gebhart/patrepeval huggingface dataset:
Data from Neutralizing Monoclonal Antibody to Periostin Inhibits Ovarian Tumor Growth and Metastasis (2023)

&lt;div&gt;Abstract&lt;p&gt;Periostin, an extracellular matrix protein, is reported to be overexpressed in a variety of human cancers and its functions seem to be linked to tumor metastasis. Our previous results show that engineered &lt;i&gt;periostin&lt;/i&gt; overexpression promotes ovarian tumor growth and dissemination &lt;i&gt;in vivo&lt;/i&gt;. In this study, we developed a neutra-lizing monoclonal antibody to periostin, named MZ-1, and investigated its effects on human ovarian tumor growth and metastasis. Our &lt;i&gt;in vivo&lt;/i&gt; studies showed significant growth inhibition by MZ-1 on both subcutaneous and intraperitoneal (i.p.) tumors derived from the periostin-expressing ovarian cancer cell line A2780. In addition, MZ-1 treatment led to a reduction of the metastatic potential of these A2780 i.p. tumors. The &lt;i&gt;in vivo&lt;/i&gt; antitumor effects of MZ-1 were linked to its specific inhibition of anchorage-independent growth and survival of periostin-expressing cells, as well as its neutralizing effects on periostin-induced cancer cell migration and invasion. The data suggest that blocking periostin expression may be a novel approach for treating the subset of invasive ovarian tumors that overexpress periostin protein. &lt;i&gt;Mol Cancer Ther; 10(8); 1500–8. ©2011 AACR&lt;/i&gt;.&lt;/p&gt;&lt;/div&gt;
On Solar Energy Utilization for Drying Technology (2016)

Solar drying is one of the oldest drying techniques in which solar radiation is used. Drying is an essential process in the preservation of agricultural crops and in industries, such as textile production, dairy processing, cement production, clay brick production, tile production, wood and timber processing, wastewater treatment and biomass treatment. Solar drying is another very important application of solar energy. Solar dryers use air collectors to collect solar energy. Solar dryers are used primarily by the agricultural industry. The purpose of drying an agricultural product is to reduce its moisture content to a level that prevents its deterioration. In drying, two processes take place; One is a heat transfer to the product using energy from the heating source, and the other is a mass transfer of moisture from the interior of the product to its surface and from the surface to the surrounding air. In short, we conduct a comprehensive review of summarize the research and development work for solar drying. It is hoped that this review work maybe valuable and appropriate for further development work.
Efficient Execution of Homogeneous Tasks with Unequal Run Times on the Connection Machine. (1991)

Many scientific applications require the execution of a large number of identical tasks, each on a different data set. Such applications can easily benefit from the power of SIMD architectures (e.g. the Connection Machine) byhaving the array of processing elements (PEs) execute the task in parallel on the different data sets. It is often the case, however, that the task to be performed involves the repetitive application of the same sequence of steps, a body, for a number of times that depend on the input or computed data. If the usual task-level synchronization is used, the utilization of the array of PEs degrades substantially. In this paper, we propose a body-level synchronization scheme that would boost the utilization of the array of PEs while keeping the required overhead to a minimum. We mathematically analyze the proposed technique and show how to optimize its performance for a given application. Our technique is particularily efficient when the number of tasks to be executed is much larger than the number of physical PEs available.
Heterologous oligonucleotide microarrays for transcriptomics in a non-model species; a proof-of-concept study of drought stress in Musa (2009)

Our results demonstrate that despite the general paucity of nucleotide sequence data in Musa and only distant phylogenetic relations to rice, gDNA probe-based cross-hybridisation to the Rice GeneChip(R) is a highly promising strategy to study complex biological responses and illustrates the potential of such strategies for gene discovery in non-model species.
Freeze-etched pollen walls of Artemisia pycnocephala and Lilium humboldtii (1971)

ABSTRACT Mature pollen was examined by freeze-etching. The fracture and etch faces of Artemisia ektexine are unstructured and homogeneous. The endexine fracture face contains particles in paired rows which correspond to the endexine lamellae with a central white line seen in osmium stained thin sections. The intine fracture face in Artemisia is coarsely pitted and has very long fibrils. Small vesicles are observed on both sides of the plasmalemma. The fracture face of Lilium ektexine has radiating fibrils which end in a regular array near the surface; the etch face on the surface is smooth. In thin sections the staining of the Lilium ektexine differs from that of the core, giving evidence that the smooth ektexine surface is chemically distinct from the fibrillar core. The intine in Lilium shows no fibrils. Vesicles near the plasmalemma appear to be fusing with the plasmalemma creating smooth depressions in the particulate plasmalemma fracture face. The plasmalemma in both species is beset with particles in regular arrays.
Multi-omic Characterization of the Taxa-function Relationship in Infant Gut Microbiomes (2020)

Abstract Background The infant intestinal microbiome plays an important role in metabolism and immune development with impacts on lifelong health. The linkage between the taxonomic composition of the microbiome and its metabolic phenotype is undefined and complicated by redundancies in the taxon-function relationships within microbial communities. To inform a more mechanistic understanding of the relationship between the microbiome and health, we performed an integrative statistical and machine learning-based analysis of microbe taxonomic structure and metabolic function in order to characterize the taxa-function relationship in early life. Results Stool samples collected from infants enrolled in the New Hampshire Birth Cohort Study (NHBCS) at approximately 6-weeks (n = 168) and 12-months (n = 282) of age were profiled using targeted and untargeted nuclear magnetic resonance (NMR) spectroscopy as well as DNA sequencing of the V4-V5 hypervariable region from the bacterial 16S rRNA gene. There was significant inter-omic concordance based on Procrustes analysis of sample distances (6 weeks: p = 0.056; 12 months: p = 0.001), however this association was no longer significant when accounting for phylogenetic relationships using generalized UniFrac distance metric (6 weeks: p = 0.376; 12 months: p = 0.069). Sparse canonical correlation analysis showed significant correlation, as well as identifying sets of microbe/metabolites driving microbiome-metabolome relatedness. Performance of machine learning models varied across different metabolites, with support vector machines (radial basis function kernel) being the consistently top ranked model. However, predictive R 2 values demonstrated poor predictive performance across all models assessed (avg. R 2 : -5.06% -- 6 weeks; -3.7% -- 12 months). Conversely, the Spearman correlation metric was higher (avg. correlation: 0.344 – 6 weeks; 0.265 – 12 months). This demonstrated that taxonomic relative abundance was not predictive of metabolite concentrations. Conclusions Our results suggest a degree of overall association between taxonomic profiles and metabolite concentrations. However, lack of predictive capacity for stool metabolic signatures reflects, in part, the possible role of functional redundancy in defining the taxa-function relationship in early life as well as the bidirectional nature of the microbiome-metabolome association. Our results provide evidence in favor of a multi-omic approach for microbiome studies, especially those focused on health outcomes.
Reproducible high field effect mobility polysilicon thin film transistors involving pulsed Nd:YVO/sub 4/ laser crystallization (2003)

We fabricated low temperature TFTs on low-cost glass substrates for large area electronic applications. A newly developed crystallization method uses a pulsed diode pumped Nd:YVO/sub 4/ laser. The high repetition capability of up to 100 kHz of this laser results in high throughput rates associated with a scanning speed of up to 5 cm/s. One of the remarkable features-of the TFTs is a field effect mobility mean value of 350 cm/sup 2//Vs with a standard deviation of 5%.
Bidirectional broadcast channels with common and confidential messages (2011)

In this work, we study the bidirectional broadcast channel with common and confidential messages and establish the capacity-equivocation and secrecy capacity regions. This problem is motivated by the concept of bidirectional relaying in a three-node network, where a relay node establishes a bidirectional communication between two other nodes using a decode-and-forward protocol and thereby efficiently integrates additional common and confidential services.
Complete Genome Sequence of Melissococcus plutonius ATCC 35311 (2011)

We report the first completely annotated genome sequence of Melissococcus plutonius ATCC 35311. M. plutonius is a one-genus, one-species bacterium and the etiological agent of European foulbrood of the honeybee. The genome sequence will provide new insights into the molecular mechanisms underlying its pathogenicity.
Carbofuran residues in grasshoppers and vegetation from aerially sprayed prairie pastures: Potential effects on wildlife (1994)

Abstract Deposition and persistence of carbofuran in vegetation and grasshoppers of two prairie pastures were measured after single aerial applications at 134 g a.i per hectare in 1987 and 1988. Mean depositions on horizontal filter paper samplers were 43 1 and 64 9% of the nominal rate in the two applications Variability of deposits, measured as C V.s, were 76 4% and 86 9% Carbofuran residues in vegetation and grasshoppers were less variable than those in deposit samplers, with C V s of 40 6 and 70 6% in vegetation and 58 6 and 32 5% in grasshoppers for 1987 and 1988, respectively. Residues declined by 50% in 24 h both years from initial concentrations (3 h postspray) in vegetation of 13 3 and 10 8 μg/g Initial residues in grasshoppers averaged 2 2 μg/g in 1987 and 3.9 μg/g in 1988; the mean for both years was 2.5 μg/g Grasshoppers contained the same concentration of carbofuran 3 h after spraying, whether collected live or dead Maximum residues of 5 7 μg/g were found in grasshoppers from two of the 40 sites sampled in both years A model fitted to the data indicated that there may have been about a 24 to 44% loss of residues from vegetation, probably due to volatilization and other processes, before samples were collected at 3 h There was a decline in residues per grasshopper of 30% in 24 h both years, which was not evident when expressed as micrograms per gram because of desiccation of the dead insects The concentrations of carbofuran in the vegetation and grasshoppers were typical of aerial spraying, hence, they may be used as baseline values for estimating exposure of herbivores and msectivores to insecticide deposits from similar spray events by adjusting for rate of application Deposits measured on filter papers were positively related to concentrations in vegetation and grasshoppers Calculations of the potential effects on wildlife of ingesting sprayed grasshoppers, combined with other routes of exposure, indicated a relatively low hazard for herbivorous rodents but a relatively high hazard for insectivorous adult passerines and their young Monitoring passerines in a related field study did, however, not reveal any effects on survival within 3 d of spraying carbofuran.
Imaging Water-Splitting Electrocatalysts with pH-Sensing Confocal Fluorescence Microscopy (2012)

Hydrogen generation by water electrolysis is promising for energy storage, and imaging the reaction dynamics near a H 2 -evolving electrode can provide valuable insights. We utilized laser-scanning confocal fluorescence microscopy to map the product/reactant concentration at a H 2 -evolving electrode at micron-scale resolution which identifies areas with fast reaction kinetics. Small concentrations of a pH indicator dye added to the aqueous electrolyte enables ratiometric fluorescence sensing for quantitative pH detection over the range pH 5.3-7.5 and minimally perturbs the local environment. To overcome diffusion limitations, a miniature flow cell was utilized in the microscope to achieve micron-scale resolution in steady state while applying galvanostatic current. We demonstrated the technique using F:SnO 2 -coated glass with varied metal catalyst patterns and compositions resulting in clear images of increased pH near areas of high water-reducing activity. Simulations of the pH profiles near the electrolyte-patterned catalyst interface were also performed using the COMSOL finite-element software package to solve the convection/diffusion equations, and the calculation results agreed well with the experimentally-observed fluorescence profiles. Flow cell fluoresecence microscopy shows promise in imaging comparative catalyst activity as well as three-dimensional product/reactant profiles in complex electrode architectures.
An Improved Real-Time Slip Model Identification Method for Autonomous Tracked Vehicles Using Forward Trajectory Prediction Compensation (2021)

The complex slip characteristics between the tracks and the terrain make it difficult to build an accurate model for intelligent tracked vehicles. Both the path planning and lateral control, however, are highly dependent on the accurate tracked vehicle model. To overcome the issue, a slip model based on the instantaneous centers of rotation (ICRs) of tracks and a dual-layer adaptive unscented Kalman filter (DAUKF) are used to estimate the ICR locations in real-time without requiring prior knowledge of terrain parameters. First, the historical trajectory information is used to estimate ICR locations by the upper-layer AUKF estimator preliminarily. The ICR locations estimated in the upper-layer and the current vehicle state are then imported into the model to predict the future trajectory which can be used to estimate the offset as compensation of preliminarily estimated ICR locations by the lower-layer AUKF estimator. The proposed DAUKF is verified by simulations on MATLAB/Simulink. In order to further verify the effectiveness and practicability of the algorithm, a large number of experiments under different terrains and road conditions are implemented on the electric-drive tracked vehicle. The simulation and experimental results illustrate that the proposed DAUKF can estimate the ICR locations efficiently and accurately, which can improve the accuracy of the tracked vehicle model compared with those of extended Kalman filter (EKF), UKF, and AUKF.
Targeting CAM-DR and Mitochondrial Transfer for the Treatment of Multiple Myeloma (2022)

The prognosis of patients with multiple myeloma (MM) has improved dramatically with the introduction of new therapeutic drugs, but the disease eventually becomes drug-resistant, following an intractable and incurable course. A myeloma niche (MM niche) develops in the bone marrow microenvironment and plays an important role in the drug resistance mechanism of MM. In particular, adhesion between MM cells and bone marrow stromal cells mediated by adhesion molecules induces cell adhesion-mediated drug resistance (CAM-DR). Analyses of the role of mitochondria in cancer cells, including MM cells, has revealed that the mechanism leading to drug resistance involves exchange of mitochondria between cells (mitochondrial transfer) via tunneling nanotubes (TNTs) within the MM niche. Here, we describe the discovery of these drug resistance mechanisms and the identification of promising therapeutic agents primarily targeting CAM-DR, mitochondrial transfer, and TNTs.
Structural determinancy and design implications for tensioned precision deployable structures (2013)

Tensioned precision structures has been shown to have potentially greater passive stability, more deterministic dynamics, and simpler metrology requirements than those of the traditional truss structure, where structural stiffness is derived from the nonlinear geometric or stress stiffening of the tensioned structure, rather than from the mechanics of materials. With the absence of structural depth, the traditional design issues with thermal deformations are reduced to two-dimensions, and metrology and shape control may be simplified into the load management and planarity control of discrete tensioning points. The presented structure is based on a discretized membrane approach, composed of effectively rigid in-plane panels and tuned, complaint hinges, which are especially complaint in shear. This research investigates and reports the effect of shear compliance on the reduction of buckling or wrinkling within a tensioned structure, as well as, the implications of membrane discretization density on efficient and effective structural design. Generalized back-of-the-envelope models are used to identify critical design trades and limits in design feasibility.
GLUT4-overexpressing engineered muscle constructs as a therapeutic platform to normalize glycemia in diabetic mice (2021)

Skeletal muscle insulin resistance is a main defect in type 2 diabetes (T2D), which is associated with impaired function and content of glucose transporter type 4 (GLUT4). GLUT4 overexpression in skeletal muscle tissue can improve glucose homeostasis. Therefore, we created an engineered muscle construct (EMC) composed of GLUT4-overexpressing (OEG4) cells. The ability of the engineered implants to reduce fasting glucose levels was tested in diet-induced obesity mice. Decrease and stabilization of basal glucose levels were apparent up to 4 months after implantation. Analysis of the retrieved constructs showed elevated expression of myokines and proteins related to metabolic processes. In addition, we validated the efficiency of OEG4-EMCs in insulin-resistant mice. Following high glucose load administration, mice showed improved glucose tolerance. Our data indicate that OEG4-EMC implant is an efficient mode for restoring insulin sensitivity and improving glucose homeostasis in diabetic mice. Such procedure is a potential innovative modality for T2D therapy.
Synthesis, characterization, and testing of supported Au catalysts prepared from atomically-tailored Au38(SC12H25)24clusters (2011)

Nearly monodispersed Au(38)(SC(12)H(25))(24) clusters (1.7 ± 0.2 nm) were synthesized using a modified Brust process while utilizing a "thiol etching" approach for the ligand exchange. HRTEM, MALDI, FTIR, and XAS analysis confirmed the formation of the 38-atom clusters in solution. This solution was used to impregnate a microporous TiO(2) support to give 0.7% Au(38)/TiO(2) catalyst. Subsequent drying in air and treatment with H(2)/He at 400 °C removed most of the sulfur ligands, and also increased the Au cluster size to 3.9 ± 0.96 nm. XPS and EXAFS analysis of this supported catalyst showed trace levels of residual sulfides, apparently located at the Au-TiO(2) interface. CO oxidation tests on these supported clusters show an activation energy and range of TOFs comparable to those reported by others. These results suggest that supported Au clusters of controllable size can be prepared with this thiol-ligated solution-based method, providing a new approach to the synthesis of these catalysts.
Mitogen-activated Protein Kinase Kinase-4 Promotes Cell Survival by Decreasing PTEN Expression through an NFκB-dependent Pathway (2006)

Mitogen-activated protein kinase kinase-4 (MKK4/SEK1) cooperates with phosphatidylinositol 3-kinase to maintain the survival of non-small cell lung cancer (NSCLC) cells, but the biochemical basis of this phenomenon has not been elucidated. Here we used genetic approaches to modulate MKK4 expression in mouse embryo fibroblasts (MEF cells) and NSCLC cells to identify prosurvival signals downstream of MKK4. Relative to wild-type MEF cells, MKK4-null MEF cells were highly susceptible to apoptosis by LY294002, paclitaxel, or serum starvation. MKK4 promoted the survival of MEF cells by decreasing the expression of phosphatase and tensin homologue deleted from chromosome 10 (PTEN). MKK4 inhibited PTEN transcription by activating NFkappaB, a transcriptional suppressor of PTEN. MKK4 was required for nuclear translocation of RelA/p65 and processing of the NFkappaB2 precursor (p100) into the mature form (p52). Studies on a panel of NSCLC cell lines revealed a subset with high MKK4/high NFkappaB/low PTEN that was relatively resistant to apoptosis. Thus, MKK4 promotes cell survival by activating phosphatidylinositol 3-kinase through an NFkappaB/PTEN-dependent pathway.
Articular Gap and Step-off Revisited: 3D Quantification of Operative Reduction for Posterior Malleolar Fragments (2016)

Diagnostic Level IV. See Instructions for Authors for a complete description of levels of evidence.
Ligature‐Induced Marginal Inflammation Around Osseointegrated Implants and Ankylosed Teeth: Stereologic and Histologic Observations in Cynomolgus Monkeys (Macaca Fascicularis) (1993)

The aim of the investigation was to provide quantitative and qualitative histologic data on marginal inflammation around osseointegrated implants. The significance of the lack of a periodontal ligament in the initial breakdown phase of supporting tissues in implants was examined by comparing stereologic and histologic manifestations of ligature-induced marginal inflammation around osseointegrated implants with those around ankylosed and normal control teeth in 8 cynomolgus monkeys (Macaca fascicularis). Clinical and radiographic findings have been reported elsewhere. The marginal connective tissue around ligated implants was infiltrated by a significantly increased total number of lymphocytes, plasma cells, and neutrophils compared to non-ligated implants and teeth. The total number of lymphocytes around ligated implants was significantly higher than around ligated ankylosed and normal control teeth. There were, however, no significant differences in the total number of plasma cells and neutrophils within the ligated group. Osteoclasts were exclusively observed around ligated implants and ankylosed teeth. Although variations in microbiota and susceptibility of different jaw positions to periodontal break-down may influence the results of the present study, the results seem to substantiate the theory that marginal inflammation around implants and ankylosed teeth may have more serious implications than does marginal inflammation around teeth with a periodontal ligament. Since presence of osteoclasts was not related to the absence of cervical cementum with inserting gingival fibers around ligated ankylosed teeth, the increased susceptibility of bone loss of implants is probably not caused by the absence of these tissue components. In contrast, the histologic observations seem to support that the increased susceptibility for bone loss around implants may be related to the absence of a periodontal ligament.
Dry development of Se-Ge inorganic photoresist (1980)

Striking rate differences in gaseous plasma etching is found between undoped and Ag-photodoped Se-Ge inorganic photoresist. After the Ag photodoping, the plasma etch rate almost disappears and the etch rate ratio reaches 370:1. This leads to the ’’dry development’’ of the Se-Ge inorganic resists. It is shown that by using the plasma etching technique, fine pattern delineation of less than 1-μm linewidth is easily possible. Several advantages over wet chemical processing are expected in process simplification and reproducibility.