gebhart/patrepeval huggingface dataset:
Supplementary Figure 5. from Low-Dose Paclitaxel Reduces S100A4 Nuclear Import to Inhibit Invasion and Hematogenous Metastasis of Cholangiocarcinoma (2023)

&lt;p&gt;Supplementary Figure 5. Low dose PTX did not affect cytoskeletal integrity of EGI-1 cells.&lt;/p&gt;
Endothelial Progenitor Cells as a Sole Source for Ex Vivo Seeding of Tissue-Engineered Heart Valves (2009)

Circulating EPC appears to have the potential to provide both interstitial and endothelial functions and could potentially serve as a single-cell source for construction of autologous heart valves.
Conjugated Linoleic Acids Mediate Insulin Release through Islet G Protein-coupled Receptor FFA1/GPR40 (2011)

Among dietary components, conjugated linoleic acids (CLAs) have attracted considerable attention as weight loss supplements in the Western world because they reduce fat stores and increase muscle mass. However, a number of adverse effects are also ascribed to the intake of CLAs such as aggravation of insulin resistance and the risk of developing diabetes. However, the mechanisms accounting for the effects of CLAs on glucose homeostasis are incompletely understood. Herein we provide evidence that CLAs specifically activate the cell surface receptor FFA1, an emerging therapeutic target to treat type 2 diabetes. Using different recombinant cellular systems engineered to stably express FFA1 and a set of diverse functional assays including the novel, label-free non-invasive dynamic mass redistribution technology (Corning® Epic® biosensor), both CLA isomers cis-9, trans-11-CLA and trans-10, cis-12-CLA were found to activate FFA1 in vitro at concentrations sufficient to also account for FFA1 activation in vivo. Each CLA isomer markedly increased glucose-stimulated insulin secretion in insulin-producing INS-1E cells that endogenously express FFA1 and in primary pancreatic β-cells of wild type but not FFA1-/- knock-out mice. Our findings establish a clear mechanistic link between CLAs and insulin production and identify the cell surface receptor FFA1 as a molecular target for CLAs, explaining their acute stimulatory effects on insulin secretion in vivo. CLAs are also revealed as insulinotropic components in widely used nutraceuticals, a finding with significant implication for development of FFA1 modulators to treat type 2 diabetes.
Essential nonlinear modelling concepts (2008)

Practitioner’s guide to finite element modelling of reinforced concrete structures (PDF) <i>fib</i> Bulletins N° 45. Practitioners' guide to finite element modelling of reinforced concrete structures. State-of-art report (344 pages, ISBN 978-2-88394-085-7, June 2008) - PDF format
Characterization of linear and cyclic glucagon analogs by fast atom bombardment mass spectrometry (1993)

Fast atom bombardment mass spectral mapping of endoproteinase Asp-N digest mixtures is used for characterization of new synthetic linear and cyclic glucagon analogs. The results allow rapid identification of sequence modifications in linear glucagon analogs. For the cyclic compounds, the technique allows confirmation of the presence and position of the cyclic amide bond, as well as verification of the sequence of the modified glucagon analogs. The specificity of the Asp-N enables differentiation of isometric glucagon analogs which differ only in the position of the cyclic amide bond. Important information concerning the purity of the synthetic analogs is also available.
Elevated Milk Soluble CD14 in Bovine Mammary Glands Challenged with Escherichia coli Lipopolysaccharide (2003)

The purpose of this study was to determine whether soluble CD14 (sCD14) in milk was affected by stage of lactation, milk somatic cell count (SCC), presence of bacteria, or lipopolysaccharide (LPS)-induced inflammation. Milk samples from 100 lactating cows (396 functional quarters) were assayed for sCD14 in milk to determine effects of stage of lactation, SCC, and intramammary infection. The concentration of sCD14 was highest in transitional milk (0 to 4 d postpartum) and in milk with high SCC (> 750,000 cells/ml). Most of the infected quarters (> 80%) were infected by coagulase-negative staphylococci and yeast. No difference was found between noninfected and infected quarters. One quarter of six healthy lactating cows was challenged with 100 microg LPS in order to study the kinetics of sCD14 during an LPS-induced inflammation. Milk samples were collected at various intervals until 72 h after injection. Rectal temperature, milk tumor necrosis factor-alpha, and interleukin-8 increased immediately after challenge. The increase in sCD14 paralleled the increase in SCC, peaked at 12 h, and started to decline after 24 h. Serum leakage, as characterized by the level of bovine serum albumin in milk, peaked at 4 h and then gradually decreased. All parameters remained at basal levels in control quarters throughout the study. In vitro experiments indicated that neutrophils released sCD14 in response to LPS in a dose-dependent manner. The results indicate that the concentration of sCD14 was significantly increased in milk after LPS challenge. The increase was not likely due to serum leakage. Instead, infiltrated neutrophils might be the main source of increased sCD14 in milk during inflammation.
Robustness of the remanent magnetic domain pattern formation and associated stripe-bubble transitions in Co/Pt multilayers against field sequencing (2021)

Thin ferromagnetic [Co/Pt] multilayers with perpendicular magnetic anisotropy exhibit a variety of nanoscopic magnetic domain patterns at remanence, from long interlaced stripes to lattices of bubbles, depending on the multilayer structure but also on the magnetic history of the sample. For optimized structural parameters, stripe-bubble transitions accompanied by drastic increases in domain density have been observed when the magnitude of the previously applied perpendicular field Hm is finely tuned throughout the hysteresis loop. Here, we investigate the robustness of these morphological transitions against field sequencing and field cycling. We conducted this study on [Co(x)/Pt(7Å)]N=50 where x varies from 4 to 60 Å. We mapped the morphological transition with Hm varying from 0 to 9 T, following both an ascending sequence (0 → 9 T) and a descending sequence (9 T → 0). We found that the optimal field Hm = H* at which the domain density is maximized and its associated maximal density n* are not significantly affected by the field sequencing direction. We have also investigated possible pumping effects when cycling the applied field at the value H*. We found that n* remains relatively stable through field cycling, and much more stable in the bubble state, compared to longer stripe states. The observed robustness of these morphological transitions against field sequencing and field cycling is of crucial importance for potential magnetic recording applications.
CU06-1004 Alleviates Experimental Colitis by Modulating Colonic Vessel Dysfunction (2020)

Inflammatory bowel disease is an autoimmune disease that causes chronic inflammation of the gastrointestinal tract. Endothelial dysfunction, defined by a reduced endothelial barrier and an increase in the expression of adhesion molecules, is part of the pathology of inflammatory bowel disease. In this study, we assessed the therapeutic effect of CU06-1004, an endothelial dysfunction blocker that reduces vascular hyperpermeability and inflammation in a mouse model of colitis. Acute colitis was induced in mice using 3% (w/v) dextran sodium sulfate added to their drinking water for 7 days. Twenty-four hours after the addition of dextran sodium sulfate, either mesalazine or CU06-1004 was administered orally each day. Administration of CU06-1004 significantly reduced the clinical manifestations (weight loss, diarrhea, and bloody stool) and histological changes (epithelium loss, inflammatory cell infiltration, and crypt destruction) induced by dextran sodium sulfate. Proinflammatory cytokines were also reduced, indicating that inflammation was ameliorated. From a vascular perspective, CU06-1004 reduced interrupted and tortuous vessels, enhanced junction protein expression, and reduced inflammatory adhesion molecules, indicating a broad improvement of endothelial dysfunction. Endothelial protection induced epithelial barrier restoration and decreased epithelial inflammation. Blocking endothelial dysfunction with CU06-1004 significantly ameliorated the progression of inflammatory bowel disease. Therefore, CU06-1004 may represent a potential therapeutic agent for the treatment of inflammatory bowel disease as well as other inflammatory diseases.
Radiation dosimetry and biodistribution of the beta-amyloid plaque imaging tracer 11C-BTA-1 in humans (2007)

The radiation burden of a single dose of 300 MBq (11)C-BTA-1 is within the accepted limits for research purpose. In contrast to the previous non-human primate study revealing the gallbladder as the critical organ for (11)C-6-OH-BTA-1, we found the liver as the critical organ in humans using (11)C-BTA-1. Possible explanations may be (1) a reduced bile concentration of (11)C-BTA-1 due to the absent OH-group or (2) a different hepatic metabolism of thioflavin derivatives in human and baboon.
Mars round trip mission analysis for the unfavorable 1975-1985 time period (1964)

Vehicle requirements and mission planning for manned space flight and exploration of mars during 1975-1985 time period
New synthesis of a platelet-specific protein: platelet factor 4 synthesis in a megakaryocyte-enriched rabbit bone marrow culture system. (1983)

The site of synthesis of platelet-specific proteins remains to be established. With the use of short-term megakaryocyte-enriched cultures, direct evidence was obtained to show that megakaryocytes synthesize the platelet-specific protein, platelet factor 4. A megakaryocyte-enriched fraction of rabbit bone marrow for culture was obtained by centrifugal elutriation and cultured with [3H]leucine. Newly synthesized 3H-platelet factor 4 was sought by copurification with added carrier rabbit platelet factor 4, using heparin agarose affinity chromatography and immunoprecipitation with specific goat anti-rabbit platelet factor 4 antisera. SDS PAGE of the washed immunoprecipitates demonstrated a [3H]leucine-containing peak which migrated identically with purified homogeneous rabbit platelet factor 4. A second, slightly larger molecular-weight protein was identified in the gels also, suggesting that rabbit platelet factor 4 may be synthesized as a larger molecular-weight precursor in rabbit megakaryocytes. These results provide direct evidence that the platelet-specific protein, platelet factor 4, is synthesized in rabbit megakaryocytes before it is packaged into alpha-granules for release in circulating platelets.
Rapid Combinatorial Screening of Peptide Libraries for the Selection of Lanthanide-Binding Tags (LBTs) (2005)

Elucidating the structures and functions of novel proteins and their interaction partners is a ubiquitous challenge in laboratories worldwide, escalating the demand for tools for protein study. A small, versatile and multifaceted co-expression tag would therefore be extremely useful to protein scientists: Lanthanide-Binding Tags (LBTs) fulfill such criteria. These tags are remarkably short peptide sequences (15 to 20 residues) comprising only the encoded amino acids; post-expression addition of a lanthanide ion endows the LBTs with the abundant spectroscopic properties of lanthanides. Herein is reviewed a powerful combinatorial screen developed expressly for the synthetic evolution of short calcium-binding motifs into selective, potent binders of terbium and related lanthanide ions. A series of seven libraries resulted in peptides with dissociation constants nearly three orders of magnitude tighter than that of the parent sequence. These libraries utilized two orthogonal linkers on the solid phase support, enabling cleaved peptides to be screened “off-resin”, while leaving a portion of the peptide intact on the synthesis resin for later sequencing. Terbium luminescence from the bound LBTs provides the positive selection criterion, and mass spectroscopy using limited capping was implemented for sequence deconvolution. The roles and importance of various residues within the later-generation LBTs are also discussed.
Use and Evaluation of a Computer-Assisted Examination Method for the Diagnosis and Analysis of Medication-Related Osteonecrosis of the Jaw (2020)

The aim of the present study was to analyze the size of the preoperatively calculated defect volume of MRONJ patients (medication-related osteonecrosis of the jaw) and to develop a computer-aided tool based on techniques of AI (artificial intelligence) that facilitates diagnostics of MRONJ. For this purpose, on the basis of 3D (three-dimensional) data sets of 175 MRONJ patients, the outline of the necrosis was marked with the software iPlan 3.0.5 (BrainLAB AG) thus determining the respective volume. The correlation of this volume with other 31 collected parameters was analyzed retrospectively. There was a significant correlation between the defect volume on the one hand, and the MRONJ stage, the number of performed operations, and the therapy invasiveness on the other hand. Furthermore, it could be shown that in one third of the cases no defects could be recognized in the 2D imaging by panoramic radiograph, while in the 3D data sets defects already had been demarcated. On the basis of these data, a computer-aided tool based on the principles of AI was developed and validated, which might allow the automated calculation of the 3D defect extension and classification of the MRONJ cases into a ranking system. In conclusion, preparation of a 3D image can be recommended for reliably making the diagnosis “MRONJ.” Moreover, knowledge of the exact defect volume serves as a decision-making aid with regard to the choice of therapy, ensures intraoperative certitude, and allows an assessment of the prognosis.
Blood manufacturing methods affect red blood cell product characteristics and immunomodulatory activity (2018)

Transfusion of red cell concentrates (RCCs) is associated with increased risk of adverse outcomes that may be affected by different blood manufacturing methods and the presence of extracellular vesicles (EVs). We investigated the effect of different manufacturing methods on hemolysis, residual cells, cell-derived EVs, and immunomodulatory effects on monocyte activity. Thirty-two RCC units produced using whole blood filtration (WBF), red cell filtration (RCF), apheresis-derived (AD), and whole blood-derived (WBD) methods were examined (n = 8 per method). Residual platelet and white blood cells (WBCs) and the concentration, cell of origin, and characterization of EVs in RCC supernatants were assessed in fresh and stored supernatants. Immunomodulatory activity of RCC supernatants was assessed by quantifying monocyte cytokine production capacity in an in vitro transfusion model. RCF units yielded the lowest number of platelet and WBC-derived EVs, whereas the highest number of platelet EVs was in AD (day 5) and in WBD (day 42). The number of small EVs (<200 nm) was greater than large EVs (≥200 nm) in all tested supernatants, and the highest level of small EVs were in AD units. Immunomodulatory activity was mixed, with evidence of both inflammatory and immunosuppressive effects. Monocytes produced more inflammatory interleukin-8 after exposure to fresh WBF or expired WBD supernatants. Exposure to supernatants from AD and WBD RCC suppressed monocyte lipopolysaccharide-induced cytokine production. Manufacturing methods significantly affect RCC unit EV characteristics and are associated with an immunomodulatory effect of RCC supernatants, which may affect the quality and safety of RCCs.
Salmonella in Pork, Beef, Poultry, and Egg (2014)

The contribution of the various foods and their categories to the occurrence of food-borne cases of human salmonellosis varies between countries depending on the prevalence of different Salmonella serovars in food animals and in their various food production chains, as well as consumption habits and food preparation practices. Most contaminated eggs have Salmonella on the shell surface only, and therefore, eggs are usually sanitized by a variety of methods and agents. Meat is another important source of food-borne salmonellosis, with poultry and pork implicated more often than beef and lamb. Methods to sequester target pathogenic bacteria from interfering food components and to concentrate them in small volumes are needed to enable the efficient application of rapid detection and identification methods. For rapid detection of Salmonella in food including meat and eggs, three basic analytical principles are applied in practice: modified traditional culture methods, immunological methods, and nucleic acid-based methods.
Recent Advances in Peripheral Angioplasty and Stenting (2002)

Utilization of percutaneous interventions for arterial and venous occlusive lesions continue to increase. With the progression of the technology supporting these therapeutic measures, the results of these interventions may be expected to improve. In general, a comparison of techniques for revascularization demonstrates similar initial technical success rates for surgery and percutaneous transluminal angioplasty. Angioplasty is often associated with lower procedural morbidity and mortality rates. Conversely, surgery frequently provides greater long-term patency. Late failure of percutaneous therapies may often be treated successfully with reintervention, however. The continued accumulation of experience with PTA and stenting will ultimately define its role in the management of occlusive disease.
Care Transitions between Hospitals are Associated with Treatment Delay for Patients with Muscle Invasive Bladder Cancer (2014)

Patients with muscle invasive bladder cancer who underwent a care transition were more likely to experience a treatment delay of 3 months or greater. Strategies to expedite care transitions at the time of hospital referral may improve quality of care.
Supplementary Table 1 from C-Propeptides of Procollagens Iα1 and II that Differentially Accumulate in Enchondromas versus Chondrosarcomas Regulate Tumor Cell Survival and Migration (2023)

Supplementary Table 1 from C-Propeptides of Procollagens Iα1 and II that Differentially Accumulate in Enchondromas versus Chondrosarcomas Regulate Tumor Cell Survival and Migration
Construction of a Nanowell Electrode Array by Electrochemical Gold Stripping and Ion Bombardment (2003)

Gold nanowell electrode arrays, with a well-depth of approximately 50 nm, have been prepared. The electrodes were prepared by the electrodeposition of gold throughout the pores of a porous alumina membrane. Both electrochemical gold stripping and ion bombardment were employed to remove gold to create the wells, with the best results obtained from a combination of these techniques. The nanoelectrode arrays were characterized by scanning electron microscopy, atomic force microscopy, scanning tunneling microscopy, and by electrochemical methods. © 2003 The Electrochemical Society. All rights reserved.
A stochastic parser based on a structural word prediction model (2000)

In this paper, we present a stochastic language model using dependency. This model considers a sentence as a word sequence and predicts each word from left to right. The history at each step of prediction is a sequence of partial parse trees covering the preceding words. First our model predicts the partial parse trees which have a dependency relation with the next word among them and then predicts the next word from only the trees which have a dependency relation with the next word. Our model is a generative stochastic model, thus this can be used not only as a parser but also as a language model of a speech recognizer. In our experiment, we prepared about 1,000 syntactically annotated Japanese sentences extracted from a financial newspaper and estimated the parameters of our model. We built a parser based on our model and tested it on approximately 100 sentences of the same newspaper. The accuracy of the dependency relation was 89.9%, the highest accuracy level obtained by Japanese stochastic parsers.
A NEURAL NETWORK CLASSIFIER IN EXPERIMENTAL PARTICLE PHYSICS (1993)

A classification problem in high energy physics has been solved on simulated data using a simple multilayer perceptron comprising binary units which was trained with the CHIR algorithm. The unstable training of such a network on a nonseparable set has been overcome by selecting those weight vectors with good performance while providing a flexible choice of the two types of classification errors. Specific features of the problem have been exploited in order to simplify and optimize the solution which has been compared to the popular backpropagation algorithm and found to perform on a similar level. Additional aspects of this work are the use of the CHIR algorithm on continuous input and incorporating the classic idea of a phi-machine in a multilayer perceptron.
Beta-Cryptoxanthin Inhibits Lipopolysaccharide-Induced Osteoclast Differentiation and Bone Resorption via the Suppression of Inhibitor of NF-κB Kinase Activity (2019)

Beta-cryptoxanthin (β-cry) is a typical carotenoid found abundantly in fruit and vegetables such as the Japanese mandarin orange, persimmon, papaya, paprika, and carrot, and exerts various biological activities (e.g., antioxidant effects). We previously reported that β-cry suppressed lipopolysaccharide (LPS)-induced osteoclast differentiation via the inhibition of prostaglandin (PG) E₂ production in gingival fibroblasts and restored the alveolar bone loss in a mouse model for periodontitis in vivo. In this study, we investigated the molecular mechanism underlying the inhibitory effects of β-cry on osteoclast differentiation. In mouse calvarial organ cultures, LPS-induced bone resorption was suppressed by β-cry. In osteoblasts, β-cry inhibited PGE₂ production via the downregulation of the LPS-induced mRNA expression of cyclooxygenase (COX)-2 and membrane-bound PGE synthase (mPGES)-1, which are PGE synthesis-related enzymes, leading to the suppression of receptor activator of NF-κB ligand (RANKL) mRNA transcriptional activation. In an in vitro assay, β-cry directly suppressed the activity of the inhibitor of NF-κB kinase (IKK) β, and adding ATP canceled this IKKβ inhibition. Molecular docking simulation further suggested that β-cry binds to the ATP-binding pocket of IKKβ. In Raw264.7 cells, β-cry suppressed RANKL-mediated osteoclastogenesis. The molecular mechanism underlying the involvement of β-cry in LPS-induced bone resorption may involve the ATP-competing inhibition of IKK activity, resulting in the suppression of NF-κB signaling.
Hard questions (1997)

Convergent evolution at the molecular level is said to be one source of some “misleading phylogenetic analyses.” Researchers discuss the “sanctuary problem,” in which HIV persists in the brain even after it has been eradicated in other organs [yellow indicates concentration of HIV RNA in lymph nodes before (upper) and after (lower) treatment]. The challenge of designing studies to “test” the efficacy of prayer is reconsidered. And the relation between “economic consumption” and “environmental quality,” and how these might be defined, is addressed.