gebhart/patrepeval huggingface dataset:
An equivalent circuit model of the optical probe in electro‐optical sampling systems (1993)

Abstract An equivalent circuit approach to modeling of the electro‐optic sampling structure is proposed for the first time. The influence of the optical probe to S parameters of the coplanar waveguide test structure is modeled by an equivalent circuit consisting of the analytic approximations and lumped circuit elements. The model coefficients are optimized by fitting the full‐wave field simulation results. The model is dependent on the test structure geometry and material parameters.
BIOLOGICAL MEDIATORS OF INSECT IMMUNITY (1997)

Infection in insects stimulates a complex defensive response. Recognition of pathogens may be accomplished by plasma or hemocyte b1p4eins that bind specifically to bacterial or fungal polysaccharides. Several morphologically distinct hemocyte cell types cooperate in the immune response. Hemocytes attach to invading organisms and then isolate them by phagocytosis, by trapping them in hemocyte aggregates called nodules, or by forming an organized multicellular capsule around large parasites. These responses are often accompanied by proteolytic activation of the phenoloxidase zymogen that is present in the hemolymph. A component of insect immune responses to bacteria is the synthesis by fat body and hemocytes of a variety of antibacterial proteins and peptides, which are secreted into the hemolymph. These molecules attack bacteria by several mechanisms. Inducible antifungal proteins have also been recently discovered in insect hemolymph. The promoters for several antibacterial protein genes in insects are regulated by transcription factors similar to those involved in mammalian acute phase responses.
Deep Generative Adversarial Networks for Compressed Sensing Automates MRI (2017)

Magnetic resonance image (MRI) reconstruction is a severely ill-posed linear inverse task demanding time and resource intensive computations that can substantially trade off {\it accuracy} for {\it speed} in real-time imaging. In addition, state-of-the-art compressed sensing (CS) analytics are not cognizant of the image {\it diagnostic quality}. To cope with these challenges we put forth a novel CS framework that permeates benefits from generative adversarial networks (GAN) to train a (low-dimensional) manifold of diagnostic-quality MR images from historical patients. Leveraging a mixture of least-squares (LS) GANs and pixel-wise $\ell_1$ cost, a deep residual network with skip connections is trained as the generator that learns to remove the {\it aliasing} artifacts by projecting onto the manifold. LSGAN learns the texture details, while $\ell_1$ controls the high-frequency noise. A multilayer convolutional neural network is then jointly trained based on diagnostic quality images to discriminate the projection quality. The test phase performs feed-forward propagation over the generator network that demands a very low computational overhead. Extensive evaluations are performed on a large contrast-enhanced MR dataset of pediatric patients. In particular, images rated based on expert radiologists corroborate that GANCS retrieves high contrast images with detailed texture relative to conventional CS, and pixel-wise schemes. In addition, it offers reconstruction under a few milliseconds, two orders of magnitude faster than state-of-the-art CS-MRI schemes.
Mouse telomerase reverse transcriptase (mTert) expression marks slowly cycling intestinal stem cells (2010)

The intestinal epithelium is maintained by a population of rapidly cycling (Lgr5(+)) intestinal stem cells (ISCs). It has been postulated, however, that slowly cycling ISCs must also be present in the intestine to protect the genome from accumulating deleterious mutations and to allow for a response to tissue injury. Here, we identify a subpopulation of slowly cycling ISCs marked by mouse telomerase reverse transcriptase (mTert) expression that can give rise to Lgr5(+) cells. mTert-expressing cells distribute in a pattern along the crypt-villus axis similar to long-term label-retaining cells (LRCs) and are resistant to tissue injury. Lineage-tracing studies demonstrate that mTert(+) cells give rise to all differentiated intestinal cell types, persist long term, and contribute to the regenerative response following injury. Consistent with other highly regenerative tissues, our results demonstrate that a slowly cycling stem cell population exists within the intestine.
Immunoglobulin D (IgD)-deficient mice reveal an auxiliary receptor function for IgD in antigen-mediated recruitment of B cells. (1993)

To assess the role of immunoglobulin D (IgD) in vivo we generated IgD-deficient mice by gene targeting and studied B cell development and function in the absence of IgD expression. In the mutant animals, conventional and CD5-positive (B1) B cells are present in normal numbers, and the expression of the surface markers CD22 and CD23 in the compartment of conventional B cells indicates acquisition of a mature phenotype. As in wild-type animals, most of the peripheral B cells are resting cells. The IgD-deficient mice respond well to T cell-independent and -dependent antigens. However, in heterozygous mutant animals, B cells expressing the wild type IgH locus are overrepresented in the peripheral B cell pool, and T cell-dependent IgG1 responses are further dominated by B cells expressing the wild-type allele. Similarly, in homozygous mutant (IgD-deficient) animals, affinity maturation is delayed in the early primary response compared to control animals, although the mutants are capable of generating high affinity B cell memory. Thus, rather than being involved in major regulatory processes as had been suggested, IgD seems to function as an antigen receptor optimized for efficient recruitment of B cells into antigen-driven responses. The IgD-mediated acceleration of affinity maturation in the early phase of the T cell-dependent primary response may confer to the animal a critical advantage in the defense against pathogens.
Models for map building and navigation (1993)

In this paper we present several models for solving map building and navigation problems. These models are motivated by biological processes, and presented in the context of artificial neural networks. Since the nodes, weights, and threshold functions of our models all have physical meanings, we can easily predict network topologies and avoid traditional trial-and-error training. On one hand, this makes our models useful in constructing solutions to engineering problems (problems such as those that occur in robotics, for example). On the other hand, this might also contribute to the ability of our models to explain some biological processes, few of which are completely understood at this time.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Enhancing Communication of Agricultural Research Outputs Using Information and Communication Technologies [Article and Abstract] (2011)

Information and communication technologies (ICTs) have transformed the ways in which information and knowledge arising from agricultural research can be shared. Yet the formal outputs of research are often not openly available, and they are not digitally disseminated and communicated effectively and coherently. In addition, some developing countries have been slow to benefit from these new digital opportunities.  A group of international and regional organizations established the CIARD (Coherence in Information for Agricultural Research for Development) initiative in 2008 to address issues of access, coherence and capacity in agricultural research systems.  CIARD works through the three strategic strands of Advocacy, Capacity Building , and Content Management.  The CIARD Manifesto, Checklist, and Pathways, together comprise a strategic and practical framework which can be used and customized by organizations at any level. The website presents the elements of the framework, describes the partnership, and also provides access to the CIARD-RING, a public-domain global registry of web-based sources and services that give access to information and knowledge.  The three main strands of action will continue to be pursued to enhance CIARD’s influence and increase access to knowledge worldwide through face-to-face meetings and online collaboration to foster sharing of experiences.
PKM2: The Thread Linking Energy Metabolism Reprogramming with Epigenetics in Cancer (2014)

Cancer metabolism reprogramming or alterations in epigenetics are linked to an incidence of cancer. It is apparent that epigenetic changes have been found in tumors, therefore, the complete epigenome and entire pathways relevant to cell metabolism are subject to epigenetic dysregulation. Here, we review the pyruvate kinase M2 (PKM2) isoform, a glycolytic enzyme involved in ATP generation and pyruvate production, which plays an essential role in tumor metabolism and growth, and also functions as a protein kinase that phosphorylates histones during genes transcription and chromatin remodeling. We also discuss the potential role of PKM2 in the dynamic integration between metabolic reprogramming and alterations in epigenetics during carcinogenesis and cancer progression.
Drug Delivery Systems:  Water Soluble Taxol 2‘-Poly(ethylene glycol) Ester ProdrugsDesign and in Vivo Effectiveness (1996)

Water soluble 2'-taxol poly(ethylene glycol) (PEG) esters have been synthesized and shown to function in vitro as prodrugs. However, in vivo experiments clearly establish that in order for these prodrugs to behave in a predictable fashion, the molecular weight of PEG must be of such magnitude so as to maintain a t1/2(circulation) > t1/2(hydrolysis). When PEG derivatives of molecular weight approximately 40 kDa were employed with paclitaxel, ca. 4% by weight of paclitaxel was carried by the water soluble prodrug form, and equivalent in vivo toxicity and increased life expectancy in the P388-treated mouse was observed. An effective method for prescreening prodrugs was found to be the acute murine lethality, which reflects the equivalency of the solubilized transport form and the native drug.
mda -7 (IL-24): Signaling and Functional Roles (2002)

One hallmark of neoplasia is abnormal differentiation. Induction of differentiation, by chemical or biological methods, provides a possible therapeutic intervention. "Differentiation therapy" is well documented in several model systems. These include melanoma, in which treatment with interferon-beta and the protein kinase C activator mezerein induces irreversible growth arrest and terminal differentiation culminating in programmed cell death. Subtraction hybridization between terminally differentiated and untreated melanoma cells identified melanoma differentiation-associated gene-7 (mda-7), which is selectively induced during the process of melanoma terminal differentiation. Since its identification seven years ago, mda-7 has been the object of intense focus because of its unique biological properties. Firstly, mda-7 is a secreted protein having cytokine-like properties and belonging to the IL-10 cytokine family. Based on this consideration, mda-7 was renamed IL-24. Secondly if delivered by means of an adenoviral vector, mda-7 induces selective apoptosis in cancer cells of diverse origin, while sparing their normal cellular counterparts. As such, mda-7 has become a novel tool for cancer gene therapy and is currently undergoing phase II clinical trials to determine its clinical efficacy in patients. The present review examines the biological properties of mda-7 and the signaling pathways that contribute to its unique cancer-specific apoptosis-inducing properties.
Optimal Best Arm Identification with Fixed Confidence (2016)

We give a complete characterization of the complexity of best-arm\nidentification in one-parameter bandit problems. We prove a new, tight lower\nbound on the sample complexity. We propose the `Track-and-Stop' strategy, which\nwe prove to be asymptotically optimal. It consists in a new sampling rule\n(which tracks the optimal proportions of arm draws highlighted by the lower\nbound) and in a stopping rule named after Chernoff, for which we give a new\nanalysis.\n
Cyclopropenonchemie, X. 2‐Alkoxy‐3‐alkylcyclopropenone (1988)

Cyclopropenone Chemistry, X. — 2-Alkoxy-3-alkylcyclopropenones The title compounds 2, members of a novel class of compounds, were obtained by photochemical decarbonylation of 3-alkoxy-4-alkyl-3-cyclobutene-1,2-diones 1. In addition, new 2,3-dialkoxycyclopropenones (deltic esters 4) were prepared. 2-Alkoxy-3-alkylcyclopropenones 2 are unexpectedly labile towards photolysis, thermolysis, and especially hydrolysis. Therefore, only compounds with bulky residues could be prepared. Acidor base-catalyzed ring opening of 2 yields compounds 6.
Characterization of ehrlichial organisms isolated from a wild mouse (1993)

An infectious agent was isolated from the enlarged spleen of a wild mouse, Eothenomys kageus, by intraperitoneal inoculation of the spleen homogenate into laboratory mice. The laboratory mice developed splenomegaly, and the agent was maintained by serial passage of spleen homogenates in laboratory mice. The agent in the spleen homogenate was inactivated after incubation at 37 or 50 degrees C. Tetracyclines were effective in preventing infection of mice with this agent, but penicillin and sulfonamides were ineffective. Cytoplasmic inclusion bodies were observed in the peritoneal macrophages of infected mice. Electron microscopy revealed numerous small pleomorphic cocci within membrane-lined vacuoles in the cytoplasm of splenic macrophages. Morphologically similar to the ehrlichial organisms, each organism was surrounded by a distinct plasma membrane and rippled outer cell membrane without a distinct peptidoglycan layer. The agent did not grow in chicken embryos, and the Weil-Felix test result was negative. In the indirect fluorescent-antibody test, the agent reciprocally cross-reacted with Ehrlichia canis and cross-reacted somewhat with Ehrlichia sennetsu but did not cross-react with Ehrlichia risticii, Neorickettsia helminthoeca, Rickettsia tsutsugamushi, or Chlamydia spp. The mouse antiserum against this agent reacted with 64-, 47-, 46-, 44-, and 40-kDa proteins of E. canis by Western blotting (immunoblotting). Since E. canis and closely related Ehrlichia chaffeensis and Ehrlichia ewingii are not known to proliferate or cause splenomegaly in mice, these results suggest that the agent is a new species within the tribe Ehrlichieae of the family Rickettsiaceae. The finding suggests that wild rodents may serve as reservoirs for pathogenic ehrlichiae.
Circulating vasopressin levels in septic shock (2003)

Plasma vasopressin levels are almost always increased at the initial phase of septic shock and decrease afterward. Relative vasopressin deficiency is seen in approximately one-third of late septic shock patients.
Heterogeneity of thromboxane A2(TP‐) receptors: evidence from antagonist but not agonist potency measurements (1991)

1. Thromboxane A2 (TP-) receptors in human, rat and rabbit platelets and in smooth muscle of guinea-pig trachea, rat aorta and rabbit aorta have been characterized by measurement of the potencies of agonists and antagonists having considerable variations in chemical structure. 2. On each washed platelet system, eight prostanoids induced maximal irreversible aggregation (full agonists) and the potency ranking was EP 171 > STA2 > 9,11-azo PGH2 > 9,11-endoxy-10a-homo PGH2 > U-46619 (standard) > PGH2 = 16-p-fluorophenoxy-omega-tetranor PGF2 alpha > 16,16-dimethyl PGF2 alpha. Correlations between the three platelet preparations for both absolute and relative potencies were good. On human platelets, STA2, at concentrations above that required for maximum aggregation, exerted an inhibitory effect which was independent of its interaction with the TP-receptor. 3. Five prostanoids, EP 109, EP 167, EP 204, PTA2 and 16,20-methano PTA2, exhibited partial agonist activity on the platelet and smooth muscle preparations. There was good agreement between absolute potencies on the six preparations; on platelets potency was assessed from shape change measurements, since aggregation, when present, always showed a very shallow concentration-response relationship. The magnitude of the maximum response induced by each compound decreased in the order listed above, to the extent that 16,20-methano PTA2 could be treated as a pure antagonist. 4. With U-46619 as agonist, the pA2 values of seven antagonists were found to be very similar on human and rat platelets. The potency ranking was EP 169 > AH 23848 > EP 092 > ONO 11120 > EP 115 = 16,20-methano PTA2 > BM 13177. There was a similar trend on rabbit platelets but pA2 values were 1.0-1.5 log units smaller; the exception was BM 13177 which had similar affinities. The antagonism produced by EP 169 and AH 23848 was surmountable on rabbit platelets but not on human and rat platelets. 5. None of the antagonists was highly potent on the rabbit aorta (pA2 values < 7.5 by Schild analysis). Affinities on the guinea-pig trachea and the rat aorta were higher and in the same range as those obtained for human and rat platelets. However the correlations of pA2 values between any pair of smooth muscle preparations and between any pair of platelet/smooth muscle preparations were either weak or not significant(P > 0.05). 6. The excellent agreement for both full and partial agonist potencies between the six preparations provides no evidence for TP-receptor subtypes and further suggests that the agonist recognition sites of the TP-receptors could be very similar, if not identical, in nature. In contrast, the different antagonist affinities found in this and other published studies indicate heterogeneity of TP-receptors. However, classification into TP,-, TP2-receptors, etc. on the basis of the limited antagonist data available does not appear appropriate at this time.
PAX8-PPAR γ 1 Fusion in Oncogene Human Thyroid Carcinoma (2000)

Chromosomal translocations that encode fusion oncoproteins have been observed consistently in leukemias/lymphomas and sarcomas but not in carcinomas, the most common human cancers. Here, we report that t(2;3)(q13;p25), a translocation identified in a subset of human thyroid follicular carcinomas, results in fusion of the DNA binding domains of the thyroid transcription factor PAX8 to domains A to F of the peroxisome proliferator-activated receptor (PPAR) gamma1. PAX8-PPARgamma1 mRNA and protein were detected in 5 of 8 thyroid follicular carcinomas but not in 20 follicular adenomas, 10 papillary carcinomas, or 10 multinodular hyperplasias. PAX8-PPARgamma1 inhibited thiazolidinedione-induced transactivation by PPARgamma1 in a dominant negative manner. The experiments demonstrate an oncogenic role for PPARgamma and suggest that PAX8-PPARgamma1 may be useful in the diagnosis and treatment of thyroid carcinoma.
Hierarchical Relations Among Three-Way Methods (1991)

A number of methods for the analysis of three-way data are described and shown to be variants of principal components analysis (PCA) of the two-way supermatrix in which each two-way slice is “strung out” into a column vector. The methods are shown to form a hierarchy such that each method is a constrained variant of its predecessor. A strategy is suggested to determine which of the methods yields the most useful description of a given three-way data set.
Endogenous IL-6 of mesenchymal stem cell improves behavioral outcome of hypoxic-ischemic brain damage neonatal rats by supressing apoptosis in astrocyte (2016)

Mesenchymal stem cell (MSC) transplantation reduces the neurological impairment caused by hypoxic-ischemic brain damage (HIBD) via immunomodulation. In the current study, we found that MSC transplantation improved learning and memory function and enhanced long-term potentiation in neonatal rats subjected to HIBD and the amount of IL-6 released from MSCs was far greater than that of other cytokines. However, the neuroprotective effect of MSCs infected with siIL-6-transduced recombinant lentivirus (siIL-6 MSCs) was significantly weakened in the behavioural tests and electrophysiological analysis. Meanwhile, the hippocampal IL-6 levels were decreased following siIL-6 MSC transplantation. In vitro, the levels of IL-6 release and the levels of IL-6R and STAT3 expression were increased in both primary neurons and astrocytes subjected to oxygen and glucose deprivation (OGD) following MSCs co-culture. The anti-apoptotic protein Bcl-2 was upregulated and the pro-apoptotic protein Bax was downregulated in OGD-injured astrocytes co-cultured with MSCs. However, the siIL-6 MSCs suppressed ratio of Bcl-2/Bax in the injured astrocytes and induced apoptosis number of the injured astrocytes. Taken together, these data suggest that the neuroprotective effect of MSC transplantation in neonatal HIBD rats is partly mediated by IL-6 to enhance anti-apoptosis of injured astrocytes via the IL-6/STAT3 signaling pathway.
A comparison of an anti‐gastrin antibody and cytotoxic drugs in the therapy of human gastric ascites in SCID mice (1999)

The therapeutic effect of antibodies raised by the immunogen Gastrimmune was compared with both a CCKB/gastrin receptor antagonist, CI-988, and 5-Fluorouracil/leucovorin in a gastric cancer model.The human gastric ascites cell line, MGLVA1asc, produced and secreted progastrin and glycineextended gastrin as determined by radioimmunoassay and immunocytochemistry.Cells were also stained with an antiserum directed against the human CCKB/gastrin receptor.MGLVA1asc cells were injected i.p. into SCID mice.Antibodies raised by Gastrimmune immunization of rabbits (affinity for G17 of 0.15 nM and GlyG17 of 0.47 nM) were passively infused i.p. and significantly enhanced survival by up to 5 days (p‫4200.0؍‬from vehicle controls).The enhancement in survival was not significantly different from that achieved by treatment with 5-Fluorouracil and leucovorin.A CCKB/ gastrin receptor antagonist, CI-988, did not affect survival with cells injected at 7.5؋10 5 cells/mouse but significantly increased the survival of mice injected with a lower cell innoculum of 5؋10 5 cells/mouse from 30 to 35 days (p‫.)6810.0؍‬At this lower innoculum antibodies raised by Gastrimmune induced complete survival in 2 animals with the remaining dead by day 36 (p‫.)2200.0؍‬Thus, both endocrine and autocrine pathways mediated by precursor and mature gastrin molecules may be jointly operational in the gastric cancer scenario and may be important targets for therapeutic agents.
Characteristics and analysis of a thin film inductor with closed magnetic circuit structure (1992)

A spiral inductor with closed magnetic circuit was fabricated by an RF sputtering machine and photolithography techniques. The inductance was twice as large as that of a reference sandwiched inductor. The authors analyzed the frequency characteristics of the proposed inductor from three points of view: inner current distribution, flux distribution, and eddy current in the magnetic film. The calculated results agree with the measured ones. It is demonstrated that the current distribution inside the inductors is mostly limited to within the area of the conductor up to several hundred megahertz. The frequency characteristics are influenced by the eddy current loss in the Permalloy film and the stray capacitance between the inductor and the ground plane. The permeability of the Permalloy film is less than that of its as-deposited state, but the closed magnetic circuit structure helps to reduce the influence of the demagnetizing field.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>