gebhart/patrepeval huggingface dataset:
Visualizing Spatial Multivalue Data (2005)

We introduce multivalue data as a new data type in the context of scientific visualization. While this data type has existed in other fields, the visualization community has largely ignored it. Formally, a multivalue datum is a collection of values about a single variable. Multivalue data sets can be defined for multiple dimensions. A spatial multivalue data set consists of a multivalue datum at each physical location in the domain. The time dimension is equally valid. This leads to spatio-temporal multivalue data sets where there is time varying, multidimensional data with a multivalue datum at each location and time. The spatial multivalue data type captures multiple instances of the same variable at each location in space. Visualizing spatial multivalue data sets is a new challenge.
Enterotoxigenic Escherichia coli Secretes Active Heat-labile Enterotoxin via Outer Membrane Vesicles (2000)

Escherichia coli and other Gram-negative bacteria produce outer membrane vesicles during normal growth. Vesicles may contribute to bacterial pathogenicity by serving as vehicles for toxins to encounter host cells. Enterotoxigenic E. coli (ETEC) vesicles were isolated from culture supernatants and purified on velocity gradients, thereby removing any soluble proteins and contaminants from the crude preparation. Vesicle protein profiles were similar but not identical to outer membranes and differed between strains. Most vesicle proteins were resistant to dissociation, suggesting they were integral or internal. Thin layer chromatography revealed that major outer membrane lipid components are present in vesicles. Cytoplasmic membranes and cytosol were absent in vesicles; however, alkaline phosphatase and AcrA, periplasmic residents, were localized to vesicles. In addition, physiologically active heat-labile enterotoxin (LT) was associated with ETEC vesicles. LT activity correlated directly with the gradient peak of vesicles, suggesting specific association, but could be removed from vesicles under dissociating conditions. Further analysis revealed that LT is enriched in vesicles and is located both inside and on the exterior of vesicles. The distinct protein composition of ETEC vesicles and their ability to carry toxin may contribute to the pathogenicity of ETEC strains.
Synthesis and antifreeze activity of fish antifreeze glycoproteins and their analogues (2010)

Fishes from both Arctic and Antarctic waters produce antifreeze glycoproteins (AFGPs) that modify and inhibit the growth of ice crystals, allowing them to survive in extreme cold conditions. These glycoproteins exhibit thermal hysteresis activity, i.e. they work in a non-colligative manner, separating the melting and freezing points of a solution. Such compounds have many potential applications; unfortunately their development is hampered by the difficulty of obtaining pure material. The synthesis of AFGPs is therefore a challenge that numerous groups have been tackling. The AFGPs consist predominantly of a repetitive three amino acid unit (Ala-Ala-Thr)n with the disaccharide β-D-galactosyl-(1–3)-α-D-N-acetylgalactosamine attached to the hydroxyl oxygen of each threonine residue. A large number of analogues have also been synthesized in order to find compounds that exhibit the same activity but that are easier to prepare. Starting from the early years of the AFGP discovery and including the more recent research, this perspective summarizes the different routes used to synthesize native AFGPs and lists the most relevant analogues synthesized, along with some information on their synthesis and their antifreeze activity, if evaluated. In this perspective we have taken special care to differentiate compounds that induce thermal hysteresis, compounds that modify the normal growth habit of ice crystals, and compounds that exhibit recrystallization inhibition properties.
Synthesis and Antibacterial Activity of Some Novel 1-Substituted 1,4-Dihydro-4-oxo-7-pyridinyl-3-quinolinecarboxylic Acids. Potent Antistaphylococcal Agents (1995)

The palladium-catalyzed coupling of 3- and 4-(trialkylstannyl)pyridines with 7-bromo or 7-chloro 1-substituted 1,4-dihydro-4-oxo-3-quinolinecarboxylates has provided access to the corresponding 1-substituted 1,4-dihydro-4-oxo-7-pyridinyl-3-quinolinecarboxylic acids. The antibacterial activity of these derivatives was studied with the finding that the optimal 1- and 7-position substituents for Gram positive activity are cyclopropyl and 4-(2,6-dimethylpyridinyl), respectively. We find that for the fluorine-substituted derivatives studied, the position of the fluorine on the quinolone nucleus or the number of fluorine atoms does not seem to be important for good Gram positive activity. For 1-cyclopropyl 7-(2,6-dimethyl-4-pyridinyl) derivatives, the 6-fluoro 4a, 8-fluoro 10d, 6,8-difluoro 10b, and 5,6,8-trifluoro 8, all provided equal antibacterial activity against Staphylococcus aureus ATCC 29213. There is also a correlation between the substitution on the 7-(4-pyridinyl) group and the Gram positive activity, particularly for S. aureus, clearly indicating that the 2,6-dimethylpyridinyl group is optimal. The MIC50 value for the most potent agents in this study against S. aureus ATCC 29213 is 0.008 microgram/mL. By comparison, ciprofloxacin and aminopyrrolidine 28 gave values of 0.25 and 0.015 microgram/mL, respectively, against this organism.
Physically‐based facial modelling, analysis, and animation (1990)

Abstract We develop a new 3D hierarchical model of the human face. The model incorporates a physically‐based approximation to facial tissue and a set of anatomically‐motivated facial muscle actuators. Despite its sophistication, the model is efficient enough to produce facial animation at interactive rates on a high‐end graphics workstation. A second contribution of this paper is a technique for estimating muscle contractions from video sequences of human faces performing expressive articulations. These estimates may be input as dynamic control parameters to the face model in order to produce realistic animation. Using an example, we demonstrate that our technique yields sufficiently accurate muscle contraction estimates for the model to reconstruct expressions from dynamic images of faces.
SAR patterns of external 915 MHz microwave applicators (1990)

Analysis of the results from recent clinical trials has shown that tumour size is a significant prognostic factor in eventual tumour control in patients treated with thermoradiotherapy. The critical issue appears to be the adequate coverage of hyperthermia target volume with 'therapeutic temperature'. Therefore one must choose appropriate applicators for the treatment of a given tumour. Accurate knowledge of performance characteristics of the applicators used in clinics thus becomes crucial. In an attempt to take the first step for the appropriate selection of applicators in clinics several commonly used applicators were evaluated according to their 75%, 50%, and 25% two-dimensional SAR (specific absorption rate) contours at depths of 1-3 cm. The data were subsequently approximated by rectangles. This type of information, even with its limitations, is extremely important in implementing quality assurance in hyperthermia. In this communication we will present such information, and the implications in current hyperthermia clinical trials will be discussed.
Flows in networks (1962)

In this classic book, first published in 1962, L. R. Ford, Jr., and D. R. Fulkerson set the foundation for the study of network flow problems. The models and algorithms introduced in Flows in Networks are used widely today in the fields of transportation systems, manufacturing, inventory planning, image processing, and Internet traffic. The techniques presented by Ford and Fulkerson spurred the development of powerful computational tools for solving and analyzing network flow models, and also furthered the understanding of linear programming. In addition, the book helped illuminate and unify results in combinatorial mathematics while emphasizing proofs based on computationally efficient construction. Flows in Networks is rich with insights that remain relevant to current research in engineering, management, and other sciences. This landmark work belongs on the bookshelf of every researcher working with networks.
A Cadaveric Study Comparing Discography, Magnetic Resonance Imaging, Histology, and Mechanical Behavior of the Human Lumbar Disc (1992)

The aims of this study were 1) to compare discography and magnetic resonance imaging scanning on cadaver specimens and to correlate these imaging procedures by examining all the discs histologically; and 2) to study the extent to which the amplitude of rotational movement in the neutral and flexed position at a certain level correlates with the morphologic appearance of that disc. Twenty-four human lumbar spines were harvested from cadavers between the ages of 19 and 75 years. Each specimen underwent standard radiography, magnetic resonance imaging scanning, discography, histologic examination, and measurement of axial rotation in a torsion apparatus. For practical reasons, all specimens did not undergo all of the examinations. Not all peripheral anular lesions were detected by discography. Histology showed rim lesions of the anterior anulus in 18% of discs with normal discography. The overall incidence of anterior and posterior anular tears was greater in discs where larger amplitudes of rotation were observed. To which extent the one is a consequence of the other or vice versa is not clear. Magnetic resonance imaging was found to be less specific than discography. However, it must be emphasized that no axial magnetic resonance imaging scans were taken in this study. Discs with significantly decreased amounts of nuclear material (observed at histology) can still produce normal magnetic resonance imaging images. Infolding of the inner layers of the anulus fibrosus (33% anterior, 4% posterior) was a frequently observed feature.
A Unique Approach to Severe Constipation (2011)

Sacral neuromodulation used for urge urinary incontinence, urgency-frequency, and nonobstructive urinary retention, has incidentally been noted to normalize bowel function. This 48-year old female with severe constipation who had failed all conservative treatment measures returned to normal defecatory function after sacral neuromodulation under the supervision of a nurse practitioner.
社会:一种模式,一种反模式 (1987)

较之前两篇论文,法国当代著名社会学批评家泽拉法(Michel Zeraffa)的社会学批评方法是我们较为熟悉的。《社会:一种模式,一种反模式》是泽拉法的专著《小说与社会》(1971)中的一章,作者从“形式”入手,对小说这一文学类型的形成、发展作了历史考察,文中对巴尔扎克等建立的小说模式与普鲁斯特、乔伊斯的“反模式”的分析颇为透辟,而关于小说的社会历史本性的持论亦不觉勉强。确实,社会学方法只要没有被“庸俗”化,同样有助于说明艺术的现象和本质,尤其象小说这样的文学类型。
Analysis and Design of Microring-Based Switching Elements in a Silicon Photonic Integrated Transponder Aggregator (2013)

In this paper, we present and investigate a new architecture of a silicon photonic transponder aggregator as a new interconnect subsystem enabling the implementation of colorless, directionless, and contentionless ROADMs. Such subsystem is based on a microring resonator switching fabric integrated in a silicon photonics platform to achieve high functional integration together with reduction of cost, footprint, and power consumption. In the proposed device, microring resonators perform simultaneous add and drop of wavelength channels which suffer from two detrimental effects: residual dropped signal crosstalk and residual added signal crosstalk, respectively. Considering three microring-based switching elements, the transfer matrix method has been used to compute the add/drop transfer functions of the switches as a function of their geometrical parameters. The two crosstalk effects have been evaluated jointly with other important transmission parameters, such as bandwidth, insertion losses, side lobe suppression, adjacent channel rejection, extinction ratio, and group dispersion. In addition, device sensitivity with respect to the ring-waveguide coupling coefficients has been calculated. Finally, the performance of the different switches has been assessed to demonstrate that, by a proper design, the proposed transponder aggregator can support 100 Gb/s DP-QPSK modulated signal transmission.
Safety and efficacy of early intervention with pimecrolimus cream 1% combined with corticosteroids for major flares in infants and children with atopic dermatitis (2006)

Early treatment of signs/symptoms of AD with pimecrolimus cream 1% provided an effective steroid-sparing option that reduced the incidence of major flares.
Binding sites for basic fibroblast growth factor on solid tumors are associated with the vasculature (1992)

Basic fibroblast growth factor (bFGF) is a member of a family of heparin binding growth factors that exhibit mitogenic and proliferative effects on many mesoderm-and ectoderm-derived cells [1, 2]. It has been shown to be a major angiogenic factor involved in the neovascularization of development and wound healing, as well as the abnormal proliferation of vasculature associated with tumor growth, metastases, diabetic retinopathy and atherosclerosis [3–5]. Multiple forms of the protein have been shown to exist and multiple classes of receptors have been identified [6].
Interleukin-1 as a Pathogenetic Mediator of Ischemic Brain Damage in Rats (1995)

Application of rhIL-1 beta augmented the increase of brain water content, and application of anti-IL-1 beta depressed the increase of water content. These results tended to correlate with the neutrophilic infiltration into the parenchyma. It thus appears that IL-1 beta may play an important role in ischemic brain damage after reperfusion.
Immunoglobulin gene expression in transformed lymphoid cells. (1983)

Myeloma, hybridoma, and thymoma cell lines have been successfully transfected for the Escherichia coli xanthine-guanine phosphoribosyltransferase gene (gpt) by using the plasmid vector pSV2-gpt. The transformed cells synthesize the bacterial enzyme 5-phospho-alpha-D-ribose-1-diphosphate:xanthine phosphoribosyltransferase (XGPRT; EC 2.4.2.22) and have been maintained in selective medium for over 4 months. Lymphoid cell lines expressing a K immunoglobulin light chain were obtained by transfecting cells with pSV2-gpt containing a rearranged K light chain genomic segment from the S107 myeloma cell line. The S107 light chain is synthesized in gpt-transformed J558L myeloma cells and is identical to the light chain synthesized by the S107 myeloma cell line, as judged by immunoprecipitation and two-dimensional gel electrophoresis. Furthermore, this light chain is synthesized and secreted as part of an intact antibody molecule by transformed hybridoma cells that normally secrete an IgGl (gamma, K) antibody molecule. No light chain synthesis was detected in a similarly transformed rat myeloma or a mouse thymoma line.
Fire-climate relationships and long-lead seasonal wildfire prediction for Hawaii (2002)

We examined statistical relationships between the seasonal Southern Oscillation Index (SOI) and total acreages burned (TAB) and the number of fires in the Hawaiian Islands. A composite of TAB during four El Niño/Southern Oscillation (ENSO) events reveals that a large total of acres burned is likely to occur from spring to summer in the year following an ENSO event. The correlation is most significant between the TAB in summer and the SOI of the antecedent winter. This relationship provides a potential for long-lead (i.e. 2 seasons in advance) prediction of wildfire activity in the Hawaiian Islands. Logistic regression is applied to predict events of large acreages burned by wildfires. The goodness of predictions is measured by specificity, sensitivity, and correctness using a cross-validation method. A comparison of prediction skill for four major islands in Hawaii is made using the summer TAB as the response variable and the preceding winter SOI as the predictor variable. For predicting the probability of events (sensitivity), results indicate rather successful skills for the islands of Oahu and Kauai, but less so for Maui and Hawaii. It is more difficult to predict non-events (specificity), with the exception of Oahu. As a result, only Oahu has a high overall correctness rate among the four islands tested.
The Probiotic Mixture VSL#3 Accelerates Gastric Ulcer Healing by Stimulating Vascular Endothelial Growth Factor (2013)

Studies assessing the effect and mechanism of probiotics on diseases of the upper gastrointestinal tract (GI) including gastric ulcers are limited despite extensive work and promising results of this therapeutic option for other GI diseases. In this study, we investigated the mechanisms by which the probiotic mixture VSL#3 (a mixture of eight probiotic bacteria including Lactobacilli, Bifidobacteria and Streptococcus species) heals acetic acid induced gastric ulcer in rats. VSL#3 was administered orally at low (6 × 10(9) bacteria) or high (1.2 × 10(10) bacteria) dosages from day 3 after ulcer induction for 14 consecutive days. VSL#3 treatments significantly enhanced gastric ulcer healing in a dose-dependent manner. To assess the mechanism(s) whereby VSL#3 exerted its protective effects, we quantified the gene expression of several pro-inflammatory cytokines, protein and expression of stomach mucin-Muc5ac, regulatory cytokine-IL-10, COX-2 and various growth factors. Of all the components examined, only expression and protein production of VEGF was increased 332-fold on day 7 in the ulcerated tissues of animals treated with VSL#3. Predictably, animals treated with VEGF neutralizing antibody significantly delayed gastric ulcer healing in VSL#3 treated animals. This is the first report to demonstrate high efficacy of the probiotic mixture VSL#3 in enhancing gastric ulcer healing. Probiotic efficacy was effective at higher concentrations of VSL#3 by specifically increasing the expression and production of angiogenesis promoting growth factors, primarily VEGF.
Synthesis and characterization of dialkyl carbonates prepared from mid‐, long‐chain, and guerbet alcohols (2004)

Abstract A series of organic carbonates derived from mid‐, long‐chain, and Guerbet alcohols were synthesized in good yield (69–80% isolated yields after purification by distillation or recrystallization) though a carbonate interchange reaction by heating the linear or Guerbet alcohols with diethyl carbonate in the presence of catalyst, n ‐dibutyltin oxide. The carbonates were isolated by Kügelrohr distillation or recrystallization from acetone and characterized using FTIR, GC, 1 H and 13 C NMR spectroscopy, and GC‐MS. El and positive Cl mass‐spectral techniques were used to characterize the carbonates. Such materials are currently of commercial interest as lubricants and additives in various industrial applications.
Molecular Physiology and Pathophysiology of Electroneutral Cation-Chloride Cotransporters (2005)

Electroneutral cation-Cl(-) cotransporters compose a family of solute carriers in which cation (Na(+) or K(+)) movement through the plasma membrane is always accompanied by Cl(-) in a 1:1 stoichiometry. Seven well-characterized members include one gene encoding the thiazide-sensitive Na(+)-Cl(-) cotransporter, two genes encoding loop diuretic-sensitive Na(+)-K(+)-2Cl(-) cotransporters, and four genes encoding K(+)-Cl(-) cotransporters. These membrane proteins are involved in several physiological activities including transepithelial ion absorption and secretion, cell volume regulation, and setting intracellular Cl(-) concentration below or above its electrochemical potential equilibrium. In addition, members of this family play an important role in cardiovascular and neuronal pharmacology and pathophysiology. Some of these cotransporters serve as targets for loop diuretics and thiazide-type diuretics, which are among the most commonly prescribed drugs in the world, and inactivating mutations of three members of the family cause inherited diseases such as Bartter's, Gitelman's, and Anderman's diseases. Major advances have been made in the past decade as consequences of molecular identification of all members in this family. This work is a comprehensive review of the knowledge that has evolved in this area and includes molecular biology of each gene, functional properties of identified cotransporters, structure-function relationships, and physiological and pathophysiological roles of each cotransporter.
Zic3 Enhances the Generation of Mouse Induced Pluripotent Stem Cells (2013)

Zinc finger protein of the cerebellum (Zic)3, a member of Gli family of transcription factors (TFs), is essential for maintaining pluripotency of embryonic stem cells (ESCs) and has been reported to activate TF Nanog in an Oct4/Sox2-independent manner. Previously, we showed that Zic3 (Z), in combination with the Yamanka factors OCT4, SOX2, and KLF4 (OSK), induces neural progenitor-like cells from human fibroblasts. However, a similar combination of TFs (OSKZ) transduced in mouse embryonic fibroblasts resulted in enhanced induced pluripotent stem cells (iPSCs) formation compared with OSK alone, but not neuroprogenitors. OSKZ-derived iPSCs are indistinguishable from mESCs in colony morphology, expression of alkaline phosphatase and pluripotency genes, and embryoid body and teratoma formation. Zic3 activates the transcription of Nanog, a key pluripotency regulator, as evidenced by a luciferase promoter assay. During the course of iPSC derivation, Zic3-mediated enhanced expression of Nanog and Tbx3, gene known to enhance iPSCs derivation, is observed. Not only does Zic3 enhance the reprogramming efficiency, but also reactivation of the endogenous Zic3 protein is essential for the generation of iPSCs, as knockdown of Zic3 during the iPSC generation with OSKM significantly reduced the number of colonies. Together, our result uncovers an important role of Zic3 in generating mouse iPSCs.
Adaptation of Sucrose Metabolism in the Escherichia coli Wild-Type Strain EC3132† (2002)

Although Escherichia coli strain EC3132 possesses a chromosomally encoded sucrose metabolic pathway, its growth on low sucrose concentrations (5 mM) is unusually slow, with a doubling time of 20 h. In this report we describe the subcloning and further characterization of the corresponding csc genes and adjacent genes. The csc regulon comprises three genes for a sucrose permease, a fructokinase, and a sucrose hydrolase (genes cscB, cscK, and cscA, respectively). The genes are arranged in two operons and are negatively controlled at the transcriptional level by the repressor CscR. Furthermore, csc gene expression was found to be cyclic AMP-CrpA dependent. A comparison of the genomic sequences of the E. coli strains EC3132, K-12, and O157:H7 in addition to Salmonella enterica serovar Typhimurium LT2 revealed that the csc genes are located in a hot spot region for chromosomal rearrangements in enteric bacteria. The comparison further indicated that the csc genes might have been transferred relatively recently to the E. coli wild-type EC3132 at around the time when the different strains of the enteric bacteria diverged. We found evidence that a mobile genetic element, which used the gene argW for site-specific integration into the chromosome, was probably involved in this horizontal gene transfer and that the csc genes are still in the process of optimal adaptation to the new host. Selection for such adaptational mutants growing faster on low sucrose concentrations gave three different classes of mutants. One class comprised cscR(Con) mutations that expressed all csc genes constitutively. The second class constituted a cscKo operator mutation, which became inducible for csc gene expression at low sucrose concentrations. The third class was found to be a mutation in the sucrose permease that caused an increase in transport activity.