gebhart/patrepeval huggingface dataset:
Seroepidemiologic Survey of Epidemic Cholera in Haiti to Assess Spectrum of Illness and Risk Factors for Severe Disease (2013)

To assess the spectrum of illness from toxigenic Vibrio cholerae O1 and risk factors for severe cholera in Haiti, we conducted a cross-sectional survey in a rural commune with more than 21,000 residents. During March 22-April 6, 2011, we interviewed 2,622 residents ≥ 2 years of age and tested serum specimens from 2,527 (96%) participants for vibriocidal and antibodies against cholera toxin; 18% of participants reported a cholera diagnosis, 39% had vibriocidal titers ≥ 320, and 64% had vibriocidal titers ≥ 80, suggesting widespread infection. Among seropositive participants (vibriocidal titers ≥ 320), 74.5% reported no diarrhea and 9.0% had severe cholera (reported receiving intravenous fluids and overnight hospitalization). This high burden of severe cholera is likely explained by the lack of pre-existing immunity in this population, although the virulence of the atypical El Tor strain causing the epidemic and other factors might also play a role.
PSV-B-18 Characterization of the fecal microbiome of healthy adult beagle dogs supplemented with graded levels of bacillus coagulans GBI-30, 6086 (2021)

Abstract This study aimed to evaluate the effect of Bacillus coagulans GBI-30, 6086 on the fecal microbiome of healthy adult dogs. Extruded diets containing graded levels of probiotic applied either to the base ration before extrusion or as a topical coating post-extrusion were randomly assigned to ten individually-housed Beagle dogs (7 castrated males, 3 spayed females) of similar age (5.75 ± 0.23 yr) and body weight (12.3 ± 1.5 kg) in a 5 x 5 replicated Latin square with 16-d adaptation and 5-d total fecal collection for each period. Five dietary treatments were formulated to deliver a dose of 0-, 6-, 7-, 8-, or 9-log10 CFU·dog-1·d-1. Fresh fecal samples (n=50) were analyzed by 16S rRNA gene pyrosequencing. Community diversity was evaluated in R (v4.0.3, R Core Team, 2019). Relative abundance data were analyzed using a mixed model (v9.4, SAS Institute, Inc., Cary, NC) with treatment and period as fixed effects and dog as a random effect. Results were considered significant at P &amp;lt; 0.05. Predominant phyla were Firmicutes (mean 81.2% ± 5), Actinobacteria (mean 9.9% ± 4.4), Bacteroidetes (mean 4.5% ± 1.7), Proteobacteria (mean 1.3% ± 0.7), and Fusobacteria (mean 1.1% ± 0.6). No evidence of shifts in predominant phyla, class, family, or genus taxonomic levels were observed except for the Bacillus genus, which had a greater relative abundance (P = 0.0189) in the low probiotic coating and high probiotic coating treatment groups compared to the extruded probiotic group. Alpha-diversity indices (Richness, Chao1, ACE, Shannon, Simpson, Inverse Simpson, and Fisher) and beta-diversity metrics (principal coordinate analysis and multi-dimensional scaling) were similar for all treatments. This data indicates that supplementation with Bacillus coagulans GBI-30, 6086 at a dose of up to 9 log10 CFU·d-1 did not alter the overall diversity of the fecal microbiome of healthy adult dogs over a 21-d period.
Amberlyst-15-Catalyzed Efficient Synthesis of 1,1-Diacetates from Aldehydes (2003)

Abstract Amberlyst-15 was found to be an efficient catalyst for acylation reaction of aldehydes with acetic anhydride at room temperature in dichloromethane.
2-Year Follow-Up of Subjects and Their Families Defined as at Risk for Psychopathology on the Basis of Platelet MAO Activities (1982)

College students hypothesized as being at risk for psychiatric dysfunction solely on the basis of their MAO platelet activities were briefly interviewed 2 years after completion of initial studies. These 33 low-MAO subjects reported more job instability than 30 high-MAO control subjects. Moreover, the low-MAO males had fallen about half a year behind their high-MAO counterparts in school. No differences in other aspects of social status or psychosocial problems had developed, although the low-MAO subjects smoked significantly more cigarettes and tended to report more major or minor medical problems. While the low-MAO subjects reported no significant decline in their own mental health status during this period, more low-MAO male subjects did report mental health problems in their families, especially depression, alcoholism, and suicide attempts, as well as significantly more mental health interventions among family members, such as psychiatric visits, prescription of psychotropic medication, and psychiatric hospitalization.
Generation of Monodisperse Silk Microspheres Prepared with Microfluidics (2010)

Monodisperse microspheres of reconstituted silkworm cocoon silk were produced using a glass capillary-based microfluidic system and by identifying an appropriate solvent/nonsolvent fluid system. The microspheres can be produced to a range of different diameters depending on the system flow rates and have a nearly homogeneous size distribution. The silk microspheres exhibit a unique core--shell architecture and have a largely beta-sheet structure, as measured by infrared spectroscopy. Mechanical characterization was performed with AFM nanoindentation and indicates that the microspheres are unexpectedly soft for a silk material. Because silk is well established as biocompatible and biodegradable, we anticipate that these silk microspheres could have particular utility in drug delivery and controlled release.
ChemInform Abstract: Formation of Oligotriazoles Catalyzed by Cucurbituril. (2002)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Many-Body Surface Strain and Surface Reconstructions in fcc Transition Metals (1988)

Bonding in the near-surface region is strongly influenced by the truncation of the lattice at the surface. This many-body effect is examined quantitatively by use of the embedded-atom method on low-index transition-metal surfaces. An unreconstructed metal surface is found to have a tensile strain of several percent. This many-body surface strain is an important factor in the energetics of surface structure, serving as a parameter combining surface stress and nonlinear elastic effects. In particular, it is demonstrated that the surface strain drives surface reconstruction, and also produces asymmetry in the stability properties of thin mismatched epitaxial overlayers.
MEC-8 regulates alternative splicing ofunc-52transcripts inC. eleganshypodermal cells (2002)

Previous work has shown that C. elegans MEC-8 is a putative RNA-binding protein that promotes specific alternative splices of unc-52 transcripts. unc-52 encodes homologs of mammalian perlecan that are located extracellularly between muscle and hypodermis and are essential for muscle development in both embryos and larvae. We show that MEC-8 is a nuclear protein found in hypodermis at most stages of development and not in most late embryonic or larval body-wall muscle. We have also found that overexpression of MEC-8 in hypodermis but not muscle can suppress certain unc-52 mutant phenotypes. These are unexpected results because it has been proposed that UNC-52 is produced exclusively by muscle. We have constructed various tissue-specific unc-52 minigenes fused to a gene for green fluorescent protein that have allowed us to monitor tissue-specific mec-8-dependent alternative splicing; we show that mec-8 must be expressed in the same cell type as the unc-52 minigene in order to regulate its expression, supporting the view that MEC-8 acts directly on unc-52 transcripts and that UNC-52 must be synthesized primarily by the hypodermis. Indeed, our analysis of unc-52 genetic mosaics has shown that the focus of unc-52 action is not in body-wall muscle but most likely is in hypodermis.
Activation of IκB Kinase by Herpes Simplex Virus Type 1 (2001)

Herpes simplex viruses (HSV) are ubiquitous pathogens causing a variety of diseases ranging from mild illness to severe life-threatening infections. HSV utilize cellular signaling pathways and transcription factors to promote their replication. Here we report that HSV type 1 (HSV-1) induces persistent activation of transcription factor NF-kappa B, a critical regulator of genes involved in inflammation, by activating the I kappa B kinase (IKK) in the early phase of infection. Activated NF-kappa B enhances HSV-1 gene expression. HSV-1-induced NF-kappa B activation is dependent on viral early protein synthesis and is not blocked by the anti-herpetic drug acyclovir. IKK inhibition by the anti-inflammatory cyclopentenone prostaglandin A(1) blocks HSV-1 gene expression and reduces virus yield by more than 3000-fold. The results identify IKK as a potential target for anti-herpetic drugs and suggest that cyclopentenone prostaglandins or their derivatives could be used in the treatment of HSV infection.
Decentralised cooperative attitude tracking using modified Rodriguez parameters based on relative attitude information (2010)

In this article, the problem of decentralised cooperative attitude tracking based on relative attitude information is considered in the context of deep space spacecraft formation flying. We use modified Rodriguez parameters for attitude representation due to its nonreduction. We first present a distributed sliding-mode estimator and a cooperative attitude tracking control law such that the attitudes and angular velocities of all spacecraft track their references. Then we extend the result to three different cases. In the first case, we use a passivity approach to derive a control law without angular velocity measurements, which is of significance for applications with low-cost configurations of spacecraft. In the second case, to relax the special connectivity condition given in the original control design, we obtain a locally asymptotical stability condition for any undirected connected communication topology. In the third case, we consider cooperative attitude tracking in the presence of a dynamic communication topology. Simulation results are presented to validate the effectiveness of these control laws.
Targeting MAGE-C1/CT7 Expression Increases Cell Sensitivity to the Proteasome Inhibitor Bortezomib in Multiple Myeloma Cell Lines (2011)

The MAGE-C1/CT7 encodes a cancer/testis antigen (CTA), is located on the chromosomal region Xq26-27 and is highly polymorphic in humans. MAGE-C1/CT7 is frequently expressed in multiple myeloma (MM) that may be a potential target for immunotherapy in this still incurable disease. MAGEC1/CT7 expression is restricted to malignant plasma cells and it has been suggested that MAGE-C1/CT7 might play a pathogenic role in MM; however, the exact function this protein in the pathophysiology of MM is not yet understood. Our objectives were (1) to clarify the role of MAGE-C1/CT7 in the control of cellular proliferation and cell cycle in myeloma and (2) to evaluate the impact of silencing MAGE-C1/CT7 on myeloma cells treated with bortezomib. Myeloma cell line SKO-007 was transduced for stable expression of shRNA-MAGE-C1/CT7. Downregulation of MAGE-C1/CT7 was confirmed by real time quantitative PCR and western blot. Functional assays included cell proliferation, cell invasion, cell cycle analysis and apoptosis. Western blot showed a 70-80% decrease in MAGE-C1/CT7 protein expression in inhibited cells (shRNA-MAGE-C1/CT7) when compared with controls. Functional assays did not indicate a difference in cell proliferation and DNA synthesis when inhibited cells were compared with controls. However, we found a decreased percentage of cells in the G2/M phase of the cell cycle among inhibited cells, but not in the controls (p<0.05). When myeloma cells were treated with bortezomib, we observed a 48% reduction of cells in the G2/M phase among inhibited cells while controls showed 13% (empty vector) and 9% (ineffective shRNA) reduction, respectively (p<0.01). Furthermore, inhibited cells treated with bortezomib showed an increased percentage of apoptotic cells (Annexin V+/PI-) in comparison with bortezomib-treated controls (p<0.001). We found that MAGE-C1/CT7 protects SKO-007 cells against bortezomib-induced apoptosis. Therefore, we could speculate that MAGE-C1/CT7 gene therapy could be a strategy for future therapies in MM, in particular in combination with proteasome inhibitors.
Effects of brain-derived neurotrophic factor and neurotrophin-4 on isolated cultured retinal ganglion cells: evaluation by flow cytometry. (2000)

BDNF improved the survival rate of RGCs, particularly of small RGCs, concentration-dependently, but NT-4 had little influence on the survival rate. The current method was useful in evaluating the effects of neuroprotective factors or neurotoxic factors on cultured RGCs.
Abstract 1590: Taxifolin suppresses UV-induced skin carcinogenesis by targeting EGFR and PI3-K (2012)

Abstract Skin cancer is one of the most commonly diagnosed cancers in United States. Taxifolin (3, 3′, 4′, 5, 7-pentahydroxy-flavanone, (2R,3R)-dihydroquercetin), which is found in many citrus fruits such as grapefruits and oranges, has been studied for multiple biological effects. However, the molecular mechanisms and direct target of taxifolin in skin cancer chemoprevention are unclear. Here we show that taxifolin suppresses UV-induced skin carcinogenesis by directly targeting epidermal growth factor receptor (EGFR) and phosphoinositide 3-kinase (PI3-K). In silico computer screening results suggest that EGFR and PI3-K are potential targets for taxifolin. In vitro and ex vivo pull-down assay data revealed that taxifolin indeed directly interacts with EGFR and PI3-K at the ATP-binding pocket, and inhibited their kinase activities in vitro. UVB-induced phosphorylation of EGFR and Akt were substantially suppressed by taxifolin in mouse skin epidermal JB6 P+ cells. Taxifolin also suppressed UVB-induced phosphorylation of mitogen-activated protein kinases (MAPKs) and cyclooxygenase-2 (COX-2) expression. Importantly, topical treatment with taxifolin to the dorsal skin significantly suppressed tumor incidence, multiplicity and volume in a solar UV-induced skin carcinogenesis mouse model. Further analysis of the solar UV-exposed mouse skin showed that the taxifolin-treated group had a substantial reduction in solar UV-induced phosphorylation of EGFR and Akt. These results suggest that taxifolin exerts potent chemopreventive activity against UV-induced skin carcinogenesis by targeting EGFR and PI3-K. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 103rd Annual Meeting of the American Association for Cancer Research; 2012 Mar 31-Apr 4; Chicago, IL. Philadelphia (PA): AACR; Cancer Res 2012;72(8 Suppl):Abstract nr 1590. doi:1538-7445.AM2012-1590
Impact of Delayed Harvest on Corn Yield and Harvest Losses (2021)

Highlights Changes in yield, losses, and quality due to delayed harvest were evaluated. No significant changes in potential yield were observed over three years. Observed yield decreased late season with lodging present. Losses at the combine head represented largest fraction of measured loss. Abstract . Potential changes in yield and harvest losses that can occur while field drying corn are key considerations when evaluating harvest timing and energy costs associated with artificial drying. This study presents a three-year evaluation of corn harvest in Kentucky. Potential yield, observed yield, measured losses, and quality changes were monitored in a single field at multiple points over the harvest season to assess changes with respect to time and moisture. Measured losses were typically less than 1% of the potential yield in a good standing crop, consistent with results from cooperator combines (0.8% to 2.4%). When lodging was present, variability increased, and measured losses increased to between 5.3% and 9.1% of the potential yield, primarily as a result of ears missed by the combine head. No significant changes in potential yield were found, indicating potential yield was stable over the period examined. In two of the three seasons evaluated, extended delays resulted in an increase in lodging, and the observed yield was significantly reduced by up to 42.5%. Allowing the grain to field dry generally improved test weight; however, there was a trend of increased mold and other damage with prolonged field drying in one season. Keywords: Combines, Grain quality, Harvest loss, Maize, Preharvest loss.
Development and serviceability of a highway bridge deck using ultra‐high performance fiber‐reinforced concrete (2019)

Abstract Lightweight orthotropic steel decks are widely used in urban expressways. However, fatigue cracks occur in the orthotropic steel deck. As a result, their maintenance cost has been increasing. Considering this problem, we have developed a deck slab using ultra‐high performance fiber reinforced concrete (UHPFRC), as an alternative to the steel deck slab. The own weight of the UHPFRC deck slab is almost the same as that of an orthotropic steel deck slab. A UHPFRC deck has very thin components as compared with conventional concrete deck, thus the safety of the UHPFRC deck slab was analyzed via finite element analysis, and the fatigue durability of the UHPFRC deck slab was also confirmed via a wheel running fatigue test. The authors confirmed that the durability of the UHPFRC deck slab was sufficiently high and verified the serviceability of the deck using vibration and load tests. The characteristic frequency and impact coefficient of the deck were calculated, and the result indicated low possibility of resonance between the deck and cars.
Analysis and Improvement of Stocking and Releasing Processes in Logistics Warehouse Using Process Mining Approach (2014)

The functions of stocking and releasing in logistics center consist of three major procedure such as receiving, shipping and stock managements. Each process includes various sub-processes which are complicatedly connected with each other. Furthermore, lots of operators execute various tasks in the different sub-processes, simultaneously. It makes difficult to standardize, monitor, and analyze the processes. This paper proposed the quantitative methodology using process mining approach to discover and analyze receiving and shipping processes. For this purpose, the PDA operation log data is analyzed to build a realistic process model. The deduced model has been compared with official process model. In addition, task assignment and social networks analysises are carried out by utilizing process mining tools. Also, it has been proposed how to improve the processes with the analytical simulation model based on the results of process mining.
Feed-back control of crane based on inverse dynamics calculation (2002)

Proposes a control method for a crane using inverse dynamics calculation of the system. The load of a crane is generally easy to swing and thus the work using the crane is dangerous. For preventing the unfavorable swing of the load, it is desirable to feedback the actual position of the load in a control method. As such a control law, state-feedback control based on linearization of the crane system is often used. However the method reduces control performance when rope length is changed, because of nonlinearity of the system. In the paper, a feedback control method is proposed where the inverse dynamics calculation is involved to compensate non-linear dynamics of the system. In the control system, an observer is used to get higher order derivatives of the position of load, which is needed for the inverse dynamics calculation. By using the control method, control performance is unchangeable for changing rope length. Numerical simulation and experiment are shown to verify the effectiveness of the proposed control method.
Concept study of a heavy-duty bus engine operated on ethanol (1994)

Starting with the description of state of the art combustion system for alcohol fuels, an assessment of these systems in comparison to the current operation on ignition improved ethanol was done considering the input data for Volvo and Scania engines. The analyzed ethanol combustion systems were: (a) spark assisted ignition; (b) glow plug assisted ignition; (c) compression ignition with high compression ratio; and (d) ignition improver for comparison. These systems were assessed with respect to the following items: (a) component stress; (b) operating behaviour; and (c) costs. The combustion system finally chosen for this application uses glow plug assisted ignition for part load operation, compression ignition for full load operation and compression ignition for full load operation. The compression ratio chosen is 23:1.
Towards a collection-based results diversification (2010)

We present a method that introduces diversity into document retrieval using clusters of top-m terms obtained from the top-k retrieved documents through pseudo-relevance feedback. Terms from each cluster are used to automatically expand the original query. We evaluate the effectiveness of our method using a non-traditional effectiveness evaluation method, which directly measures the level of diversification by computing the cosine similarity between top-k retrieved documents based on (i) the original query and (ii) the expanded queries. Our results indicate that we can increase diversity without compromising retrieval quality.
UDSMProt: universal deep sequence models for protein classification (2020)

Supplementary data are available at Bioinformatics online.
Collaborative, Risk-Informed, Triple Bottom Line, Multi-Criteria Decision Analysis Planning Framework for Integrated Urban Water Management (2018)

The historical division of water management into different sectors, with financially and technologically driven decision processes, makes taking a more holistic approach to finding sustainable solutions for urban water management difficult. Here, a planning framework for Integrated Urban Water Management (IUWM) that evolved during a two-year study evaluating alternative strategies for dual water supply within a local government context is described. The planning framework was developed to overcome the obstacles that surfaced over the course of the study. It provides a structured approach to strategic decision making that integrates triple bottom line (TBL), multi-criteria decision analysis (MCDA), uncertainty and sensitivity analyses, and participatory decision making into an exploration of water supply alternatives. TBL assured stakeholders that the decisions considered the financial, social, and environmental performance. MCDA provided visibility into the benefits and trade-offs of the alternatives by providing a quantitative method for comparing alternatives that incorporates incommensurate performance indicators and priorities of multiple stakeholders. Uncertainty and sensitivity analyses addressed concerns regarding decision risk and improved transparency into inputs driving uncertainty in the analysis. Finally, a flexible participatory process helped to circumvent socio-institutional barriers by adapting the methodology and increasing cooperation among stakeholders and multidisciplinary experts. The resulting collaborative, risk-informed, TBL-MCDA (CRTM) planning framework helps to refine the feasible set of alternatives by providing more transparency into the drivers, technologies, and stakeholders influencing the decision. The planning framework increased the number of participants that were involved in the study, increased interaction between participants, changed the structure of the decision problem, increased the number of performance indicators considered, and improved stakeholder cooperation in the decision process.