gebhart/patrepeval huggingface dataset:
Relationship between Linear Body Measurement and Live Body Weight in West African Dwarf Goats in Obio Akpa (2016)

A study was conducted to determine the phenotypic relationship between linear body measurements, Heart girth (HG), Body depth (BD), Rump height (RH), Height at wither (HAW), Body length (BL) and body weight (BWT); and to predict body weight from linear body measurements using two hundred and ninety four West African Dwarf (WAD) goats (250 females and 44 males) in four age groups varied between 6-12 months (0PPIwihout pair of permanent incisors), 1-1.5 year (1PPI), 1.5-2 year (2PPI), and 2.5 -3 years (3PPI).The data obtained from this study were analyzed using linear and multiple regressions.Results showed that the mean live body weight of female WAD goats in the four age category were 9.563 4.844, 12.628 4.958, 21.077 6.558 and 23.885 3.652 kg, respectively while males of age group (0PPI) and (PP1) recorded 6.9631.43 and 12.235 4.815kg respectfully.There were significant correlation (P<0.001) between body weight and measured linear measurements, HG (r = 0.681), BD (r = 0.669), RH (r = 0.607), HAW(r = 0.571), BL (r = 0.634), in the pooled group irrespective of sex or age.Simple linear regression analysis showed that body weights could be predicted accurately from heart girth at different ages studied; multiple regression showed high accuracy when more variables were included in the prediction equations (R 2 = 0.803, 0.694 and 0.710 for male, female and male/female groups respectively in the pooled age group).This indicated that there was high correlation between linear body measurements and live body weight which could be used as selection criteria in improving meat production in WAD goat.The highest R 2 was obtained when all the body measurements were included in the regression equations; this suggests that live body weight could be estimated more accurately by combination of two or more linear measurements.
Remarkable archaeal diversity detected in aYellowstone National Park hot spring environment. (1994)

Of the three primary phylogenetic domains--Archaea (archaebacteria), Bacteria (eubacteria), and Eucarya (eukaryotes)--Archaea is the least understood in terms of its diversity, physiologies, and ecological panorama. Although many species of Crenarchaeota (one of the two recognized archaeal kingdoms sensu Woese [Woese, C. R., Kandler, O. & Wheelis, M. L. (1990) Proc. Natl. Acad. Sci. USA 87, 4576-4579]) have been isolated, they constitute a relatively tight-knit cluster of lineages in phylogenetic analyses of rRNA sequences. It seemed possible that this limited diversity is merely apparent and reflects only a failure to culture organisms, not their absence. We report here phylogenetic characterization of many archaeal small subunit rRNA gene sequences obtained by polymerase chain reaction amplification of mixed population DNA extracted directly from sediment of a hot spring in Yellowstone National Park. This approach obviates the need for cultivation to identify organisms. The analyses document the existence not only of species belonging to well-characterized crenarchaeal genera or families but also of crenarchaeal species for which no close relatives have so far been found. The large number of distinct archaeal sequence types retrieved from this single hot spring was unexpected and demonstrates that Crenarchaeota is a much more diverse group than was previously suspected. The results have impact on our concepts of the phylogenetic organization of Archaea.
Alpha-Toxin ofClostridium perfringensIs Not an Essential Virulence Factor in Necrotic Enteritis in Chickens (2006)

The Clostridium perfringens alpha-toxin has previously been implicated as the major virulence factor in necrotic enteritis in chickens, although definitive proof has not been reported. In this study an alpha-toxin mutant was constructed in a virulent chicken isolate and shown to retain full virulence in a chicken disease model. These results demonstrated that alpha-toxin is not an essential virulence factor in the pathogenesis of necrotic enteritis in chickens.
In Vivo Formation of a Glutathione Conjugate Derived from Thalidomide in Humanized uPA-NOG Mice (2011)

Metabolism of the teratogen thalidomide is proposed to be relevant to its toxicological action. We demonstrated the formation of the glutathione (GSH) conjugate of (R)-5-hydroxythalidomide in vivo in chimeric NOD-scid IL2Rg(null) mice with humanized livers (uPA-NOG mice). After an oral administration of racemic thalidomide (270 mg/kg), plasma concentrations of 5-hydroxythalidomide were significantly higher in humanized mice than in control mice. The GSH conjugate of 5-hydroxythalidomide was detected in the plasma. These results indicate that livers of humanized mice mediate thalidomide 5-hydroxylation and further oxidation leading to the GSH conjugate in vivo as well as in vitro and suggest that thalidomide activation occurs.
Early Analysis of Fault-based Attack Effects in Secure Circuits (2007)

Security often relies on functions implemented in hardware. But, various types of attacks have been developed, in particular, fault-based attacks allowing a hacker to observe abnormal behaviors from which secret data can be inferred. Analyzing very early, during a circuit design, the potential impact of faults therefore becomes necessary to avoid security flaws. Dependability analysis environments have been developed to analyze the effect of "natural" faults, for example, those induced by particles. This paper discusses the similarities and differences between the two types; of application areas and proposes extensions of the classical fault models to cover security-related constraints. Experimental results on a coprocessor for RSA encryption demonstrate the need for such an extended fault model.
An Increase in Activity of Serotonergic Retzius Neurones May not be Necessary for the Consummatory Phase of Feeding in the Leech Hirudo Medicinalis (1996)

During the consummatory phase of feeding, in which blood is ingested, medicinal leeches display a characteristic set of behaviours: they extend their jaws, are less responsive to sensory input, produce mucus, relax the body wall and exhibit waves of peristalsis that can run the length of the body. Earlier reports suggested that this pattern of behaviour is orchestrated by serotonin released from Retzius cells in response to the appropriate sensory stimulation of the lip. We have developed a semi-intact preparation in which only the nervous system in the posterior half of the leech was exposed. The front half of the leech was free to explore, bite through and feed until satiated from a blood-filled sausage casing while continuous intracellular and extracellular recordings were made from identified cells and the nerve roots of the exposed segments. Prior to attachment of the animal to the feeding device, the firing frequency of the Retzius cell increased transiently during spontaneous movements or tactile stimuli to its front or posterior end. In contrast, Retzius cell activity decreased after the anterior sucker attached to the membrane of the feeding device at about the time when ingestion was initiated. Increased activity of Leydig cells, which are known to modulate several circuits in the leech, was also associated with exploration. However, unlike that of Retzius cells, the activity of Leydig cells increased significantly following the onset of consumption. These results suggest that increased activity of Retzius cells in midbody ganglia is not a prerequisite for the consummatory phase of feeding and raises questions regarding the role of serotonin in regulating this behaviour.
Effect of 5-Aminoimidazole-4-Carboxamide-1-β-d-Ribofuranoside Infusion on In Vivo Glucose and Lipid Metabolism in Lean and Obese Zucker Rats (2001)

Activation of AMP-activated protein kinase (AMPK) with 5-aminoimidazole-4-carboxamide-1-beta-D-ribofurano-side (AICAR) increases glucose transport in skeletal muscle via an insulin-independent pathway. To examine the effects of AMPK activation on skeletal muscle glucose transport activity and whole-body carbohydrate and lipid metabolism in an insulin-resistant rat model, awake obese Zuckerfa/fa rats (n = 26) and their lean (n = 23) littermates were infused for 90 min with AICAR, insulin, or saline. The insulin infusion rate (4 mU.kg(-1).min(-1)) was selected to match the glucose requirements during AICAR (bolus, 100 mg/kg; constant, 10 mg.kg(-1).min(-1)) isoglycemic clamps in the lean rats. The effects of these identical AICAR and insulin infusion rates were then examined in the obese Zucker rats. AICAR infusion increased muscle AMPK activity more than fivefold (P < 0.01 vs. control and insulin) in both lean and obese rats. Plasma triglycerides, fatty acid concentrations, and glycerol turnover, as assessed by [2-13C]glycerol, were all decreased in both lean and obese rats infused with AICAR (P < 0.05 vs. basal), whereas insulin had no effect on these parameters in the obese rats. Endogenous glucose production rates, measured by [U-13C]glucose, were suppressed by >50% during AICAR and insulin infusions in both lean and obese rats (P < 0.05 vs. basal). In lean rats, rates of whole-body glucose disposal increased by more than two-fold (P < 0.05 vs. basal) during both AICAR and insulin infusion; [3H]2-deoxy-D-glucose transport activity increased to a similar extent, by >2.2-fold (both P < 0.05 vs. control), in both soleus and red gastrocnemius muscles of lean rats infused with either AICAR or insulin. In the obese Zucker rats, neither AICAR nor insulin stimulated whole-body glucose disposal or soleus muscle glucose transport activity. However, AICAR increased glucose transport activity by approximately 2.4-fold (P < 0.05 vs. control) in the red gastrocnemius from obese rats, whereas insulin had no effect. In summary, acute infusion of AICAR in an insulin-resistant rat model activates skeletal muscle AMPK and increases glucose transport activity in red gastrocnemius muscle while suppressing endogenous glucose production and lipolysis. Because type 2 diabetes is characterized by diminished rates of insulin-stimulated glucose uptake as well as increased basal rates of endogenous glucose production and lipolysis, these results suggest that AICAR-related compounds may represent a new class of antidiabetic agents.
An ultra-fast user-steered image segmentation paradigm: live wire on the fly (2000)

We have been developing general user steered image segmentation strategies for routine use in applications involving a large number of data sets. In the past, we have presented three segmentation paradigms: live wire, live lane, and a three-dimensional (3-D) extension of the live-wire method. In this paper, we introduce an ultra-fast live-wire method, referred to as live wire on the fly, for further reducing user's time compared to the basic live-wire method. In live wire, 3-D/four-dimensional (4-D) object boundaries are segmented in a slice-by-slice fashion. To segment a two-dimensional (2-D) boundary, the user initially picks a point on the boundary and all possible minimum-cost paths from this point to all other points in the image are computed via Dijkstra's algorithm. Subsequently, a live wire is displayed in real time from the initial point to any subsequent position taken by the cursor. If the cursor is close to the desired boundary, the live wire snaps on to the boundary. The cursor is then deposited and a new live-wire segment is found next. The entire 2-D boundary is specified via a set of live-wire segments in this fashion. A drawback of this method is that the speed of optimal path computation depends on image size. On modestly powered computers, for images of even modest size, some sluggishness appears in user interaction, which reduces the overall segmentation efficiency. In this work, we solve this problem by exploiting some known properties of graphs to avoid unnecessary minimum-cost path computation during segmentation. In live wire on the fly, when the user selects a point on the boundary the live-wire segment is computed and displayed in real time from the selected point to any subsequent position of the cursor in the image, even for large images and even on low-powered computers. Based on 492 tracing experiments from an actual medical application, we demonstrate that live wire on the fly is 1.3-31 times faster than live wire for actual segmentation for varying image sizes, although the pure computational part alone is found to be about 120 times faster.
Troponin: the biomarker of choice for the detection of cardiac injury (2005)

It has been known for 50 years that transaminase activity increases in patients with acute myocardial infarction. With the development of creatine kinase (CK), biomarkers of cardiac injury began to take a major role in the diagnosis and management of patients with acute cardiovascular disease. In 2000 the European Society of Cardiology and the American College of Cardiology recognized the pivotal role of biomarkers and made elevations in their levels the "cornerstone" of diagnosis of acute myocardial infarction. At that time, they also acknowledged that cardiac troponin I and T had supplanted CK-MB as the analytes of choice for diagnosis. In this review, we discuss the science underlying the use of troponin biomarkers, how to interpret troponin values properly and how to apply these measurements to patients who present with possible cardiovascular disease.
Improved Discrimination of Visual Stimuli Following Repetitive Transcranial Magnetic Stimulation (2010)

Overall our results suggest that rTMS generally improves or has no effect on visual acuity, with the nature of the effect depending on the type of stimulation and the task. We interpret our results in the context of an ideal-observer model of visual perception.
Optical Probe for Nondestructive Wafer-Scale Characterization of Photonic Elements (2017)

This article describes fabrication and operation of a microfabricated photonic waveguide loop probe for nondestructive evanescent coupling and localized testing of nanophotonic devices and circuits. A microfabricated silicon (Si) waveguide (≈ 300 nm × ≈ 260 nm cross-section) loop forming a ≈ 10 μm diameter half-circle is suspended in air at the tip of a cantilever extending from a single-mode fiber-connectorized silicon on insulator (SOI) chip (≈ 1.5 mm × ≈ 3.5 mm). The probe is designed for use with commercial scanning probe microscopes (SPM) for accurate positioning, controlled optical coupling, and chip-scale and wafer-scale testing. We demonstrate this by performing spectroscopy on a Si microdisk optical cavity with an optical quality factor of ≈ 10<sup>6</sup>. The SPM enables precise measurement and stable control of sample-probe distance to vary the coupling rate from under- to over-coupled regimes.
4-Sulphobenzoate 3,4-dioxygenase. Purification and properties of a desulphonative two-component enzyme system from Comamonas testosteroni T-2 (1991)

Cell-free extracts of Comamonas testosteroni T-2 grown in toluene-p-sulphonate/salts medium catalyse the conversion of p-sulphobenzoate (PSB) into protocatechuate and sulphite by an NADH-requiring and Fe2(+)-activated dioxygenase. Anion-exchange chromatography of extracts yielded red (A) and yellow (B) protein fractions, both of which were necessary for dioxygenative activity. Further purification of each fraction by hydrophobic interaction chromatography and gel filtration led to two homogeneous protein components (A and B), which together converted 1 mol each of PSB, O2 and NADH into 1 mol each of protocatechuate, sulphite and, presumably, NAD+. The system was named 4-sulphobenzoate 3,4-dioxygenase (PSB dioxygenase system). Monomeric component B (Mr 36,000) was determined to be a reductase that contained 1 mol of FMN and about 2 mol each of iron and inorganic sulphur per mol. This component transferred electrons from NADH to the oxygenase component (A) or to, e.g., cytochrome c. Homodimeric component A (subunit Mr 50,000) of the PSB dioxygenase system contained one [2Fe-2S] centre per subunit and its u.v.-visible-absorption spectrum corresponded to a Rieske-type iron-sulphur centre. The requirement for activation by iron was interpreted as partial loss of mononuclear iron during purification of component A. Component A could be reduced by dithionite or by NADH plus catalytic amounts of component B. The PSB dioxygenase system displayed a narrow substrate range: none of 18 sulphonated or non-sulphonated analogues of PSB showed significant substrate-dependent O2 uptake. The physical properties of the PSB dioxygenase system resemble those of other bacterial multi-component dioxygenase, especially phthalate dioxygenase. However, it differs from most characterized systems in its overall reaction; the product is a vicinal diphenol, and not a dihydrodiol.
Multiple hypothesis tracking in microscopy images (2009)

Multiple hypothesis tracking (MHT) is a preferred technique for solving the data association problem in modern multiple target tracking systems. However in bioimaging applications, its use has long been thought impossible due to the prohibitive cost induced by the high number of objects that need to be tracked and the poor quality of images. We show in this paper that this broadly accepted view should change. We propose a MHT algorithm (fMHT) that is fast even when dealing with very noisy images of very numerous targets. We have applied the method to the analysis of two sets of real microscopy images that contain thousands of biological targets. By doing so we prove the benefits of the approach when tracking in very noisy environments such as low-light level fluorescent microscopy images.
Migration from can coatings: Part 3. Synthesis, identification and quantification of migrating epoxy-based substances below 1000 Da (2004)

Bisphenol A-derived glycidyl ethers as well as its reaction products with other lacquer components can migrate into the packed food from epoxy-based can coatings. A sensitive and selective method is presented using high-performance liquid chromatography coupled with ultraviolet light, fluorescence and electrospray ionization-mass selective detection for the identification and quantification of all migrants with a bisphenol A backbone and a molecular weight below 1000 Da, an estimated boundary for the absorption in the gastrointestinal tract. The identification of migrants was confirmed by microreactions of technical bisphenol A diglycidyl ether with solvents and phenols, which provided the fragmentation pattern of the mass selective detection and relative retentions of 42 different bisphenol A-related substances. It was shown by calibration of different isolated and synthesized bisphenol A derivatives that the fluorescence response relies on the amount of bisphenol A moiety in the respective molecule. Therefore, all migrating bisphenol A-related substances below 1000 Da were determined as bisphenol A diglycidyl ether equivalents using a calibration (fluorescence detection) of the commercially available bisphenol A diglycidyl ether monomer. The limit of quantification was set at 5 microg bisphenol A diglycidyl ether equivalents kg(-1) (or 0.8 microg dm(-2)). This method was validated for epoxy coatings (0.1 microg dm(-2) limit of detection and 24 microg bisphenol A-related substances below 1000 Da dm(-2) standard deviation, corresponding to 4.4% relative standard deviation). The quantification could be extended by combining the fluorescence response and structural information gained from the mass spectra, which provides more accurate results for each migrant. The calculation is based on the calibration of the bisphenol A chromophore content of the molecule. According to this method, the amount of migrating bisphenol A-related substances below 1000 Da in the acetonitrile extract (assuming a worst case) varied from about 0.4 to 0.7 mg dm(-2) in the examined coatings. The determined amounts comply with about 50% of the total migrate below 1000 Da.
Treatment with Anti-Granulocyte Antibodies Inhibits the Effector Phase of Experimental Autoimmune Encephalomyelitis (1998)

Emerging data suggest that polymorphonuclear leukocytes (PMNLs) can play an important role in Ag-dependent immune responses. Therefore, we have assessed the involvement of these cells in the development of an organ-specific autoimmune disease, experimental autoimmune encephalomyelitis (EAE), in the mouse. Depletion of peripheral blood PMNLs beginning day 8 after immunization significantly delayed and in some cases totally prevented the development of clinical EAE in mice. Depletion of PMNLs beginning 1 day before sensitization and continuing until day 7 postimmunization had no effect on the subsequent development of EAE, suggesting that depletion alters the efferent but not the afferent arm of the immune response. In vitro studies showed that lymphoid cells from mice protected from EAE by PMNL depletion beginning on day 8 postsensitization proliferated in response to specific Ag to a level equal to cells from sensitized animals treated with control serum, again indicating that treatment was not affecting the afferent limb of the immune response. Further evidence that PMNL may be necessary in initiating the pathology of EAE was seen in passive transfer experiments where PMNL-depleted recipients of MBP-specific lymphoid effector cells developed EAE much less effectively than did animals treated with control Ab. Taken together, these data indicate that PMNLs play a critical role in the effector phase of the development of the clinicopathologic expression of EAE in mice.
Abstract 1: Opposing Roles for Endoglin and Soluble Endoglin in Cardiac Remodeling and Heart Failure (2011)

Transforming growth factor beta-1 (TGFb1) promotes cardiac fibrosis. The transmembrane co-receptor Endoglin (Eng; CD105) facilitates TGFb1 signaling via SMAD effector proteins. In contrast, a circulating form of soluble endoglin (sEng) inhibits TGFb1 signaling in vascular endothelium. We recently reported that increased sEng levels in human serum correlate with clinical indices of heart failure severity. Therefore, we tested the hypothesis that Eng and sEng mediate opposing effects on cardiac fibrosis in heart failure. In male, wild-type mice (WT), Eng expression increased in the left ventricle (LV) after 2, 4, and 10 weeks of thoracic aortic constriction (TAC) accompanied by progressive LV fibrosis and hypertrophy. In contrast to WT mice, Eng haploinsufficient (Eng +/− ) mice had preserved LV function (FS%: 78±4 vs 22±16, Eng +/− vs WT, p&lt;0.01) and improved survival [88%(7/8) vs 50%(4/8), Eng +/− vs WT, p&lt;0.001) after 10 weeks of TAC. Reduced LV fibrosis was observed in Eng +/− mice, while LV mass, cardiomyocyte hypertrophy, and calcineurin, SerCA, and bMHC expression were comparable to WT after TAC. Capillary density was significantly higher in Eng +/− mice after TAC compared to WT. LV SMAD phosphorylation (pSMAD) after TAC was studied and a preferential increase was observed in pSMAD1/5/8 expression in Eng +/− mice as compared to WT mice, in which cardiac pSmad2/3 expression was increased. The dependence of TGFb1 induced collagen synthesis on Eng expression was tested in vitro using human cardiac fibroblasts (hCF). Neutralizing antibodies and siRNA against Eng each attenuated TGFb1 induced collagen synthesis. In contrast, conditioned media from cells transfected with an adenovirus over-expressing sEng attenuated pSMAD2/3 expression and TGFb1 induced collagen synthesis in hCF. Treatment of hCF with recombinant sEng blocked TGFb1 induced collagen synthesis in a dose-dependent manner, confirming an inhibitory role of sEng. These results indicate that Eng and sEng mediate opposite effects on TGFb1 induced collagen synthesis. Reduced Eng expression uncouples cardiac fibrosis from cardiomyocyte hypertrophy, promotes SMAD1/5/8-signaling, and enhances angiogenesis. Eng may represent a novel therapeutic target to improve survival in heart failure.