gebhart/patrepeval huggingface dataset:
Toward a Molecular Classification of Melanoma (2007)

The incidence of melanoma is increasing at one of the highest rates of any form of cancer in the United States, with the current lifetime risk being one in 68. At present, there are limited systemic therapies to treat advanced stages of melanoma, and the key to improved survival remains early detection. Recent discoveries have allowed for a clearer picture of the molecular events leading to melanoma development and progression. Since identifying prevalent activating mutations of the BRAF kinase in melanomas, there has been a flood of additional molecular studies to further clarify the role of this pathway and others in melanomagenesis. In particular, recent genetic studies have demonstrated specific genotype-phenotype correlations that provide the first major insights into the molecular subclassification of melanoma and the heterogeneous nature of this malignancy. In this article, we review the most up-to-date molecular discoveries in melanoma biology and provide a framework for understanding their significance in melanoma development and progression. We also provide details on the development of novel therapies based on these recent molecular discoveries and insight into current and planned clinical trials. It is expected that these latest studies in melanoma will help define the critical molecular events involved in disease onset and progression and allow us to move rapidly toward a true molecular classification. We eagerly anticipate rationally designed melanoma therapies based on such a classification scheme and the associated improvements in patient outcomes.
Crosstalk analysis and filter optimization of single- and double-cavity Fabry-Perot filters (1990)

Since Fabry-Perot (FP) filters are major candidates for use as demultiplexers in wavelength division multiple access (WDMA) networks, the authors have analyzed, in an exact and unified manner, the crosstalk degradation for several different variations of the basic FP filter, compared their performances, and optimized their design parameters. A description is given of the system model (a wavelength division multiple access system consisting of M connected transmitters and receivers with each transmitter consisting of an on-off modulated fixed-frequency laser, with the 'off' power level equal to zero) and the parameters used throughout, along with a brief discussion of relevant Fabry-Perot equations and terms and the four different filter structures analyzed. The crosstalk is examined for the cases of a single-cavity FP filter, a double-pass FP filter, a two-stage double-cavity FP filter, and a vernier double-cavity FP filter. The criteria for the performance comparison were the worst-case crosstalk, BER, and crosstalk power penalty.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Superenhanced backscattering of light by nanoparticles (2006)

We report a physical explanation for the phenomenon wherein the backscattering of light by dielectric particles of sizes between 100 and 1 nm is enhanced by 7-11 orders of magnitude. The phenomenon involves complex composite interactions between a dielectric microsphere and a nanoparticle positioned in close proximity to the microsphere. We provide both analytical and perturbation analyses that show that the enhanced backscattering intensity of a nanoparticle is proportional to the third power of its size parameter. Potential applications of this phenomenon include visible-light detection, characterization, and manipulation of particles as small as a few nanometers.
Production of recombinant human serum albumin from Saccharomyces cerevisiae (1989)

Human serum albumin has been constitutively expressed in a Saccharomyces cerevisiae brewing yeast. After cell growth and disruption the product was associated with the insoluble fraction and represented approximately 1% of total cell protein. After the cell debris was extensively washed, the albumin was solubilized with 8 M urea and 28 mM 2-mercaptoethanol in 50 mM sodium carbonate buffer, pH 10. The denatured albumin was refolded by dialysis and further purified by anion exchange and gel filtration chromatography. Losses of renatured material could be reduced, or higher protein concentrations used during refolding, if the denatured product was purified by cation-exchange chromatography in urea prior to refolding. Apart from an additional N-terminal N-acetyl methionine, the refolded product proved identical to human serum albumin derived from plasma when compared by a variety of physical, chemical, and biological analytical methods.
Automatic program parallelization (1993)

An overview of automatic program parallelization techniques is presented. It covers dependence analysis techniques, followed by a discussion of program transformations, including straight-line code parallelization, do-loop transformations, and parallelization of recursive routines. Several experimental studies on the effectiveness of parallelizing compilers are surveyed.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Semisupervised learning of classifiers: theory, algorithms, and their application to human-computer interaction (2004)

Automatic classification is one of the basic tasks required in any pattern recognition and human computer interaction application. In this paper, we discuss training probabilistic classifiers with labeled and unlabeled data. We provide a new analysis that shows under what conditions unlabeled data can be used in learning to improve classification performance. We also show that, if the conditions are violated, using unlabeled data can be detrimental to classification performance. We discuss the implications of this analysis to a specific type of probabilistic classifiers, Bayesian networks, and propose a new structure learning algorithm that can utilize unlabeled data to improve classification. Finally, we show how the resulting algorithms are successfully employed in two applications related to human-computer interaction and pattern recognition: facial expression recognition and face detection.
Defect diffusion in ion implanted AlGaAs and InP: Consequences for quantum well intermixing (1995)

InGaAs/GaAs/AlGaAs and InGaAs/InGaAsP/InP laser structures, with InGaAs quantum wells approximately 1.85 μm beneath the surface, were implanted with ions having energies up to 8.6 MeV. Intermixing of the quantum wells, after rapid thermal annealing, was monitored through changes in the energy, linewidth, and intensity of the photoluminescence peak from the quantum wells. Where the defects had to diffuse primarily through Al0.71Ga0.29As, these quantities correlate strongly, for short anneal times, with calculated vacancy generation and ion deposition at the depth of the quantum well prior to annealing. This suggests that the defect diffusion length in the AlGaAs and/or GaAs is quite low. For diffusion primarily through InP, the photoluminescence data correlated well with the calculated total number of vacancies created in the sample, suggesting that defect diffusion is very efficient in InP.
Evaluation of Percutaneous Penetration of Natural Rubber Latex Proteins (2000)

Latex allergy is recognized worldwide as a serious health risk. To date, exposure assessment and intervention strategies have focused primarily on respiratory protection; this work evaluates the potential role of dermal protein penetration in the development of latex allergy. In vitro penetration models using flow-through diffusion cells and both human surgical specimens and hairless guinea pig skin (CrL: IAF/HA) demonstrated iodinated latex proteins (ammoniated and non-ammoniated) penetrating into and through both intact and abraded skin. Although less than 1% penetration was observed with intact skin, up to 23% of latex proteins applied to abraded skin were recovered from receptor fluid within 24 h of exposure. Phosphoimaging of the concentrated effluent revealed proteins ranging in size from 3 to 26 kDa. Using a (3)H(2)O penetration assay to evaluate barrier integrity, the amount of latex protein penetration was found to positively correlate with the degree of dermabrasion. Immunohistochemistry of the skin localized latex proteins in the Langerhans cell-rich epidermis and in the dermis. Both in vitro penetration studies and immunohistochemistry supported the use of hairless guinea pig skin as a surrogate for human skin in evaluating latex protein penetration. In studies performed in vivo, 35% of hairless guinea pigs topically exposed to latex proteins (100 microg) 5 days per week for 3 months demonstrated elevations in latex-specific IgG1. The implication for these data is that the skin is not only a plausible route for latex sensitization but can be a major exposure route when the integument has been compromised.
Tissue-specific transcription of the mouse alpha-fetoprotein gene promoter is dependent on HNF-1. (1989)

Previous work identified four upstream cis-acting elements required for tissue-specific expression of the alpha-fetoprotein (AFP) gene: three distal enhancers and a promoter. To further define the role of the promoter in regulating AFP gene expression, segments of the region were tested for the ability to direct transcription of a reporter gene in transient expression assay. Experiments showed that the region within 250 base pairs of the start of transcription was sufficient to confer liver-specific transcription. DNase I footprinting and band shift assays indicated that the region between -130 and -100 was recognized by two factors, one of which was highly sequence specific and found only in hepatoma cells. Competition assays suggested that the liver-specific binding activity was HNF-1, previously identified by its binding to other liver-specific promoters. Mutation of the HNF-1 recognition site at -120 resulted in a significant reduction in transcription in transfection assays, suggesting a biological role for HNF-1 in the regulation of AFP expression.
The preparation and properties of β-glucuronidase. 4. Inhibition by sugar acids and their lactones (1952)

Research Article| November 01 1952 The preparation and properties of β-glucuronidase. 4. Inhibition by sugar acids and their lactones G. A. Levvy G. A. Levvy 1Rowett Research Institute, Bucksburn, Aberdeenshire Search for other works by this author on: This Site PubMed Google Scholar Author and article information Publisher: Portland Press Ltd © 1952 CAMBRIDGE UNIVERSITY PRESS1952 Biochem J (1952) 52 (3): 464–472. https://doi.org/10.1042/bj0520464 Views Icon Views Article contents Figures & tables Video Audio Supplementary Data Peer Review Share Icon Share Facebook Twitter LinkedIn Email Cite Icon Cite Get Permissions Citation G. A. Levvy; The preparation and properties of β-glucuronidase. 4. Inhibition by sugar acids and their lactones. Biochem J 1 November 1952; 52 (3): 464–472. doi: https://doi.org/10.1042/bj0520464 Download citation file: Ris (Zotero) Reference Manager EasyBib Bookends Mendeley Papers EndNote RefWorks BibTex toolbar search Search Dropdown Menu toolbar search search input Search input auto suggest filter your search All ContentAll JournalsBiochemical Journal Search Advanced Search This content is only available as a PDF. © 1952 CAMBRIDGE UNIVERSITY PRESS1952 Article PDF first page preview Close Modal You do not currently have access to this content.
Effects of human recombinant tumor necrosis factor- alpha and interleukin 1 on the synthesis of glycosaminoglycan and DNA in cultured rat costal chondrocytes. (1988)

We examined effects of human rTNF alpha on the synthesis of glycosaminoglycan and DNA in cultured rat costal chondrocytes. The effects of human recombinant IL-1 alpha and IL-1 beta were also given attention. rTNF alpha, as well as rIL-1 alpha and rIL-1 beta, decreased the incorporation of [35S]sulfate into glycosaminoglycan to about 10% of the levels in the control. The half-maximal doses of rTNF alpha, rIL-1 alpha or rIL-1 beta required for the suppression of glycosaminoglycan synthesis (by rTNF alpha, rIL-1 alpha, and rIL-1 beta) were 2 ng/ml, 30 ng/ml, or 5 ng/ml, respectively. rTNF alpha stimulated incorporation of [3H]thymidine in the chondrocytes in a dose- and time-dependent manner. DNA synthesis was increased to about threefold over the control cultures in the presence of 1 microgram/ml rTNF alpha for 72 hr. The stimulatory effect of rTNF alpha on DNA synthesis was observed in both subconfluent and confluent cultures, whereas rIL-1 alpha and rIL-1 beta had no stimulatory activity on DNA synthesis. The addition of rTNF alpha to the cultures of chondrocytes stimulated DNA synthesis, even in medium containing no fetal calf serum. The fetal calf serum acted synergistically with rTNF alpha in increasing DNA synthesis. We propose that both TNF and IL-1 may be involved in inflammatory diseases of cartilage, and that TNF alpha, but not IL-1, may have some physiologic growth factor function for chondrocytes.
Activation of complement by hydroxyl radical in thermal injury. (1988)

Complement activation resulting from local burn injury of skin and other soft tissues can be linked to systemic complications, such as intravascular hemolysis, neutrophil activation, and acute lung injury. This study was designed to clarify the relationship between cutaneous thermal injury, oxygen radical formation, and complement activation in vivo. A model for "selective" venous sampling from the area of a partial-thickness cutaneous burn over 25% to 30% of the total body surface in the rat was developed. Interventions involving oxygen radical scavengers, antioxidant enzymes, xanthine oxidase inhibitors, an iron chelator, complement depletion, and neutrophil depletion were used to probe the nature of the oxygen products involved in complement activation. Plasma from the area of burn was examined for total hemolytic complement activity, content of C5a-related chemotactic peptide, and relationship of oxygen products to appearance of this peptide. Xanthine oxidase inhibitors, hydroxyl radical scavengers, and complement depletion diminished the generation of C5a activity at the burn site, whereas neutrophil depletion was without effect. These data suggest that C5a activity may be related to oxygen products from xanthine oxidase. The catalase sensitivity and iron dependency of C5a generation suggest that hydroxyl radical may be related to complement activation and C5a appearance. This is the first report to directly link oxygen radical generation and complement activation in vivo.
The shape of collaborations (2017)

The structure of scientific collaborations has been the object of intense study both for its importance for innovation and scientific advancement, and as a model system for social group coordination and formation thanks to the availability of authorship data. Over the last years, complex networks approach to this problem have yielded important insights and shaped our understanding of scientific communities. In this paper we propose to complement the picture provided by network tools with that coming from using simplicial descriptions of publications and the corresponding topological methods. We show that it is natural to extend the concept of triadic closure to simplicial complexes and show the presence of strong simplicial closure. Focusing on the differences between scientific fields, we find that, while categories are characterized by different collaboration size distributions, the distributions of how many collaborations to which an author is able to participate is conserved across fields pointing to underlying attentional and temporal constraints. We then show that homological cycles, that can intuitively be thought as hole in the network fabric, are an important part of the underlying community linking structure.
Production of hepatitis B virus nucleocapsidlike core particles in Xenopus oocytes: assembly occurs mainly in the cytoplasm and does not require the nucleus (1991)

The location of hepatitis B virus (HBV) nucleocapsid (core particle) assembly in infected cells remains controversial. Some lines of evidence implicate the nucleus; others favor the cytoplasm. Via injection of a synthetic mRNA encoding the HBV nucleocapsid protein (p21.5), we have expressed both unassembled p21.5 and nucleocapsidlike core particles in Xenopus oocytes. Subcellular fractionation reveals that approximately 91% of the unassembled p21.5 and 95% of the core particles are cytoplasmic, with only 9 and 5%, respectively, in the nucleus. We present evidence showing that unassembled p21.5 equilibrates between nucleus and cytoplasm by passive diffusion and that intact core particles do not enter the nucleus. To examine the role of the nucleus in core particle formation, we expressed p21.5 in surgically anucleate oocytes. We show that anucleate oocytes support efficient core particle formation, indicating that (i) the nucleus is not essential for assembly and (ii) the cytoplasm can assemble most core particles found in oocytes. On the basis of our data, we propose that in oocytes, most core particle assembly (up to 95%) occurs in the cytoplasm, but that at least approximately 5% of the cellular core particles are assembled in the nucleus and remain there. We discuss the implications of these findings for the formation of replication-competent core particles in infected cells.
Imatinib and gastrointestinal stromal tumors: Where do we go from here? (2005)

Imatinib has tremendously changed the treatment of gastrointestinal stromal tumor (GIST). Research is currently focusing on its optimal use and the mechanisms of resistance that may emerge. A multidisciplinary approach including medical oncologists, surgeons, radiologists, and pathologists is crucial for the optimal management of these patients. Moreover, imatinib treatment in GIST represents an extraordinary model to expand our knowledge on the molecular mechanisms that are basic to the effects of molecularly targeted therapies. This review summarizes the existing knowledge of the imatinib treatment in GIST and describes directions for further development.
A Metric for Colorspace* (1943)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text Parry Moon and Domina Eberle Spencer, "A Metric for Colorspace*," J. Opt. Soc. Am. 33, 260-269 (1943) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
KIKI‐net: cross‐domain convolutional neural networks for reconstructing undersampled magnetic resonance images (2018)

KIKI-net exhibits superior performance over state-of-the-art conventional algorithms in terms of restoring tissue structures and removing aliasing artifacts. The results demonstrate that KIKI-net is applicable up to a reduction factor of 3 to 4 based on variable-density Cartesian undersampling.
Enantioselective Synthesis of Bicyclo[2.2.2]octenones Using a Copper-Mediated Oxidative Dearomatization/[4 + 2] Dimerization Cascade (2008)

An enantioselective approach to bicyclo[2.2.2]octenone structures utilizing a copper-mediated asymmetric oxidative dearomatization/[4 + 2] dimerization cascade is described. The total synthesis and absolute stereochemistry reassignment of (+)-aquaticol has been achieved using the methodology.
Human pharmacokinetic and dosimetry studies of [(18)F]FHBG: a reporter probe for imaging herpes simplex virus type-1 thymidine kinase reporter gene expression. (2001)

[(18)F]FHBG has the desirable in vivo characteristics of stability, rapid blood clearance, low background signal, biosafety, and acceptable radiation dosimetry in humans. This study forms the foundation for using [(18)F]FHBG in applications to monitor HSV1-tk reporter gene expression.
TGF‐β1 induces the expression of type I collagen and SPARC, and enhances contraction of collagen gels, by fibroblasts from young and aged donors (1994)

Fibroblasts have a major role in the synthesis and reorganization of extracellular matrix that occur during wound repair. An impaired biosynthetic or functional response of these cells to stimulation by growth factors might contribute to the delayed wound healing noted in aging. We, therefore, compared the responses of dermal fibroblasts from young and elderly individuals (26, 29, 65, 89, 90, and 92 years of age) to transforming growth factor-beta 1 (TGF-beta 1) with respect to: (1) the synthesis of type I collagen and SPARC (two extracellular matrix proteins that are highly expressed by dermal fibroblasts during the remodeling phase of wound repair) and (2) the contraction of collagen gels, and in vitro assay of wound contraction. With the exception of one young donor, all cultures exposed for 44 hours to 10 ng/ml TGF-beta 1 exhibited a 1.6- to 5.5-fold increase in the levels of secreted type I collagen and SPARC, relative to untreated cultures, and exhibited a 2.0- to 6.2-fold increase in the amounts of the corresponding mRNAs. Moreover, the dose-response to TGF-beta 1 (0.1-10 ng/ml), as determined by synthesis of type I collagen and SPARC mRNA, was as vigorous in cells from aged donors as in cells from a young donor. In assays of collagen gel contraction, fibroblasts from all donors were stimulated to a similar degree by 10 ng/ml TGF-beta 1. In conclusion, cells from both young and aged donors exhibited similar biosynthetic and contractile properties with exposure to TGF-beta 1. It therefore appears that the impaired wound healing noted in the aged does not result from a failure of their dermal fibroblasts to respond to this cytokine.
Traumatic injury to the lens. (1991)

Concussive trauma to the eye produces characteristic rosette cataracts, dislocation of the lens, and numerous associated ocular injuries. The mechanism of injury is a traumatic shock wave that progresses through the eye, causing insult to both anterior and posterior structures. Appropriate diagnosis and proper management of traumatic cataract is necessary to restore vision and prevent sight-threatening complications. Traumatic cataract may also result from penetrating injury, retained foreign bodies, electric shock, and radiation. Luxation and subluxation of the lens are additional complications of ocular trauma that require careful management. Surgical extraction is often the treatment of choice for post-traumatic cataractous or dislocated lenses.
Microbial Protein Synthesis and Flows of Nitrogen Fractions to the Duodenum of Dairy Cows (1992)

Attempts have been made to increase nutrient availability for milk production by increasing feed intake, optimizing ruminal fermentation, and supplementing nutrients to the diet that will escape ruminal degradation. Energy and N are the nutritional factors that most often limit microbial growth and milk production. Ruminal fermentation and flow of microbial and dietary protein to the small intestine are affected by feed intake and by the amount and source of energy and protein in the diet. Feeding protein and carbohydrate that are not degraded in the rumen increases the quantity of dietary protein that passes to the small intestine but may decrease the quantity of microbial protein that is synthesized in the rumen. This often results in only small differences in the total NAN that passes to the small intestine. Because microbial protein supplies a large quantity of total AA that passes to the small intestine, differences in passage of individual AA often are only slight. Additional research with cows consuming large amounts of feed are needed to identify combinations of feed ingredients that synchronize availabilities of energy and N for optimizing ruminal digestion, microbial protein synthesis, nutrient flow to the small intestine, and milk production and composition.