gebhart/patrepeval huggingface dataset:
A survey of longest common subsequence algorithms (2002)

The aim of this paper is to give a comprehensive comparison of well-known longest common subsequence algorithms (for two input strings) and study their behaviour in various application environments. The performance of the methods depends heavily on the properties of the problem instance as well as the supporting data structures used in the implementation. We want to make also a clear distinction between methods that determine the actual lcs and those calculating only its length, since the execution time and more importantly, the space demand depends crucially on the type of the task. To our knowledge, this is the first time this kind of survey has been done. Due to the page limits, the paper gives only a coarse overview of the performance of the algorithms; more detailed studies are reported elsewhere.
[Study by the intracerebral microdialysis method of the effects of atypical neuroleptics and anxiolytics on striatal release and metabolism of dopamine in awake rats]. (1991)

Using brain microdialysis in awake rats effects of risperidone, ritanserin, buspirone, sulpiride and 5-methoxy-N,N-dimethyltryptamine (MeODMT) on striatal dopamine (DA) release and metabolism were studied. Risperidone, sulpiride and buspirone increased levels of DA, dihydroxyphenylacetic acid (DOPAC) and homovanillic acid (HVA). Ritanserin failed to affect DA release, while increased DOPAC and HVA levels. MeODMT had no effect on striatal DA release and metabolism. Possible interaction between DA and serotonin systems is discussed.
Competitive binding of dynorphin-(1-13) and beta-endorphin to cerebroside sulfate in solution. (1986)

Circular dichroism was used as a probe for competitive binding of two opioid peptides, dynorphin-(1-13) and beta-endorphin, with cerebroside sulfate, a membrane lipid thought to be part of the morphine receptor complex. The rationale was that bound beta-endorphin is partially helical but bound dynorphin-(1-13) remains unordered, thus making it possible to detect the degree of binding of beta-endorphin. The addition of dynorphin-(1-13) to a cerebroside sulfate solution of beta-endorphin invariably displaced beta-endorphin from the peptide-lipid complex, but the addition of beta-endorphin had little effect on dynorphin-(1-13) bound to the lipid. Similar results were obtained for competitive binding of the two peptides with two other amphiphiles, sodium dodecyl and decyl sulfate. The maximum number of binding sites on dynorphin-(1-13) and beta-endorphin was between five and six, which coincides with the five positively charged side chains plus an alpha NH+3 group at the NH2 terminus on both peptide molecules. The results support our working hypothesis that dynorphin-(1-13) may displace beta-endorphin bound to the receptor, which in turn can account for the inhibition of beta-endorphin-induced analgesia by dynorphin-(1-13).
Mapping densely packed αIIbβ3 receptors in murine blood platelets with expansion microscopy (2022)

Interrogating platelets and their densely packed, highly abundant receptor landscape is key to understand platelet clotting, a process that can save lives when stopping blood loss after an injury, but also kill when causing heart attack, stroke, or pulmonary embolism. The underlying key receptor distributions and interactions, in particular the relevance of integrin clustering, are not fully understood is because of highly abundant and densely distributed αIIbβ3 receptors. This makes receptor distributions difficult to assess even by super-resolution fluorescence microscopy. Here, we combine dual-color expansion and confocal microscopy with colocalization analysis to assess platelet receptor organization without the need of a super-resolution microscope. We show that 4x expansion is highly straight-forward for super-resolution microscopy of platelets, while 10x expansion provides higher precision at the price of increased efforts in sample preparation and imaging. Quantifying various receptor colocalization scenarios we demonstrate that expansion microscopy can pinpoint receptor distributions and interactions in resting and activated platelets being superior to conventional methods that fail in such dense 3D scenarios with highly abundant receptors. We reveal the presence of αIIbβ3 clusters in resting platelets, as well as in activated platelets, indicating that they contribute to the rapid platelet response during platelet clotting.
Glucose‐containing polymer rings enable fed‐batch operation in microtiter plates with parallel online measurement of scattered light, fluorescence, dissolved oxygen tension, and pH (2019)

Bioprocesses operated in batch mode can induce adverse effects like overflow metabolism, substrate inhibition, osmotic inhibition, oxygen limitation, and catabolite repression. To avoid these adverse effects, fed-batch is the predominant operation mode in industrial production. Nevertheless, screening for optimal production strains is usually performed in microtiter plates and shake flasks operated in batch mode without any online monitoring. Recently, a polymer-based controlled-release fed-batch microtiter plate with stable glucose release characteristics was described. In this study, a glucose-containing polymer matrix was used to manufacture polymer rings that were placed at the bottom of a 48-well microtiter plate. Thereby, the liquid content of the well became accessible for optical measurement by the BioLector device. Reflections caused by the polymer ring were minimized by adjusting the scattered-light measurement position. Influences on the measurement of the dissolved oxygen tension and pH could be avoided by choosing appropriate polymer-ring geometries. These adjustments enabled parallel online measurement of scattered light, fluorescence, dissolved oxygen tension, and pH of Escherichia coli BL21 (DE3) fed-batch cultivations. The online monitoring and fed-batch operation capabilities of the fed-batch microtiter plate presented in this study finds optimal application in screenings and initial process development.
Long-Term Global Ground Heat Flux and Continental Heat Storage from Geothermal Data (2020)

Abstract. Energy exchanges among climate subsystems are of critical importance to determine the climate sensitivity of the Earth's system to greenhouse gases, to quantify the magnitude and evolution of the Earth's energy imbalance, and to project the evolution of future climate. Thus, ascertaining the magnitude and change of the Earth's energy partition within climate subsystems has become urgent in recent years. Here, we provide new global estimates of changes in ground surface temperature, ground surface heat flux and continental heat storage derived from geothermal data using an expanded database and new techniques. Results reveal markedly higher changes in ground heat flux and heat storage within the continental subsurface than previously reported, with land temperature changes of 1 K and continental heat gains of around 12 ZJ during the last part of the 20th century relative to preindustrial times. Half of the heat gain by the continental subsurface since 1960 have occurred in the last twenty years.
Hexagonal Microparticles from Hierarchical Self-Organization of Chiral Trigonal Pd3L6 Macrotetracycles (2021)

Construction of structurally complex architectures using inherently chiral, asymmetric, or multi-heterotopic ligands is a major challenge in metallosupramolecular chemistry. Moreover, the hierarchical self-organization of such complexes is unique. Here, we introduce a water-soluble, facially amphiphilic, amphoteric, chiral, asymmetric, and hetero-tritopic ligand derived from natural bile acid, ursodeoxycholic acid. We show that via the supramolecular transmetalation reaction, using nitrates of Cu(II) or Fe(III), and subsequently Pd(II), a superchiral Pd3L6 complex can be obtained. Even though several possible constitutional isomers of Pd3L6 could be formed, because of the ligand asymmetry and relative flexibility of carbamate-pyridyl moieties attached to the steroid scaffold, only a single product with C3 rotational symmetry was obtained. Finally, we demonstrate that these amphiphilic complexes can self-organize into hexagonal microparticles in aqueous media. This finding may lead to the development of novel self-assembled metal-organic functional materials made of natural, abundant, and relatively inexpensive steroidal compounds.
Self-assembled nanostructured sensors (2004)

We report the development of nanostructured strain sensors formed by electrostatic self-assembly (ESA) processing. The sensors may be used to measure strains from 1 microstrain to more than 100% strain, over gauge lengths ranging from approximately 1 millimeter to tens of centimeters.
Role of Red Cell Distribution Width to Platelet Ratio in Predicting Hepatic Fibrosis in Chronic Hepatitis B. (2018)

Hepatitis B virus (HBV) infection is a serious global health problem. Globally more than 2 (Two) billion people are infected with Hepatitis B virus and about 400 million people are chronic carriers who are at risk of death from liver cirrhosis and liver cancer that kill more than one million people globally each year. Prevalence of HBV infection in Bangladesh is 2.3 to 9.7% and approximately 10 million people are harboring the virus as carrier. HBV infection is increasing at an alarming rate in Bangladesh due to lack of health education, poverty, illiteracy and lack of hepatitis B vaccination. This cross sectional study was carried out in the Department of Clinical Pathology, in collaboration with Department of Hepatology and Department of Pathology, Bangabandhu Sheikh Mujib Medical University (BSMMU), Dhaka, Bangladesh from September 2013 to August 2014 to assess the role of Red cell distribution width to platelet ratio (RPR) as a non invasive marker in predicting hepatic fibrosis in chronic hepatitis B patients. Total 40 patients with chronic hepatitis B virus infection who fulfilled the criteria of chronic hepatitis B were included in this study. In this study, majority of the patients belonged to 20-29 years, most of the patients were male and HBeAg negative .Histopathology was gold standard to identify the stages of hepatic fibrosis. We also measured RDW and Platelet count by automated haematology analyzer when platelet count was rechecked manually; RDW to platelet ratio was calculated to see the correlation between RPR with different stages of hepatic fibrosis. In chronic hepatitis B patients a positive and significant correlation was found between RPR and stages of hepatic fibrosis and Spearman's correlation coefficient for RPR was 0.749 which was positive and highly significant (p<0.001). Sensitivity, specificity, positive predictive value, negative predictive value and accuracy of RDW to Platelet ratio (RPR) was 62.86%, 80%, 95.65%, 23.53% and 65% respectively. To assess the diagnostic performance of RPR we also used receiver-operating curve (ROC). The area under ROC was 0.889 for identification of hepatic fibrosis. This data revealed that RPR is strongly associated with stages of hepatic fibrosis in chronic hepatitis B patients. As such RPR may be a useful diagnostic tool for assessing the hepatic fibrosis in chronic hepatitis B patients.
Pelvic Masses in Obese Women (2003)

Wright, Jason D. MD; Powell, Matthew A. MD; Gibb, Randall K. MD; Mutch, David G. MD; Rader, Janet S. MD; Herzog, Thomas J. MD Author Information
Effect of diabetes on exosomal miRNA profile in patients with obesity (2020)

Our data show that the exosomal miRNAs is altered by dysregulated glucose metabolism in patients with obesity. This circulating exosomal miRNA signature in patients with obesity with or without DM is a potential biomarker and therapeutic target in these patients.
Logic reversibility and thermodynamic irreversibility demonstrated by DNAzyme-based Toffoli and Fredkin logic gates (2012)

The Toffoli and Fredkin gates were suggested as a means to exhibit logic reversibility and thereby reduce energy dissipation associated with logic operations in dense computing circuits. We present a construction of the logically reversible Toffoli and Fredkin gates by implementing a library of predesigned Mg(2+)-dependent DNAzymes and their respective substrates. Although the logical reversibility, for which each set of inputs uniquely correlates to a set of outputs, is demonstrated, the systems manifest thermodynamic irreversibility originating from two quite distinct and nonrelated phenomena. (i) The physical readout of the gates is by fluorescence that depletes the population of the final state of the machine. This irreversible, heat-releasing process is needed for the generation of the output. (ii) The DNAzyme-powered logic gates are made to operate at a finite rate by invoking downhill energy-releasing processes. Even though the three bits of Toffoli's and Fredkin's logically reversible gates manifest thermodynamic irreversibility, we suggest that these gates could have important practical implication in future nanomedicine.
Origins and significance of ergot alkaloid diversity in fungi (2005)

Ergot alkaloids are a diverse family of indole-derived mycotoxins that collectively have activities against a variety of organisms including bacteria, nematodes, insects, and mammals. Different fungi accumulate different, often characteristic, profiles of ergot alkaloids rather than a single pathway end product. These ergot alkaloid profiles result from inefficiency in the pathway leading to accumulation of certain intermediates or diversion of intermediates into shunts along the pathway. The inefficiency generating these ergot alkaloid profiles may have been selected for as a means of accumulating a diversity of ergot alkaloids, potentially contributing in different ways to benefit the producing fungus.
Qi Standard Wireless Power Transfer Technology Development Toward Spatial Freedom (2015)

?Qi?, the wireless power transfer interface specification published by the Wireless Power Consortium (WPC), has been regarded as the wireless charging standard and widely adopted in industry since its first release in August 2010. Larger spatial freedom between the power transmitter and power receiver provides significant convenience for users and device manufacturers, and is one of the critical factors for the success of wireless charging. In this paper, the recent progress of Qi technology development towards spatial freedom is reported. The achieved larger X/Y/Z placement shows that Qi standard is also capable to fulfill the spatial freedom requirement.
CEDAR OnDemand: a browser extension to generate ontology-based scientific metadata (2018)

CEDAR OnDemand helps lower the barrier of incorporating ontologies into standardized metadata entry for public data repositories. CEDAR OnDemand is available freely on the Google Chrome store https://chrome.google.com/webstore/search/CEDAROnDemand.
Transferring multi-device localization models using latent multi-task learning (2008)

In this paper, we propose a latent multi-task learning algorithm to solve the multi-device indoor localization problem. Traditional indoor localization systems often assume that the collected signal data distributions are fixed, and thus the localization model learned on one device can be used on other devices without adaptation. However, by empirically studying the signal variation over different devices, we found this assumption to be invalid in practice. To solve this problem, we treat multiple devices as multiple learning tasks, and propose a multi-task learning algorithm. Different from algorithms assuming that the hypotheses learned from the original data space for related tasks can be similar, we only require the hypotheses learned in a latent feature space are similar. To establish our algorithm, we employ an alternating optimization approach to iteratively learn feature mappings and multi-task regression models for the devices. We apply our latent multi-task learning algorithm to real-world indoor localization data and demonstrate its effectiveness.
Flip chip on laminate manufacturability (1999)

While the size, weight and performance advantages of flip chip on laminate assembly are well recognized, the adoption of the technology has been slow. In part this is due to the non-traditional SMT process steps required to dispense and cure the underfill. SMT compatible dispense and cure process equipment is available for high volume, in-line automated assembly. However, the traditional dispense, underflow and cure times significantly impact production cycle time. To address the issue of cycle time, new generation underfill materials have been developed to provide fast underfill times and snap cure. This paper examines the manufacturing steps required for flip chip on laminate assembly and the impact of these new materials on production cycle time. Adhesion testing, liquid-to-liquid thermal shock and thermal cycling have been used to examine the reliability of the underfilled flip chip on laminate. New underfill materials provide a cost-effective option for flip chip-on-laminate applications.
Integration of FHIR to Facilitate Electronic Case Reporting: Results from a Pilot Study (2019)

Current approaches to gathering sexually transmitted infection (STI) case information for surveillance efforts are inefficient and lead to underreporting of disease burden. Electronic health information systems offer an opportunity to improve how STI case information can be gathered and reported to public health authorities. To test the feasibility of a standards-based application designed to automate STI case information collection and reporting, we conducted a pilot study where electronic laboratory messages triggered a FHIR-based application to query a patient's electronic health record for details needed for an electronic case report (eCR). Out of 214 cases observed during a one week period, 181 (84.6%) could be successfully confirmed automatically using the FHIR-based application. Data quality and information representation challenges were identified that will require collaborative efforts to improve the structure of electronic clinical messages as well as the robustness of the FHIR application.
Multiple Signal Direction of Arrival (DoA) Estimation for a Switched-beam System Using Neural Networks (2007)

A new Direction of Arrival (DoA) estimation method based on Neural Networks (NNs) is presented. The proposed NN-DoA procedure is especially designed for a Switched-Beam System (SBS), whose basic component is an 8 £ 8 Butler Matrix (BM). The technique is simple and appropriate for real time applications. Simulations of DoA estimation tests show accurate results even for a big set of simultaneously incident signals.
Quorum-sensing regulates biofilm formation in Vibrio scophthalmi (2012)

V. scophthalmi shares two quorum sensing circuits, including the main transcriptional regulator luxR, with some pathogenic vibrios such as V. harveyi and V. anguillarum. However, contrary to these pathogenic vibrios no virulence factors (such as protease production) were found to be quorum sensing regulated in this bacterium. Noteworthy, biofilm formation was altered in luxS and luxR mutants. In these mutants a different expression profile of membrane proteins were observed with respect to the wild type strain suggesting that quorum sensing could play a role in the regulation of the adhesion mechanisms of this bacterium.
Solutions for a single carrier 40 Gbit/s downstream long-reach passive optical network (2014)

This paper presents a single carrier 40 Gbit/s downstream long-reach passive optical network (LR-PON) topology as candidate for upgrading current fiber infrastructure towards higher data rates. A 100 km LR-PON network was investigated and 2 solutions to overcome chromatic dispersion were proposed. Firstly, a dispersion compensated element is added to compensate the mean length of the feeder fiber. Secondly, an advanced modulation scheme, i.e. 3-level electrical duo-binary is introduced. This scheme has the advantage of allowing lower bandwidth APDs and requires only limited additional electronics. Furthermore, to overcome the inherent discrepancy between aggregated line rate and user rate, and hence the reduced power effciency, the BiPON protocol is added to minimize signal processing at the high line rates.
Vascular endothelial growth factor gene polymorphisms in thyroid cancer (2007)

Vascular endothelial growth factor (VEGF) is a potent stimulator for angiogenesis. It has been implicated in growth and metastasis of thyroid cancer. Three functional single nucleotide polymorphisms (SNPs) of VEGF (-2578C/A, -634G/C, and +936C/T) are known to be related with VEGF expression. We conducted a case-control study to evaluate the genetic effects of these three functional SNPs on the development of thyroid cancer and lymph node metastasis. A total of 332 cases and 261 controls were recruited for this study. The genotypes were determined by the TaqMan 5'-nuclease assay. Hardy-Weinberg equilibrium (HWE) was tested for each SNP, and genetic effects were evaluated by the chi(2)-test and multiple logistic regression. We used Bonferroni correction to account for multiple testing, and a two-tailed P value <0.017 was considered statistically significant. All three SNPs were in HWE. The A allele of -2578C/A (i.e. SNP rs699947) increased a risk for thyroid cancer (adjusted OR=136, 95% CI=1.02-1.81, P=0.039). Haplotype analysis yielded a less significant result (an empirical P value of 0.07). There was a tendency of increasing the frequency of the risk allele from controls, patients without lymph node metastasis to patients with lymph node metastasis (P(trend)=0.019). Further analysis showed that the genetic effect was only in men (adjusted OR=1.97, 95% CI=1.16-3.37, P=0.013) but not in women (adjusted OR=1.15, 95% CI=0.81-1.62, P=0.435). The other two SNPs did not show significant results. The A allele of the SNP rs699947 increased the risk of thyroid cancer development and regional lymph node metastasis in men.
Primitive Cytokines and Cytokine Receptors in Invertebrates: the Sea Star Asterias rubens as a Model of Study (1996)

It has been previously demonstrated that the sea star axial organ is a primitive immune organ. Phagocytic, lymphoid-like cells have been characterized with properties similar to those of vertebrates. There is also evidence for an invertebrate cytokine network because IL-1 and TNF-like activities are clearly demonstrable. In addition, the authors have previously described preliminary evidence for IL-2-like activity in the sea star. In the present report, the authors obtained evidence for the presence of IL-1- and IL-2-like molecules on axial organ cells. More interestingly, the results suggested that sea star cells express structures similar to human receptors for IL-1, IL-2, IL-6 and IFN-gamma.
IMproving facial PRosthesis construction with contactlESs Scanning and Digital workflow (IMPRESSeD): study protocol for a feasibility crossover randomised controlled trial of digital versus conventional manufacture of facial prostheses in patients with orbital or nasal facial defects (2023)

ISRCTN ISRCTN10516986). Prospectively registered on 08 June 2021, https://www.isrctn.com/ISRCTN10516986 .
Permanent Magnet Couplings: Field and Torque Three-Dimensional Expressions Based on the Coulombian Model (2009)

This paper presents three-dimensional expressions for the optimization of permanent-magnet couplings. First, we give a fully analytical expression of the azimuthal field created by one arc-shaped permanent magnet radially polarized which takes into account its magnetic pole volume density. Such an expression has a very low computational cost and is exact for all points in space. Then, we propose two semianalytical expressions of the azimuthal force and the torque exerted between two arc-shaped permanent magnets. These expressions are valid for thick or thin arc-shaped permanent magnets. Furthermore, this approach allows us to realize easily parametric studies and optimizations. The analytical approach taken in this paper, based on the Coulombian model, is a good alternative compared to the finite element method generally used to study such configurations.