gebhart/patrepeval huggingface dataset:
Total body bone mineral in vivo by dual photon absorptiometry. II. Accuracy (1984)

We investigated the accuracy of total body mineral (TBBM) measured by dual photon absorptiometry (1 Ci 153Gd source, 44 and 100 KeV) using skeletons, soft tissue equivalent materials and whole cadaver extremities. The accuracy was assessed on five skeletons (r = 0.99, SEE = 1.5%). The influence of the soft tissue composition on the TBBM measurement was investigated in the same five skeletons. They were scanned in a 16 cm thickness of ethanol solutions of different concentration (0, 20, 40, 60, 80, 100% ethanol) and only a 2% difference (non-significant) was found between measuring 100% ethanol and 100% water. Furthermore, seven whole cadaver extremities were scanned before and after removal of the soft tissues (r = 0.995, SEE = 6.3%). The slope was not different from one and the intercept not different from zero. Equipment at the University of Wisconsin, Madison, and at Glostrup Hospital, Denmark, was compared by measuring the same healthy subjects and skeletons on both scanners. The Glostrup and Madison TBBM values correlated well (r = 0.99, SEE = 5.8%) and the intercept (345 Glostrup arbitrary units) was not significantly different from zero (P greater than 0.05). The TBBM results were calibrated into total body calcium (TBCa) and no significant difference was found between Glostrup and Madison TBCa values (P greater than 0.20).
The impact of biological age of red blood cell on in vitro endothelial activation markers (2023)

<b>Introduction:</b> Blood donor characteristics influence red blood cell transfusion outcomes. As donor sex affects the distribution of young to old RBCs in the circulation, we hypothesized that the amount of circulating young RBCs in the blood product are associated with immune suppression. <b>Materials and Methods:</b> Blood samples were collected from healthy volunteers and density fractionated into young and old subpopulations. In an activated endothelial cell model, RBC adhesion to endothelium and secretion of endothelial activation markers were assessed. The impact of RBC biological age was also assessed in a T cell proliferation assay and in a whole blood stimulation assay. <b>Results:</b> After Percoll fractionation, young RBCs contained more reticulocytes compared to old RBCs. Young RBCs associated with lower levels of E-selectin, ICAM-1, and vWF from activated endothelial cells compared to old RBCs. RBC subpopulations did not affect T cell proliferation or cytokine responses following whole blood stimulation. <b>Conclusion:</b> Young RBCs contain more reticulocytes which are associated with lower levels of endothelial activation markers compared to old RBCs.
Stable Numerical Solution of Inverse Kinematics in Singular Posture and Unsolvable Problem Based on Minimization of Elastic Energy of Virtual Spring (2018)

In this paper, we attempt to explicate a numerical solution of inverse kinematics from the concept of virtual spring-damper hypothesis and joint damping control. Based on the minimization of elastic energy of the virtual spring, the sufficient condition for the stable convergence in the discrete time system is derived. Furthermore, we proposed two methods and a termination condition based on the stability condition. Simulation experiments are carried out to verify that calculation results are stably converged even in singular postures, unsolvable problems, and the redundant manipulator. Additionally, it is also clear that the proposed methods complete the calculation with a small number of iterations.
Nitrogen Elimination Mechanisms in an Organic Media Aerated Biofilter Treating Pig Manure (2005)

Biofilters using organic media are known to procure efficient treatment for different types of wastewater, but the nitrogen removal pathways implied are still not well understood. In this study, a lab-scale aerated biofilter using peat and treating pig manure was operated for 180 days, in order to quantify the nitrogen transformations occurring in it. It was shown that stripping was important during the start-up, until nitrification took place. Simultaneous nitrification and denitrification, proved by N2 production, became the principal mechanism after some time. The production of N2O did not seem to come only from heterotrophic denitrification, but also from chemodenitrification and autotrophic denitrification. It has also been found that part of the influent nitrogen was retained in the system during the first 150 days, due to filtration, sorption and assimilation. During the last periods of operation, the nitrogen previously retained has been used by microorganisms, leading to an excessive N2 discharge.
Oxygenation Inhibits the Physiological Tissue-Protecting Mechanism and Thereby Exacerbates Acute Inflammatory Lung Injury (2005)

Acute respiratory distress syndrome (ARDS) usually requires symptomatic supportive therapy by intubation and mechanical ventilation with the supplemental use of high oxygen concentrations. Although oxygen therapy represents a life-saving measure, the recent discovery of a critical tissue-protecting mechanism predicts that administration of oxygen to ARDS patients with uncontrolled pulmonary inflammation also may have dangerous side effects. Oxygenation may weaken the local tissue hypoxia-driven and adenosine A2A receptor (A2AR)-mediated anti-inflammatory mechanism and thereby further exacerbate lung injury. Here we report experiments with wild-type and adenosine A2AR-deficient mice that confirm the predicted effects of oxygen. These results also suggest the possibility of iatrogenic exacerbation of acute lung injury upon oxygen administration due to the oxygenation-associated elimination of A2AR-mediated lung tissue-protecting pathway. We show that this potential complication of clinically widely used oxygenation procedures could be completely prevented by intratracheal injection of a selective A2AR agonist to compensate for the oxygenation-related loss of the lung tissue-protecting endogenous adenosine. The identification of a major iatrogenic complication of oxygen therapy in conditions of acute lung inflammation attracts attention to the need for clinical and epidemiological studies of ARDS patients who require oxygen therapy. It is proposed that oxygen therapy in patients with ARDS and other causes of lung inflammation should be combined with anti-inflammatory measures, e.g., with inhalative application of A2AR agonists. The reported observations may also answer the long-standing question as to why the lungs are the most susceptible to inflammatory injury and why lung failure usually precedes multiple organ failure.
Hesperetin Inhibit Adipocyte Differentiation and Enhance Bax‐ and p21‐Mediated Adipolysis in Human Mesenchymal Stem Cell Adipogenesis (2014)

We aimed to explore the antiadipogenic and adipolysis effect of hesperetin in human mesenchymal stem cells (hMSCs)-induced adipogenesis. IC50 value of hesperetin was higher for hMSCs such as 149.2 ± 13.2 μmol for 24 h and 89.4 ± 11.4 μmol in 48 h, whereas in preadipocytes was 87.6 ± 9.5 μmol and 72.4 ± 5.6 μmol in 24 h and 48 h, respectively. Hesperetin treatment (5, 10, and 20 μmol) to adipogenesis-induced hMSCs (Group 1) and preadipocytes (Group 2) resulted in a significantly (p < 0.05) increased lipolysis. The treatment with hesperetin decreased the expression of resistin, adiponectin, aP2, LPL, PPAR-γ, and TNF-α in Groups 1 and 2, whereas a significant increase was observed in Bcl, Bax, and p21 expression in Group 2 compared to untreated preadipocytes. hMSCs cultured in adipogenic medium along with hesperetin significantly inhibited adipocyte differentiation and increased the proapoptotic gene expression levels in preadipocyte. Our result indicates the antiadipogenic and adipolysis effects of hesperetin.
Electrostatic Potential Fluctuations on Oxide-Passivated Si(111) Surfaces Measured Using Integrated Scanning Probe Microscopy (2011)

Variations of the electrostatic potential were investigated for oxide-passivated n-Si(111) surfaces with atomically flat terraces by measuring the force acting on an ultra-sharp tungsten probe that was attached to the quartz resonator of an atomic force microscope. When the probe-sample gap maintained a constant tunneling current, an enhancement of electrostatic force with a lateral extent of ∼5 nm was observed around underlying donor atoms and charged defects. Additional variations of the surface potential and the probe-sample capacitance across the surface steps were associated with excess electric charge at the step edge. [DOI: 10.1380/ejssnt.2011.117]
Influence of moisture on the preparation, crystal structure, and photophysical properties of organohalide perovskites (2014)

The effect of preparing lead-based organohalide perovskites under inert conditions has been investigated. We find that when prepared under anhydrous conditions, only poorly crystalline powders were obtained. On exposure to small amounts of moisture a rapid crystallization into the expected cubic unit cell for CH3NH3PbBr3 and tetragonal cell for CH3NH3PbI3 is observed. While the as-prepared iodide phase is non-emissive, the lifetime of the emission for the bromide is found to be much longer when prepared under atmospheric conditions.
Selective Protein Adduct Formation of Diclofenac Glucuronide Is Critically Dependent on the Rat Canalicular Conjugate Export Pump (Mrp2) (1998)

Previous work demonstrates that the reactive acyl glucuronide of the nonsteroidal antiinflammatory drug diclofenac forms selective protein adducts in the liver, which may play a causal role in the pathogenesis of diclofenac-associated liver toxicity. Because glucuronide conjugates can be exported into the bile, we explored the role of diclofenac glucuronide hepatobiliary transport in the formation of site-specific protein adducts. Specifically, to analyze intracellular (hepatocytes) versus extracellular (biliary tree) targeting of proteins, we have compared the pattern of diclofenac binding in normal Wistar rats with that in mutant transport-deficient (TR-) rats which lack the functional canalicular isoform of the conjugate export pump, Mrp2. In bile duct-cannulated normal rats, >50% of an iv injected dose of [14C]diclofenac appeared in the bile over a 90-min period. In contrast, in TR- rats virtually no hepatobiliary excretion of diclofenac glucuronide was found. After administration of diclofenac (30 mg/kg/day, ip for 3 days) to rats of both genotypes, a major protein adduct of an apparent molecular mass of 118 kDa was selectively detected by immunoblotting in isolated canalicular, but not in basolateral, membrane subfractions of wild-type rats, whereas no plasma membrane adducts could be found in the livers of TR- rats. Furthermore, immunohistochemical analysis using an anti-diclofenac antibody revealed the presence of distinct diclofenac-modified proteins on canalicular membranes of liver sections from diclofenac-treated normal rats, whereas no adducts could be identified in livers of TR- rats. In Western blots, the major diclofenac-modified canalicular membrane protein did not comigrate with Mrp2, indicating that the glucuronide carrier itself was unlikely to be a target. Collectively, the results demonstrate that the reactive diclofenac glucuronide is selectively transported into bile via Mrp2 and that hepatobiliary transport is critical for diclofenac covalent binding to proteins in the biliary tree.
Performance comparison between carbon nanotube and copper interconnects for gigascale integration (GSI) (2005)

Physical models are used to determine the ultimate potential performance of carbon nanotube interconnects and compare them with minimum-size copper wires implemented at various technology generations. Results offer important guidance regarding the nature of carbon nanotube technology development needed for improving interconnect performance. Since wave propagation is slow in a single nanotube, nanotube bundles with larger wave speeds must be used. At the 45-nm node (year 2010), the performance enhancement that can be achieved by using nanotube bundles is negligible, and at the 22-nm node (year 2016) it can be as large as 80%.
Synthesis of relaxin‐2 and insulin‐like peptide 5 enabled by novel tethering and traceless chemical excision (2017)

This report presents an entirely chemical, general strategy for the synthesis of relaxin-2 and insulin-like peptide 5. Historically, these two peptides have represented two of the more synthetically challenging members of the insulin superfamily. The key synthetic steps involve two sequential oxime ligations to covalently link the individual A-chain and B-chain, followed by disulfide bond formation under aqueous, redox conditions. This is followed by two chemical reactions that employ diketopiperazine cyclization-mediated cleavage and ester hydrolysis to liberate the connecting peptide and the heterodimeric product. This approach avoids the conventional iodine-mediated disulfide bond formation and enzyme-assisted proteolysis to generate biologically active two-chain peptides. This novel synthetic strategy is ideally suited for peptides such as relaxin and insulin-like peptide 5 as they possess methionine and tryptophan that are labile under strong oxidative conditions. Additionally, these peptides possess multiple arginine and lysine residues that preclude the use of trypsin-like enzymes to obtain biologically active hormones. This synthetic methodology is conceivably applicable to other two-chain peptides that contain multiple disulfide bonds. Copyright © 2017 European Peptide Society and John Wiley & Sons, Ltd.
Association of Obesity with IgE and Allergy Symptoms in Children and Adolescents: Results from NHANES 2005–2006 (2020)

The prevalence of both obesity and allergic disease has increased among children over the last several decades. Previous literature on the relationship between obesity and allergic disease has been inconsistent. It is not known whether systemic inflammation could be a factor in this relationship.
Temporal Incidence and Predictors of High‐Grade Atrioventricular Block After Transcatheter Aortic Valve Replacement (2021)

Background The temporal incidence of high-grade atrioventricular block (HAVB) after transcatheter aortic valve replacement (TAVR) is uncertain. As a result, periprocedural monitoring and pacing strategies remain controversial. This study aimed to describe the temporal incidence of initial episode of HAVB stratified by pre- and post-TAVR conduction and identify predictors of delayed events. Methods and Results Consecutive patients undergoing TAVR at a single center between February 2012 and June 2019 were retrospectively assessed for HAVB within 30 days. Patients with prior aortic valve replacement, permanent pacemaker (PPM), or conversion to surgical replacement were excluded. Multivariable logistic regression was performed to assess predictors of delayed HAVB (initial event >24 hours post-TAVR). A total of 953 patients were included in this study. HAVB occurred in 153 (16.1%). After exclusion of those with prophylactic PPM placed post-TAVR, the incidence of delayed HAVB was 33/882 (3.7%). Variables independently associated with delayed HAVB included baseline first-degree atrioventricular block or right bundle-branch block, self-expanding valve, and new left bundle-branch block. Forty patients had intraprocedural transient HAVB, including 16 who developed HAVB recurrence and 6 who had PPM implantation without recurrence. PPM was placed for HAVB in 130 (13.6%) (self-expanding valve, 23.7% versus balloon-expandable valve, 11.9%; <i>P</i><0.001). Eight (0.8%) patients died by 30 days, including 1 unexplained without PPM present. Conclusions Delayed HAVB occurs with higher frequency in patients with baseline first-degree atrioventricular block or right bundle-branch block, new left bundle-branch block, and self-expanding valve. These findings provide insight into optimal monitoring and pacing strategies based on periprocedural ECG findings.
Creating Lithium‐Ion Electrolytes with Biomimetic Ionic Channels in Metal–Organic Frameworks (2018)

Solid-state electrolytes are the key to the development of lithium-based batteries with dramatically improved energy density and safety. Inspired by ionic channels in biological systems, a novel class of pseudo solid-state electrolytes with biomimetic ionic channels is reported herein. This is achieved by complexing the anions of an electrolyte to the open metal sites of metal-organic frameworks (MOFs), which transforms the MOF scaffolds into ionic-channel analogs with lithium-ion conduction and low activation energy. This work suggests the emergence of a new class of pseudo solid-state lithium-ion conducting electrolytes.
Asymmetric Synthesis and Receptor Pharmacology of the Group II mGlu Receptor Ligand (1S,2R,3R,5R,6S)‐2‐Amino‐3‐hydroxy‐bicyclo[3.1.0]hexane‐2,6‐dicarboxylic Acid—HYDIA (2007)

The asymmetric synthesis and receptor pharmacology of (1S,2R,3R,5R,6S)-2-amino-3-Hydroxy-bicyclo[3.1.0]hexane-2,6-dicarboxylic Acid (+)-9 (HYDIA) and a few of its O-alkylated derivatives are described. The key step of the synthesis utilizes Sharpless' asymmetric dihydroxylation (AD-beta) for the kinetic resolution of a bicyclic racemic precursor olefin. In contrast to the bicyclic glutamate analogue LY354740, which is a potent and selective agonist for the group II metabotropic glutamate receptors (mGluRs), these new conformationally restricted and also hydroxylated or alkoxylated glutamate analogues are potent and selective antagonists for the group II mGluRs.
Dynamic Kinetic Resolution of Racemic γ-Aryl-δ-oxoesters. Enantioselective Synthesis of 3-Arylpiperidines (2002)

Cyclodehydration of racemic gamma-aryl-delta-oxoesters with (R)- or (S)-phenylglycinol stereoselectively affords bicyclic delta-lactams, in a process that involves a dynamic kinetic resolution. Subsequent reduction of these lactams leads to enantiopure 3-arylpiperidines. Starting from racemic aldehyde esters, this short sequence has been applied to the synthesis of (R)-3-phenylpiperidine and the antipsychotic drug (-)-3-PPP (an (S)-3-arylpiperidine), whereas starting from racemic ketone esters enantiopure cis-2-alkyl-3-arylpiperidines are prepared.
Metabolism-Directed Design of Oxetane-Containing Arylsulfonamide Derivatives as γ-Secretase Inhibitors (2011)

A metabolism-based approach toward the optimization of a series of N-arylsulfonamide-based γ-secretase inhibitors is reported. The lead cyclohexyl analogue 6 suffered from extensive oxidation on the cycloalkyl motif by cytochrome P450 3A4, translating into poor human liver microsomal stability. Knowledge of the metabolic pathways of 6 triggered a structure-activity relationship study aimed at lowering lipophilicity through the introduction of polarity. This effort led to several tetrahydropyran and tetrahydrofuran analogues, wherein the 3- and 4-substituted variants exhibited greater microsomal stability relative to their 2-substituted counterparts. Further reduction in lipophilicity led to the potent γ-secretase inhibitor and 3-substituted oxetane 1 with a reduced propensity toward oxidative metabolism, relative to its 2-substituted isomer. The slower rates of metabolism with 3-substituted cyclic ethers most likely originate from reductions in lipophilicity and/or unfavorable CYP active site interactions with the heteroatom. Preliminary animal pharmacology studies with a representative oxetane indicate that the series is generally capable of lowering Aβ in vivo. As such, the study also illustrates the improvement in druglikeness of molecules through the use of the oxetane motif.
Oligonucleotide Loading Determines Cellular Uptake of DNA-Modified Gold Nanoparticles* (2020)

The cellular internalization of oligonucleotide-modified nanoparticles is investigated. The introduction and development of the oligonucleotide– nanoparticle conjugate have led to applications in molecular diagnostics, materials synthesis, and gene regulation. The oligoethylene glycol likely lifts the DNA off the particle surface, thereby increasing the particle diameter and increasing the DNA contribution to the measured surface potential. A hallmark of these densely functionalized oligonucleotide-modified particles is their ability to enter a wide variety of cell types, which has qualitatively been demonstrated using confocal microscopy. The amount of antisense oligonucleotide-modified gold nanoparticle agents found in each cell is proportional to the concentration of particles added to the media over the range of concentrations tested. The uptake plateau at 60 oligonucleotides per particle is perhaps due to a saturation of proteins on the surface of the oligonucleotide layer. Beyond this point, additional oligonucleotides may confer no additional ability to recruit proteins.
Genome Stability of Lyme Disease Spirochetes: Comparative Genomics of Borrelia burgdorferi Plasmids (2012)

Lyme disease is the most common tick-borne human illness in North America. In order to understand the molecular pathogenesis, natural diversity, population structure and epizootic spread of the North American Lyme agent, Borrelia burgdorferi sensu stricto, a much better understanding of the natural diversity of its genome will be required. Towards this end we present a comparative analysis of the nucleotide sequences of the numerous plasmids of B. burgdorferi isolates B31, N40, JD1 and 297. These strains were chosen because they include the three most commonly studied laboratory strains, and because they represent different major genetic lineages and so are informative regarding the genetic diversity and evolution of this organism. A unique feature of Borrelia genomes is that they carry a large number of linear and circular plasmids, and this work shows that strains N40, JD1, 297 and B31 carry related but non-identical sets of 16, 20, 19 and 21 plasmids, respectively, that comprise 33-40% of their genomes. We deduce that there are at least 28 plasmid compatibility types among the four strains. The B. burgdorferi ∼900 Kbp linear chromosomes are evolutionarily exceptionally stable, except for a short ≤20 Kbp plasmid-like section at the right end. A few of the plasmids, including the linear lp54 and circular cp26, are also very stable. We show here that the other plasmids, especially the linear ones, are considerably more variable. Nearly all of the linear plasmids have undergone one or more substantial inter-plasmid rearrangements since their last common ancestor. In spite of these rearrangements and differences in plasmid contents, the overall gene complement of the different isolates has remained relatively constant.
Supplementary Table 1 from Preclinical Studies on the Mechanism of Action and the Anti-Lymphoma Activity of the Novel Anti-CD20 Antibody GA101 (2023)

&lt;p&gt;XLS - 33K, Supplementary Table 1&lt;/p&gt;
Table ST6 from ROS Induction Targets Persister Cancer Cells with Low Metabolic Activity in NRAS-Mutated Melanoma (2023)

&lt;p&gt;Table ST6: Differential expressed lipids and their FDRs in sensitive vs resistant cells (negative values are upregulated in sensitive cells).&lt;/p&gt;