gebhart/patrepeval huggingface dataset:
A Western-style diet induces benign and malignant neoplasms in the colon of normal C57Bl/6 mice (2001)

Decreased dietary intakes of calcium, vitamin D and folic acid have been suggested as risk factors for human colon cancer. We previously fed a Western-style diet (WD) containing reduced calcium, vitamin D and increased fat content to normal C57/Bl6 mice: hyperproliferation, hyperplasia and whole crypt dysplasias developed in the colon following WD administration. Utilizing the same diet, we now also decreased the levels of several nutrients that are required for biochemical reactions involving methyl group inadequacy, i.e. folic acid, methionine, choline and vitamin B(12). Dietary levels of these nutrients were reduced to nutrient-density levels approximating those consumed by large segments of human Western populations. This further modification of the WD resulted in adenoma and carcinoma development in normal mouse colon (P < 0.04 compared with AIN-76A diet). The results indicate, for the first time, that a semi-purified rodent diet designed to mimic the human Western diet can induce colonic tumors in normal mice without carcinogen exposure.
Clinical, Biochemical, and Hematological Characteristics, Disease Prevalence, and Prognosis of Dogs Presenting with Neutrophil Cytoplasmic Toxicity (2005)

Neutrophil cytoplasmic toxicity is manifested as an abnormality in cell size or the cytoplasmic content upon examination of Romanowsky-stained blood smears, and is traditionally associated with infection and inflammation. The purpose of this retrospective study was to investigate the association of such changes with clinical and clinicopathologic characteristics, diseases, and prognoses in dogs. Dogs with neutrophil toxicity (n = 248) were compared with negative controls (n = 248). Statistical analyses included chi-square tests, independent t-tests, nonparametric Mann-Whitney tests, the chi-square trend test, and survival analysis. Dogs with neutrophil toxicity had a significantly higher prevalence of pale mucous membranes, tachycardia, fever, abdominal organomegaly, icterus, melena, and hematuria. Most mean hematologic variables were significantly different between groups. Dogs with neutrophil toxicity had a significantly (P < .05) higher prevalence of leukocytosis, leukopenia, neutrophilia, neutropenia, anemia, hyponatremia, hypokalemia, hypoproteinemia, hypoalbuminemia, and hypocalcemia. The prevalence of pyometra, parvovirus infection, acute renal failure, peritonitis, immune-mediated hemolytic anemia, disseminated intravascular coagulation, pancreatitis, septicemia, and neoplastic disorders was significantly higher among these dogs. Case fatality, hospitalization length, and treatment cost were significantly (P < .001) higher in dogs with neutrophil toxicity. Neutrophil toxicity severity was significantly (P < .0035) and positively associated with neutropenia, and negatively associated with leukocytosis and neutrophilia. A significant trend (P = .05) toward increasing case fatality with an increase of neutrophil toxicity was observed. In the neutrophil toxicity group, dogs with leukopenia (<5.0 X 10(3)/mm3) had a significantly (P < .0001) higher case fatality compared to dogs with normal or high leukocyte counts. We conclude that evaluation of blood smears for neutrophil cytoplasmic toxicity provides useful clinical information and can serve as a good prognostic predictor.
Finite element modeling of electromechanical behavior of a dielectric electroactive polymer actuator (2011)

Dielectric Electroactive Polymers (DEAP) will undergo large deformations when subject to an electric field making them an attractive material for use in novel actuator systems. There are many challenges with successful application and design of DEAP actuators resulting from their inherent electromechanical coupling and non-linear material behavior. FE modeling of the material behavior is a useful tool to better understand such systems and aid in the optimal design of prototypes. These modeling efforts must account for the electromechanical coupling in order to accurately predict their response to multiple loading conditions expected during real operating conditions. This paper presents a Finite Element model of a dielectric elastomer undergoing out-of-plane, axisymmetric deformation. The response of the elastomer was investigated while it was subjected to mechanical and electric fields and combined electro-mechanical actuation. The compliant electrodes have a large effect on the mechanical behavior of the EAP which needs to be taken into consideration while modeling the EAP as a system. The model is adapted to include the effect of electrode stiffness on the mechanical response of the actuator. The model was developed using the commercial Finite Element Modeling software, COMSOL. The results from the mechanical simulations are presented in the form of forcedisplacement curves and are validated with comparisons to experimental results. Electromechanical simulations are carried out and the stroke of the actuator for different electrode stiffness values is compared with experimental values when the EAP is biased with a constant force.
On the Power of Adaptivity in Sparse Recovery (2011)

The goal of (stable) sparse recovery is to recover a $k$-sparse approximation $x*$ of a vector $x$ from linear measurements of $x$. Specifically, the goal is to recover $x*$ such that ||x-x*||_p &lt;= C min_{k-sparse x'} ||x-x'||_q for some constant $C$ and norm parameters $p$ and $q$. It is known that, for $p=q=1$ or $p=q=2$, this task can be accomplished using $m=O(k \log (n/k))$ non-adaptive measurements [CRT06] and that this bound is tight [DIPW10,FPRU10,PW11]. In this paper we show that if one is allowed to perform measurements that are adaptive, then the number of measurements can be considerably reduced. Specifically, for $C=1+eps$ and $p=q=2$ we show - A scheme with $m=O((1/eps)k log log (n eps/k))$ measurements that uses $O(log* k \log \log (n eps/k))$ rounds. This is a significant improvement over the best possible non-adaptive bound. - A scheme with $m=O((1/eps) k log (k/eps) + k \log (n/k))$ measurements that uses /two/ rounds. This improves over the best possible non-adaptive bound. To the best of our knowledge, these are the first results of this type. As an independent application, we show how to solve the problem of finding a duplicate in a data stream of $n$ items drawn from ${1, 2, ..., n-1}$ using $O(log n)$ bits of space and $O(log log n)$ passes, improving over the best possible space complexity achievable using a single pass.
Interceptor and Phantom Trials of EDNS at UPMC (2013)

In Brief University of Pittsburgh Medical Center (UPMC) installed an Emergency Department Notification System (EDNS) in one of its hospitals. The system, manufactured by Thermo Fisher Scientific (Thermo Fisher Scientific, Inc., 81 Wyman Street, Waltham, MA 02454), consists of four NaI(Tl) scintillation detectors, a 2.5 L PVT gamma counter, a 512 channels multi-channel analyzer, a system controller, and a database-monitoring server. We evaluated a portable Interceptor Interceptor™ hand-held detector (Thermo Fisher Scientific, Inc., 81 Wyman Street, Waltham, MA 02454) as part of the system for potential ambulancebased early detection and warning unit. We present the minimum detectable activity, distance, and isotope identification success rates along with the change in detector response to various radioisotope sources placed in a Rando® humanoid phantom. (The Phantom Laboratory. P.O. Box 511, Salem, NY 12865-0511 USA) The present paper reports these results. A portable spectroscopic radiation detector was evaluated for inclusion into an emergency department notification system for detection and identification of radioactive isotopes introduced into the hospital environment.
Rewiring of the protein–protein–metabolite interactome during the diauxic shift in yeast (2022)

In budding yeast Saccharomyces cerevisiae, the switch from aerobic fermentation to respiratory growth is separated by a period of growth arrest, known as the diauxic shift, accompanied by a significant metabolic rewiring, including the derepression of gluconeogenesis and the establishment of mitochondrial respiration. Previous studies reported hundreds of proteins and tens of metabolites accumulating differentially across the diauxic shift transition. To assess the differences in the protein-protein (PPIs) and protein-metabolite interactions (PMIs) yeast samples harvested in the glucose-utilizing, fermentative phase, ethanol-utilizing and early stationary respiratory phases were analysed using isothermal shift assay (iTSA) and a co-fractionation mass spectrometry approach, PROMIS. Whereas iTSA monitors changes in protein stability and is informative towards protein interaction status, PROMIS uses co-elution to delineate putative PPIs and PMIs. The resulting dataset comprises 1627 proteins and 247 metabolites, hundreds of proteins and tens of metabolites characterized by differential thermal stability and/or fractionation profile, constituting a novel resource to be mined for the regulatory PPIs and PMIs. The examples discussed here include (i) dissociation of the core and regulatory particle of the proteasome in the early stationary phase, (ii) the differential binding of a co-factor pyridoxal phosphate to the enzymes of amino acid metabolism and (iii) the putative, phase-specific interactions between proline-containing dipeptides and enzymes of central carbon metabolism.
Nucleic acids. VIII. Synthesis and chemistry of ara-cytidine-2',5'-cyclic phosphate. Phosphate anisotropy (1969)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTNucleic acids. VIII. Synthesis and chemistry of ara-cytidine-2',5'-cyclic phosphate. Phosphate anisotropyWilliam J. WechterCite this: J. Org. Chem. 1969, 34, 1, 244–247Publication Date (Print):January 1, 1969Publication History Published online1 May 2002Published inissue 1 January 1969https://pubs.acs.org/doi/10.1021/jo00838a060https://doi.org/10.1021/jo00838a060research-articleACS PublicationsRequest reuse permissionsArticle Views60Altmetric-Citations12LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
[Microenvironment directs the life of stem cells]. (2014)

The regeneration of human tissues requires actively dividing tissue-specific stem cells. These cells are maintained and functionally regulated by a specific microenvironment, the stem cell niche. The niche provides protection and produces signals that guide stem cell division and differentiation. As a consequence, the niche plays a significant role in maintaining the tissue throughout life, and thus impaired tissue regeneration associated with aging may be partly due to the non-functional stem cell niche.
Nocturnal Hypoxia Improves Glucose Disposal, Decreases Mitochondrial Efficiency, and Increases Reactive Oxygen Species in the Muscle and Liver of C57BL/6J Mice Independent of Weight Change (2018)

Although acute exposure to hypoxia can disrupt metabolism, longer-term exposure may normalize glucose homeostasis or even improve glucose disposal in the presence of obesity. We examined the effects of two-week exposure to room air (Air), continuous 10% oxygen (C10%), and 12 hr nocturnal periods of 10% oxygen (N10%) on glucose disposal, insulin responsiveness, and mitochondrial function in lean and obese C57BL/6J mice. Both C10% and N10% improved glucose disposal relative to Air in lean and obese mice without evidence of an increase in insulin responsiveness; however, only the metabolic improvements with N10% exposure occurred in the absence of confounding effects of weight loss. In lean mice, N10% exposure caused a decreased respiratory control ratio (RCR) and increased reactive oxygen species (ROS) production in the mitochondria of the muscle and liver compared to Air-exposed mice. In the absence of hypoxia, obese mice exhibited a decreased RCR in the muscle and increased ROS production in the liver compared to lean mice; however, any additional effects of hypoxia in the presence of obesity were minimal. Our data suggest that the development of mitochondrial inefficiency may contribute to metabolic adaptions to hypoxia, independent of weight, and metabolic adaptations to adiposity, independent of hypoxia.
Current Approaches to Bone Tissue Engineering: The Interface between Biology and Engineering (2017)

The successful regeneration of bone tissue to replace areas of bone loss in large defects or at load-bearing sites remains a significant clinical challenge. Over the past few decades, major progress is achieved in the field of bone tissue engineering to provide alternative therapies, particularly through approaches that are at the interface of biology and engineering. To satisfy the diverse regenerative requirements of bone tissue, the field moves toward highly integrated approaches incorporating the knowledge and techniques from multiple disciplines, and typically involves the use of biomaterials as an essential element for supporting or inducing bone regeneration. This review summarizes the types of approaches currently used in bone tissue engineering, beginning with those primarily based on biology or engineering, and moving into integrated approaches in the areas of biomaterial developments, biomimetic design, and scalable methods for treating large or load-bearing bone defects, while highlighting potential areas for collaboration and providing an outlook on future developments.
Assessment of external fixator reusability using load- and cycle-dependent tests. (2003)

No standard method has been established for investigating repeated use of an external fixator. The purpose of the current study was to establish a fatigue testing method for assessing fixator frame reuse. A unilateral DynaFix trade mark external fixator system was tested using high-load and low-cycle (900-150 N at 5 Hz) and low-load and high-cycle (450-100 N at 10 Hz) tests (assumed one use of 500,000 and 1 million cycles, respectively). These loading conditions were selected to simulate single clinical use and to satisfy Food and Drug Administration requirements. In the high-load low-cycle test, substantial failure of the serrated joint occurred before completion of the first simulated use. In the low-load high-cycle test, all fixators completed three simulated clinical uses without failure, although (1/4) of the serrated joint components had hairline cracks. The high-load low-cycle test identified the fixator components which should be examined and replaced if reuse of the fixator is to be considered. Wear and deformation of the set screw on the rotary joint and telescoping mechanisms were observed in the low-load high-cycle test but not in the high-load low-cycle test. Therefore, if the unilateral DynaFix trade mark fixators are being considered for reusability, the number of reuses should be limited as the whole structure of the device will experience fatigue damage as the loading cycle increases.
Telomerase Reverse Transcriptase (TERT) Regulation in Thyroid Cancer: A Review (2020)

<i>Telomerase reverse transcriptase (TERT)</i> is the catalytic subunit of the enzyme telomerase and is essential for telomerase activity. Upregulation of <i>TERT</i> expression and resulting telomerase activity occurs in the large majority of malignancies, including thyroid cancer. This upregulation results in continued cellular proliferation and avoidance of cellular senescence and cell death. In this review we will briefly introduce <i>TERT</i> and telomerase activity as it pertains to thyroid cancer and, highlight the effects of <i>TERT</i> on cancer cells. We will also explore in detail the different <i>TERT</i> regulatory strategies and how <i>TERT</i> is reactivated in thyroid cancer cells, specifically. These regulatory mechanisms include both activating single base pair <i>TERT</i> promoter mutations and epigenetic changes at the promoter, including changes in CpG methylation and histone modifications that affect chromatin structure. Further, regulation includes the allele-specific regulation of the <i>TERT</i> promoter in thyroid cancer cells harboring the <i>TERT</i> promoter mutation. These entail allele-specific transcriptional activator binding, DNA methylation, histone modifications, and mono-allelic expression of <i>TERT</i>. Lastly, <i>TERT</i> copy number alterations and alternative splicing are also implicated. Both amplifications of the <i>TERT</i> locus and increased full-length transcripts and decreased inactive and dominant negative isoforms result in active telomerase. Finally, the clinical significance of <i>TERT</i> in thyroid cancer is also reviewed.
Tumor Angiogenesis and p53 Mutations (1998)

In this study a strong inverse relationship was seen between MVD and p53 mutations. p53 Mutations in exons 5 through 9 were associated with unfavorable survival, whereas MVD showed no association with survival.
Prehistoric and Early Medieval Cemeteries at Tandderwen, near Denbigh, Clwyd (1991)

A cropmark complex of ring-ditches and square-plan ditches in the Vale of Clwyd, North Wales has been partially excavated. Mesolithic activity is represented predominantly by lithic waste in local cherts. A small bronze age cemetery, dated to between about 1660–1400 b.c., comprises a large and small ring-ditch and a ‘flat cemetery’ associated with Beaker inhumation burials, and by cremation burials, of which some were found with Food Vessel Urns. The larger ring-ditch was superseded by an undated rectangular enclosure with causeways at the centre of each side. An early medieval inhumation cemêtery, with associated dates of about a.d. 510 and a.d. 860, was established to one side of the larger ring-ditch. A small proportion of the graves are enclosed by square-plan ditches, two of which had a causeway at the centre of the eastern side. Generalized parallels are drawn with other sites in eastern and northern Britain and within Wales itself.
Control of head link of snake robot moving in helical rolling motion (2019)

Snake robot can change its own shape flexibly, so it is expected that a snake robot investigates ducts and pipes more effectively. In previous research, a snake robot can move in pipes using helical rolling motion. However, it is difficult that snake robot checks inside of pipes by using camera image because the position and direction of its head link is not stabilized. Therefore, we adopt Virtual Chassis and inverse kinematics to stabilize the head link of snake robot when the snake robot is moving in helical rolling motion. Virtual Chassis is a method of defining center of gravity as an origin of coordinate system, obtaining the spatial orientation of a snake robot by the principal component analysis, and pasting a provisional coordinate system to a snake robot. We compared the case with the head link control to the case without the head link control, and verified how much the camera image has changed. From the experimental results, the center of the camera image approaches to the center of the pipe by the head link control.
Aerosol delivered irradiated Escherichia coli confers serotype-independent protection and prevents colibacillosis in young chickens (2023)

Escherichia coli causes colibacillosis in chickens, which has severe economic and public health consequences. For the first time, we investigated the efficacy of gamma-irradiated E. coli to prevent colibacillosis in chickens considering different strains and application routes. Electron microscopy, alamarBlue assay and matrix assisted laser desorption/ionization time-of- flight mass spectrometry showed that the cellular structure, metabolic activity and protein profiles of irradiated and non-treated E. coli PA14/17480/5-ovary (serotype O1:K1) were similar. Subsequently, three animal trials were performed using the irradiated E. coli and clinical signs, pathological lesions and bacterial colonization in systemic organs were assessed. In the first animal trial, the irradiated E. coli PA14/17480/5-ovary administered at 7 and 21 days of age via aerosol and oculonasal routes, respectively, prevented the occurrence of lesions and systemic bacterial spread after homologous challenge, as efficient as live infection or formalin-killed cells. In the second trial, a single aerosol application of the same irradiated strain in one-day old chickens was efficacious against challenges with a homologous or a heterologous strain (undefined serotype). The aerosol application elicited better protection as compared to oculonasal route. Finally, in the third trial, efficacy against E. coli PA15/19103-3 (serotype O78:K80) was shown. Additionally, previous results of homologous protection were reconfirmed. The irradiated PA15/19103-3 strain, which also showed lower metabolic activity, was less preferred even for the homologous protection, underlining the importance of the vaccine strain. In all the trials, the irradiated E. coli did not provoke antibody response indicating the importance of innate or cell mediated immunity for protection. In conclusion, this proof-of-concept study showed that the non-adjuvanted single aerosol application of irradiated "killed but metabolically active" E. coli provided promising results to prevent colibacillosis in chickens at an early stage of life. The findings open new avenues for vaccine production with E. coli in chickens using irradiation technology.