gebhart/patrepeval huggingface dataset:
Field Emission Properties of Single-Walled Carbon Nanotubes with a Variety of Emitter Morphologies (2008)

Field emission properties of single-walled carbon nanotubes (SWCNTs), which were prepared through alcohol catalytic chemical vapor deposition for 10–60 s, were characterized in a diode configuration. Protrusive bundles at the top surface of samples act selectively as emission sites. The number of emission sites was controlled by emitter morphologies combined with texturing of Si substrates. SWCNTs grown on a textured Si substrate exhibited a turn-on field as low as 2.4 V/µm at a field emission current density of 1 µA/cm2. Uniform spatial luminescence (0.5 cm2) from the rear surface of the anode was revealed for SWCNTs prepared on the textured Si substrate. Deterioration of field emission properties through repetitive measurements was reduced for the textured samples in comparison with vertically aligned SWCNTs and a random network of SWCNTs prepared on flat Si substrates. Emitter morphology resulting in improved field emission properties is a crucial factor for the fabrication of SWCNT-electron sources. Morphologically controlled SWCNTs with promising emitter performance are expected to be practical electron sources.
NanoLC/ESI<sup>+</sup> HRMS<sup>3</sup> Quantitation of DNA Adducts Induced by 1,3-Butadiene (2014)

Human exposure to 1,3-butadiene (BD) present in automobile exhaust, cigarette smoke, and forest fires is of great concern because of its potent carcinogenicity. The adverse health effects of BD are mediated by its epoxide metabolites such as 3,4-epoxy-1-butene (EB), which covalently modify genomic DNA to form promutagenic nucleobase adducts. Because of their direct role in cancer, BD-DNA adducts can be used as mechanism-based biomarkers of BD exposure. In the present work, a mass spectrometry-based methodology was developed for accurate, sensitive, and precise quantification of EB-induced N-7-(1-hydroxy-3-buten-2-yl) guanine (EB-GII) DNA adducts in vivo. In our approach, EB-GII adducts are selectively released from DNA backbone by neutral thermal hydrolysis, followed by ultrafiltration, offline HPLC purification, and isotope dilution nanoLC/ESI+-HRMS3 analysis on an Orbitrap Velos mass spectrometer. Following method validation, EB-GII lesions were quantified in human fibrosarcoma (HT1080) cells treated with micromolar concentrations of EB and in liver tissues of rats exposed to sub-ppm concentrations of BD (0.5–1.5 ppm). EB-GII concentrations increased linearly from 1.15 ± 0.23 to 10.11 ± 0.45 adducts per 106 nucleotides in HT1080 cells treated with 0.5–10 μM DEB. EB-GII concentrations in DNA of laboratory rats exposed to 0.5, 1.0, and 1.5 ppm BD were 0.17 ± 0.05, 0.33 ± 0.08, and 0.50 ± 0.04 adducts per 106 nucleotides, respectively. We also used the new method to determine the in vivo half-life of EB-GII adducts in rat liver DNA (2.20 ± 0.12 d) and to detect EB-GII in human blood DNA. To our knowledge, this is the first application of nanoLC/ESI+-HRMS3 Orbitrap methodology to quantitative analysis of DNA adducts in vivo.
Gradual Tuning: a better way of Fine Tuning the parameters of a Deep Neural Network (2017)

In this paper we present an alternative strategy for fine-tuning the parameters of a network. We named the technique Gradual Tuning. Once trained on a first task, the network is fine-tuned on a second task by modifying a progressively larger set of the network's parameters. We test Gradual Tuning on different transfer learning tasks, using networks of different sizes trained with different regularization techniques. The result shows that compared to the usual fine tuning, our approach significantly reduces catastrophic forgetting of the initial task, while still retaining comparable if not better performance on the new task.
Insulin expression in livers of diabetic mice mediated by hydrodynamics-based administration (2004)

Our results suggested that insulin gene could be efficiently transferred into the livers of diabetic mice via rapid tail vein injection and it resulted in high level of insulin expression. The basal hepatic insulin production mediated by hydrodynamics-based administration improved the glycemic control in type 1 diabetes dramatically and ameliorated diabetic syndromes. Hydrodynamics-based administration offers a simple and efficient way in the study of gene therapy for type 1 diabetes.
Increased effective immunogenicity to high‐dose and short‐interval hepatitis B virus vaccination in individuals with chronic hepatitis without cirrhosis (2001)

Hepatitis B virus (HBV) vaccination is recommended for individuals with chronic liver disease. However, the response to standard doses of hepatitis B vaccines in such individuals has been poor. The aim of the present study was to assess the response to high-dose short-interval HBV vaccination in individuals with chronic liver disease of different aetiologies. A total two hundred and 24 subjects with chronic liver disease (138 chronic active hepatitis and 86 cirrhosis) and 26 healthy controls were vaccinated using a high-dose (40 microg) short-interval (monthly for 3 consecutive months) HBV vaccination schedule. One hundred and thirty-eight of the 224 subjects with chronic liver disease (62%) seroconverted to anti-HBs antibody positivity (>10 mIU/mL) after the third dose of vaccine as compared with 24 of the 26 controls (92%) (P < 0.01). The response rate was reduced in individuals with cirrhosis (36/86, 42%), particularly in alcohol-induced cirrhosis (2/17, 12%), as compared with individuals with chronic hepatitis (102/138, 74%) (P < 0.001). No significant HBV vaccination-related adverse effects were seen in individuals with or without cirrhosis as well as in the controls. High-dose short-interval HBV vaccination is safe and efficacious in individuals with chronic liver disease. The response to HBV vaccination is reduced in cirrhotics, particularly those with alcoholic cirrhosis. These data suggest that HBV vaccination should be accomplished early in an individual cause of chronic liver disease prior to the development of cirrhosis.
Heat-treatment of metal–organic frameworks for green energy applications (2014)

Increasing population, global climate change, and dwindling fossil fuel reserves have led to a green energy revolution in the past few years, particularly in the fields of green energy generation and storage. While fuel cell, lithium-ion batteries, and supercapacitors are far from technical jargon in today's world, the sheer number of these devices is not accurately exhibited in the consumer market. Metal–organic frameworks (MOFs) are an emerging class of crystalline materials consisting of metal ion nodes and organic linkers that has shown promise in the fields of gas capture, gas storage, separations, catalysis, magnetism, fluorescence, and sensing to name only a few. The use of these materials as self-sacrificing templates, via calcination or pyrolysis, for the design of green energy generation and storage devices is the focus of this review.
An initiation zone of chromosomal DNA replication located upstream of the c-myc gene in proliferating HeLa cells. (1990)

Studies on origins of DNA replication in mammalian cells have long been hampered by a lack of methods sensitive enough for the localization of such origins in chromosomal DNA. We have employed a new method for mapping origins, based on polymerase chain reaction amplification of nascent strand segments, to examine replication initiated in vivo near the c-myc gene in human cells. Nascent DNA, pulse-labeled in unsynchronized HeLa cells, was size fractionated and purified by immunoprecipitation with anti-bromodeoxyuridine antibodies. Lengths of the nascent strands that allow polymerase chain reaction amplification were determined by hybridization to probes homologous to amplified segments and used to calculate the position of the origin. We found that DNA replication through the c-myc gene initiates in a zone centered approximately 1.5 kilobases upstream of exon I. Replication proceeds bidirectionally from the origin, as indicated by comparison of hybridization patterns for three amplified segments. The initiation zone includes segments of the c-myc locus previously reported to drive autonomous replication of plasmids in human cells.
<i>Coccidioides immitis</i> Vaccine: Potential of an Alkali-Soluble, Water-Soluble Cell Wall Antigen (1983)

C-ASWS-M, the alkali-soluble, water-soluble cell wall antigen of Coccidioides immitis mycelia, was evaluated for its vaccine potential in mice. Vaccination with 0.5-, 1.5-, or 3-mg doses of C-ASWS-M in complete Freund adjuvant provided a significant level of protection against intraperitoneal challenge with 1,500 arthroconidia (P < 0.0001 with each dose). Vaccination with 1 mg of C-ASWS-M protected mice against intranasal challenge with 50 (P < 0.05) and 500 (P < 0.01) arthroconidia, but not against intranasal challenge with 1,500 arthroconidia (P > 0.05).
Antibody response to different determinants on carcinoembryonic antigen (CEA). (1974)

Studies on the diverse nature of the immune response of animals to different antigenic determinants on CEA indicate that the type of antiserum used is of prime importance in determining differences or identities between antigens isolated from tumour and normal tissues. One type of antiserum against CEA shows cross-reactions with a normal colon antigen (NCA) found in both malignant and normal tissues. This finding confirmed that a common determinant is shared by both CEA and NCA. A second type of anti-CEA did not cross react with NCA but reacted only with CEA, providing evidence for a unique CEA determinant. Yet a third and most common type of antiserum to CEA reacted equally well with CEA and NCA and was unable to distinguish between the two. This third type of anti-CEA was completely absorbed with NCA. Failure to recognize this type of anti-CEA would lead to erroneous conclusions regarding the existence of a unique antigenic determinant on CEA.
Prostate‐specific membrane antigen‐targeted photoacoustic imaging of prostate cancer <i>in vivo</i> (2018)

A sensitive, noninvasive method to detect localized prostate cancer, particularly for early detection and repetitive study in patients undergoing active surveillance, remains an unmet need. Here, we propose a molecular photoacoustic (PA) imaging approach by targeting the prostate-specific membrane antigen (PSMA), which is over-expressed in the vast majority of prostate cancers. We performed spectroscopic PA imaging in an experimental model of prostate cancer, namely, in immunocompromised mice bearing PSMA+ (PC3 PIP) and PSMA- (PC3 flu) tumors through administration of the known PSMA-targeted fluorescence agent, YC-27. Differences in contrast between PSMA+ and isogenic control tumors were observed upon PA imaging, with PSMA+ tumors showing higher contrast in average of 66.07-fold with 5 mice at the 24-hour postinjection time points. These results were corroborated using standard near-infrared fluorescence imaging with YC-27, and the squared correlation between PA and fluorescence intensities was 0.89. Spectroscopic PA imaging is a new molecular imaging modality with sufficient sensitivity for targeting PSMA in vivo, demonstrating the potential applications for other saturable targets relevant to cancer and other disorders.
Genomic and Biological Characterization of Exon 4 KRAS Mutations in Human Cancer (2010)

Mutations in RAS proteins occur widely in human cancer. Prompted by the confirmation of KRAS mutation as a predictive biomarker of response to epidermal growth factor receptor (EGFR)-targeted therapies, limited clinical testing for RAS pathway mutations has recently been adopted. We performed a multiplatform genomic analysis to characterize, in a nonbiased manner, the biological, biochemical, and prognostic significance of Ras pathway alterations in colorectal tumors and other solid tumor malignancies. Mutations in exon 4 of KRAS were found to occur commonly and to predict for a more favorable clinical outcome in patients with colorectal cancer. Exon 4 KRAS mutations, all of which were identified at amino acid residues K117 and A146, were associated with lower levels of GTP-bound RAS in isogenic models. These same mutations were also often accompanied by conversion to homozygosity and increased gene copy number, in human tumors and tumor cell lines. Models harboring exon 4 KRAS mutations exhibited mitogen-activated protein/extracellular signal-regulated kinase kinase dependence and resistance to EGFR-targeted agents. Our findings suggest that RAS mutation is not a binary variable in tumors, and that the diversity in mutant alleles and variability in gene copy number may also contribute to the heterogeneity of clinical outcomes observed in cancer patients. These results also provide a rationale for broader KRAS testing beyond the most common hotspot alleles in exons 2 and 3.
H.26L intra mode encoder architecture for digital camera application (2002)

In this paper, a still image encoder based on the H.26L intra mode algorithm is proposed and implemented in a FPGA prototype board. H.26L was proposed by ITU-T to provide high compression efficiency for very low bit rate communication. The intra mode in H.26L (H.26Li) uses high level spatial prediction and provides 2 db PSNR gain more than the JPEG standard. It is suitable for still image camera application and can be further extended into video camera application.
Antibacterial Effect of Antibiotic Solution on Cellular Viability in Canine Veins (2001)

Pretreatment of tissue by using antibiotics is a critical step to prevent microbial contamination before venous transplantation. In this study, the optimal time and temperature of antibiotic solution treatment for maintaining cellular viability with antibacterial effect were investigated. The antibiotic-nutrient solutions were composed of cefoxitin, lincomycin, vancomycin, and polymyxin B in RPMI-1640 medium. After various antibiotic solution treatment times (4, 8, and 12 h) and temperatures (4, 25, and 37 degrees C), the viabilities of cells dissociated from veins (jugular vein, femoral vein, superior vena cava, and inferior vena cava) were determined. Double staining by Griffonia simplicifolia agglutins-fluorescein isothiocyanate (GS1-FITC) and propidium iodide was used. To measure the antibacterial effect of the antibiotic solution, canine veins were artificially infected by 3 kinds of bacteria (Staphylococcus aureus, Escherichia coli, and Klebsiella pneumoniae) and were treated by antibiotic solutions as viability test conditions. After the treatment with the antibiotic solution, the tissue was minced, and the homogenized tissue fraction was cultured on standard method agar. The colony that seemed to be resistant to the antibiotic solution was counted. At 37 and 25 degrees C, the viability of whole cells decreased significantly Asymptotic Significance 2-tailed (Asymp.Sig 2-tailed) < 0.05 after 4 h of antibiotic solution treatment, whereas at 4 degrees C it began to reduce significantly after 8 h of treatment. By antibiotic solution treatment at all 3 temperatures for 4 h, no significant difference in viability of the endothelial cells and whole cells was observed. To maintain the donor vein's cellular viability until transplantation, antibiotic solution treatment for 4 h at 4 degrees C is assumed to be appropriate.
Multimerin (1995)

Multimerin is a massive, disulfide-linked protein with a unique complementary DNA sequence. It is stored in platelets and the endothelium of blood vessels and is comprised of subunits linked by interchain disulfide bonds to form large, variably sized homomultimers. The multimerin subunits are derived from a common precursor protein, promultimerin, which undergoes proteolysis and extensive N-glycosylation during biosynthesis. The complementary DNA sequence of multimerin indicates that multimerin is a novel protein, with Arg-Gly-Asp-Ser, coiled-coil, and epidermal growth factor-like domains. The C-terminal region of multimerin resembles the globular head domain of complement C1q and collagens type VIII and X. Multimerin is expressed by megakaryocytes and endothelial cells and stored within platelet alpha granules and endothelial cell Weibel-Palade bodies. Following cellular activation, multimerin is released and binds to these cells and the extracellular matrix. The function of this novel protein in hemostasis is under investigation. Recent studies have identified multimerin as a specific Factor V/Va binding protein that is complexed with Factor V within platelet alpha granules.
Context Sensitive User Profiling for Customised Service Provision in Mobile Environments (2006)

Present paper focuses on context awareness in service provisioning and proposes a framework that enables efficient management of contextual profiles. Furthermore, a more flexible and innovative model for user profiling is introduced. The innovation is based on the enrichment of common user profiling architectures to include location and other contextual attributes, so that enhanced adaptability and personalization can be achieved. For each context instance an associated user profile instance is created and hence, service provisioning is adapted to the user profile instance that better apply to the current context. The generic model, the structure and the content of that context-sensitive user profile, along with some related implementation issues, are discussed
Finite-state analysis of the CAN bus protocol (2002)

We formally specify the data link layer of the Controller Area Network (CAN), a high-speed serial bus system with real-time capabilities, widely used in embedded systems. CAN's primary application domain is automotive, and the physical and data link layers of the CAN architecture were the subject of the ISO 11898 international standard. We checked our specification against 12 important properties of CAN, eight of which are gleaned from the ISO standard; the other four are desirable properties not directly mentioned in the standard. Our results indicate that not all properties can be expected to hold of a CAN implementation and we discuss the implications of these findings. Moreover, we have conducted a number of experiments aimed at determining how the size of the protocol's state space is affected by the introduction of various features of the data link layer, the number of nodes in the network the number of distinct message types, and other parameters.
Specific IgE antibodies in nasal secretion from patients with allergic rhinitis and with negative or weakly positive RAST on the serum (1977)

Nasal secretions from eighteen patients with allergic rhinitis with a positive case history, intradermal test and nasal provocation test, but with negative or only weakly positive RAST (radioallergosorbent test) on the serum against a total of thirty-five allergens, were studied. In the RAST an immunosorbent-purified anti-IgE with DE2 specificity was used, which raised the detection limit. Nasal secretion was collected by washing the nasal mucosa with 0-9% and 18% NaCl solution respectively, and the latter secretion was also luophilized and concentrated. In ten cases RAST was slightly positive on the nasal secretion, and in three of the concentrated secretions the RAST value was higher than on the serum. In none of the serum or nasal secretion samples was RAST positive according to the cut off value for a positive result defined by the reference system used in Phadebas Rast. From these results it is concluded that RAST analyses of nasal secretion from patients with allergic rhinitis is of no appreciable value in routine clinical allergological diagnosis. However, the increased sensitivity of RAST obtained with isotope-labelled anti-DE2 may be useful in the serological diagnosis of patients with low grade allergy having low levels of IgE antibodies in serum.
SpiC Is Required for Translocation of <i>Salmonella</i> Pathogenicity Island 2 Effectors and Secretion of Translocon Proteins SseB and SseC (2002)

The Salmonella pathogenicity island 2 (SPI2) type III secretion system (TTSS) promotes Salmonella enterica serovar Typhimurium virulence for mice and increased survival and replication within eukaryotic cells. After phagocytosis, Salmonella serovar Typhimurium assembles the SPI2 TTSS to translocate over a dozen effector proteins across the phagosome membrane. SpiC has been previously shown to be a translocated effector with a large contribution to virulence (K. Uchiya, M. A. Barbieri, K. Funato, A. H. Shah, P. D. Stahl, and E. A. Groisman, EMBO J. 18:3924-3933, 1999). This report demonstrates by competitive index that the virulence phenotype of a spiC mutant is equivalent to that of a secretion component mutant. In addition, translocation of SPI2 effector proteins was shown to require SpiC. Thus, the severe virulence phenotype resulting from deletion of spiC is likely due to the inability to translocate all SPI2 effectors. SpiC was also required to secrete translocon proteins SseB and SseC but not translocated effector SseJ, indicating that lack of assembly of the translocon explains the spiC mutant phenotype.
Titanium nitride as a seed layer for Heusler compounds (2015)

Titanium nitride (TiN) shows low resistivity at room temperature (27 μΩ cm), high thermal stability and thus has the potential to serve as seed layer in magnetic tunnel junctions. High quality TiN thin films with regard to the crystallographic and electrical properties were grown and characterized by x-ray diffraction and 4-terminal transport measurements. Element specific x-ray absorption spectroscopy revealed pure TiN inside the thin films. To investigate the influence of a TiN seed layer on a ferro(i)magnetic bottom electrode in magnetic tunnel junctions, an out-of-plane magnetized Mn2.45Ga as well as in- and out-of-plane magnetized Co2FeAl thin films were deposited on a TiN buffer, respectively. The magnetic properties were investigated using a superconducting quantum interference device and anomalous Hall effect for Mn2.45Ga. Magneto optical Kerr effect measurements were carried out to investigate the magnetic properties of Co2FeAl. TiN buffered Mn2.45Ga thin films showed higher coercivity and squareness ratio compared to unbuffered samples. The Heusler compound Co2FeAl showed already good crystallinity when grown at room temperature on a TiN seed-layer.
Electrodialysis‐based separation technologies: A critical review (2008)

Abstract To support a sustainable industrial growth, chemical engineering today faces a crucial challenge of meeting the increasing demand for materials and energy. One possible solution is to decrease the equipment size/productivity ratio, energy consumption, and waste generation via process integration and optimization. This review focuses on the integration of electrodialysis with traditional unit operations and other membrane separations. Such integrations, due to their diversity and practicability, can be versatile tools to meet specific needs from chemical, biochemical, food, and pharmaceutical industries. © 2008 American Institute of Chemical Engineers AIChE J, 2009
An improved noninvasive method for measuring heartbeat of intertidal animals (2013)

Since its emergence two decades ago, the use of infrared technology for noninvasively measuring the heartbeat rates of invertebrates has provided valuable insight into the physiology and ecology of intertidal organisms. During that time period, the hardware needed for this method has been adapted to currently available electronic components, making the original published description obsolete. This article reviews the history of heartbeat sensing technology, and describes the design and function of a modern and simplified infrared heartbeat rate sensing system compatible with many intertidal and marine invertebrates. This technique overcomes drawbacks and obstacles encountered with previous methods of heartbeat rate measurement, and due to the sensor's small size, versatility, and noninvasive nature, it creates new possibilities for studies across a wide range of organismal types.