect of vanadate on Na,K-ATPase and the Na-K pump in in vitro grown rat VSMC's. Vanadate interaction with the Na,K-ATPase system in vascular smooth muscle cells was examined by observing its influence on ouabain-sensitive adenosine triphosphate hydrolysis in disrupted cells rendered permeable by osmotic shock, and the uptake of rubidium by intact cells. The I50 for vanadate inhibition of ouabain-sensitive hydrolysis of adenosine triphosphate occurred at vanadate concentrations of 10(-6) to 10(-7) M. This inhibition was potassium dependent. The maximal inhibitory effect of vanadate occurred at potassium concentrations of 10-20 mEq/liter. Sodium exerted a moderate antagonistic influence on vanadate inhibition of ouabain-sensitive adenosine triphosphate hydrolysis. Rubidium uptake by vascular smooth muscle cells was not altered within 120 minutes when 10(-5) M vanadate was added to the medium containing intact vascular smooth muscle cells. Yet, vanadium concentrations in the vascular smooth muscle cells within this incubation period reached levels 1.48-fold higher than the extracellular vanadate concentrations of 10(-5) M. These observations indicate that vanadate is a potent inhibitor of the VSMC Na,K-ATPase in disrupted vascular smooth muscle cells. However, in intact vascular smooth muscle cells vanadium gaining access into the vascular smooth muscle cell's interior does not inhibit the Na-K pump, probably because of its binding to intracellular proteins and/or conversion from the vanadate to the vanadyl ion.
Heparin-Coated versus Non-Coated Surfaces for Extracorporeal Circulation (1991)

Studies were made to compare completely heparin-bonded (HBS) and conventional extracorporeal circulation surfaces using capillary membrane oxygenators (CMO) in sheep and dogs for up to five days. The aims were: to investigate the need for systemic heparinization in the case of heparin-coated surfaces, to assess blood compatibility and gas exchange performance of both systems and the extent of complement activation, and to find solutions for plasma leakage by the use of CMO. All studies were performed under standardized conditions, such as drugs, surgery, priming, blood flow rate etc. For heparin-coated surface studies all blood interfaces (CMO, catheters, tubes, etc) were coated. It was possible to eliminate systemic heparinization totally when HBS were used. During the five-day non-heparin application period blood coagulation parameters were almost unchanged and in the physiological range, platelets did not drop below 80%, hemolysis was negligible and gas exchange performance was unaffected. Less complement activation occurred with HBS than with non-coated surfaces.
Regulation of apoptosis by type III interferons (2008)

We report that the IFN-lambdaR1 chain of the type III IFN receptor complex possesses an intrinsic ability to trigger apoptosis in cells. Signalling induced through the intracellular domain of IFN-lambdaR1 resulted in G(1)/G(0) phase cell cycle arrest, phosphatidylserine surfacing and chromosomal DNA fragmentation. Caspase-3, caspase-8 and caspase-9 were activated; however, pancaspase inhibitor Z-VAD-FMK did not prevent apoptosis. In addition, the extent of apoptosis correlated with the level of receptor expression and was associated with prolonged IFN-lambda signalling. We also demonstrated that the ability to trigger apoptosis is a unique intrinsic function of all IFN receptors. However, more robust apoptosis was induced by signalling through type III IFN receptor than through type I or type II (IFN-gamma) receptors, suggesting higher cytotoxic potential of type III IFNs. In addition, we observed that IFN-gamma treatment sensitized HT29 cells to IFN-lambda-mediated apoptosis. These results provide evidence that type III IFNs, alone or in combination with other stimuli, have the potential to induce apoptosis.
Sensitive Bifunctional Aptamer-Based Electrochemical Biosensor for Small Molecules and Protein (2009)

In this paper, a bifunctional electrochemical biosensor for highly sensitive detection of small molecule (adenosine) or protein (lysozyme) was developed. Two aptamer units for adenosine and lysozyme were immobilized on the gold electrode by the formation of DNA/DNA duplex. The detection of adenosine or lysozyme could be carried out by virtue of switching structures of aptamers from DNA/DNA duplex to DNA/target complex. The change of the interfacial feature of the electrode was characterized by cyclic voltammertic (CV) response of surface-bound [Ru(NH(3))(6)](3+). On the other hand, DNA functionalized Au nanoparticles (DNA-AuNPs) were used to enhance the sensitivity of the aptasensor because DNA-AuNPs modified interface could load more [Ru(NH(3))(6)](3+) cations. Thus, the assembly of two aptamer-contained DNA strands integrated with the DNA-AuNPs amplification not only improves the sensitivity of the electrochemical aptasensor but also presents a simple and general model for bifunctional aptasensor. The proposed aptasensor has low detection limit (0.02 nM for adenosine and 0.01 microg mL(-1) for lysozyme) and exhibits several advantages such as high sensitivity and bifunctional recognition.
Analyses of hepatocellular proliferation in a mouse model of α-1-antitrypsin deficiency (2004)

alpha-1-Antitrypsin (alpha1-AT) deficiency is the most common cause of metabolic pediatric liver disease. Hepatocellular injury is caused by toxicity of the mutant alpha-1-antitrypsin Z (alpha1-ATZ) molecule retained within hepatocytes. In these studies, we used the PiZ transgenic mouse model of alpha1-AT deficiency to examine hepatocellular proliferation in response to chronic liver injury resulting from this metabolic disease. The results showed increased hepatocellular proliferation and caspase 9 activation in male PiZ mice compared with female PiZ and wild-type mice. Hepatic alpha1-AT mRNA and protein expression also were increased in male PiZ mice, suggesting that greater hepatocellular proliferation and caspase activation in males results from increased hepatotoxicity associated with greater intracellular alpha1-ATZ accumulation. Testosterone treatment of female PiZ mice increased alpha1-ATZ expression and hepatocellular proliferation to a level comparable with that in males. In PiZ mice, hepatocytes devoid of intracellular alpha1-AT globules had a proliferative advantage compared with globule-containing hepatocytes. However, this advantage is relative because both globule-containing and globule-devoid hepatocytes exhibited comparable proliferation after partial hepatectomy. In conclusion, these data indicate that intracellular retention of mutant alpha1-ATZ is associated with a regenerative stimulus leading to increased hepatocellular proliferation, that gender-specific signals influence the degree of alpha1-AT expression and associated hepatic injury, and that hepatocytes devoid of alpha1-ATZ have a proliferative advantage over cells that accumulate the mutant protein. This selective proliferation suggests that hepatocellular transplantation may be applicable for treatment of this and other slowly progressive metabolic liver diseases.