gebhart/patrepeval huggingface dataset:
Dual Role of TLR3 in Inflammation and Cancer Cell Apoptosis (2013)

Immunity may be regarded as the most sophisticated part of the tissue repair process. In order to reach the “restitutio ad integrum” of tissues while minimizing the general consequences of external aggression, multicellular organisms have evolved mechanisms that allow rapid detection of non-self or injured self. Early recognition represents the first stage of protection against pathogens that enables any cell to elicit promptly various forms of protective responses that altogether represent the so-called “innate immune response”. In addition, the innate immune response turns on two types of specialized effector immune cells responsible for the adaptive immune response, the T and the B lymphocytes
Predicting Structural Feasibility of Silica and Germania Zeolites (2010)

High throughput experimental techniques for zeolite synthesis, combined with the introduction of germanium in the synthesis gel, have allowed an increase in the number of new zeolites, especially of those containing large and extralarge pores. Zeolite phases containing Si/Ge as tetrahedral atoms stabilize certain unique topologies. One particular feature of Ge-containing zeolites is the stabilization of small TOT (T = Si, Ge) angles compared to their silica counterparts. This study employs computational chemistry techniques to calculate and rationalize the relative stability of zeolite phases as silicates and germanates. Atomistic force fields are used to simulate the structural properties of experimentally synthesized Si/Ge-containing zeolites, and an ab initio Hartree−Fock methodology is used to estimate the energetics of TOT angles. It is shown that each particular topology is only compatible with certain ranges of TOT angles, and, depending on the chemical composition, this induces stability or strain. A calculation of the energetic penalty associated with TOT angles for the different chemical compositions at each topology allows an estimate of their feasibility. The results are in agreement with experiments and allow one to make predictions about feasibility of new SiO2 or GeO2 zeolite structures.
Silencing of high‐mobility group box 2 (HMGB2) modulates cisplatin and 5‐fluorouracil sensitivity in head and neck squamous cell carcinoma (2014)

Dysregulation of protein expression is associated with most diseases including cancer. MS-based proteomic analysis is widely employed as a tool to study protein dysregulation in cancers. Proteins that are differentially expressed in head and neck squamous cell carcinoma (HNSCC) cell lines compared to the normal oral cell line could serve as biomarkers for patient stratification. To understand the proteomic complexity in HNSCC, we carried out iTRAQ-based MS analysis on a panel of HNSCC cell lines in addition to a normal oral keratinocyte cell line. LC-MS/MS analysis of total proteome of the HNSCC cell lines led to the identification of 3263 proteins, of which 185 proteins were overexpressed and 190 proteins were downregulated more than twofold in at least two of the three HNSCC cell lines studied. Among the overexpressed proteins, 23 proteins were related to DNA replication and repair. These included high-mobility group box 2 (HMGB2) protein, which was overexpressed in all three HNSCC lines studied. Overexpression of HMGB2 has been reported in various cancers, yet its role in HNSCC remains unclear. Immunohistochemical labeling of HMGB2 in a panel of HNSCC tumors using tissue microarrays revealed overexpression in 77% (54 of 70) of tumors. The HMGB proteins are known to bind to DNA structure resulting from cisplatin-DNA adducts and affect the chemosensitivity of cells. We observed that siRNA-mediated silencing of HMGB2 increased the sensitivity of the HNSCC cell lines to cisplatin and 5-FU. We hypothesize that targeting HMGB2 could enhance the efficacy of existing chemotherapeutic regimens for treatment of HNSCC. All MS data have been deposited in the ProteomeXchange with identifier PXD000737 (http://proteomecentral.proteomexchange.org/dataset/PXD000737).
Experimental evidence for a light and broad scalar resonance in D+-> pi-pi+pi+ decay (2000)

From a sample of 1240 ± 51 D+ <FONT FACE=Symbol>®</font> pi- pi+ pi+ we find gamma(D+ -> pi- pi+ pi+)/gamma(D+ -> K- pi+ pi+) = 0:0329 ± 0:0015 <img src="http:/img/fbpe/bjp/v30n2/10eq01.gif" border="0" align="absmiddle">. Using a coherent amplitude analysis to t the Dalitz plot of this decay, we find strong evidence that a scalar resonance of mass 483<img src="http:/img/fbpe/bjp/v30n2/10eq02.gif" border="0" align="absmiddle"> ± 17 MeV/c² and width 338<img src="http:/img/fbpe/bjp/v30n2/10eq03.gif" border="0" align="absmiddle"> ± 21 MeV/c² produces a decay fraction of approximately one half.
Finite element models of total shoulder replacement: Application of boundary conditions (2005)

The widespread use of FEA within orthopaedics is often prohibited by the limits of available computational power, with simplifications to the model often necessary in order to permit solution. An example of this includes the use of osseous models that exclude muscular loading, and may consist of only a partial or truncated region of the anatomy. However, is it possible to make such simplifications without affecting the predictive quality of the model? This issue has been considered using the specific example of the total shoulder reconstruction, where the effects of including the entire osseous region and/or the muscle loadings, has been evaluated. The effect of including the muscle loadings and the entire osseous structure was seen to increase with distance from the articular surface of the glenoid prosthesis. Stresses in the cement mantle were reduced in the absence of either the entire scapula bone or the muscle loading. The study suggests that the use of a fully defined scapula (hard- and soft-tissue) is particularly important when investigating fixation, whilst less comprehensive models should be appropriate for studies of the prosthesis exclusively.
A multistep enrichment process with custom growth medium improves resuscitation of chlorine-stressed coliforms from secondary sewage effluents (2021)

Resuscitation and detection of stressed total coliforms in chlorinated water samples is needed to assess and prevent health effects from adverse exposure. In this study, we report that the addition of a growth enhancer mix consisting of trehalose, sodium pyruvate, magnesium chloride, and 1× trace mineral supplement improved growth of microorganisms from chlorinated secondary effluent in the base medium with Colilert-18. Improving growth of chlorine stressed microorganisms from secondary effluent is crucial to decreased detection time from 18 to 8 h.
“Ruffled border” formation on a CaP-free substrate: A first step towards osteoclast-recruiting bone-grafts materials able to re-establish bone turn-over (2018)

Osteoclasts are large multinucleated giant cells that actively resorb bone during the physiological bone turnover (BTO), which is the continuous cycle of bone resorption (by osteoclasts) followed by new bone formation (by osteoblasts). Osteoclasts secrete chemotactic signals to recruit cells for regeneration of vasculature and bone. We hypothesize that a biomaterial that attracts osteoclasts and re-establishes BTO will induce a better healing response than currently used bone graft materials. While the majority of bone regeneration efforts have focused on maximizing bone deposition, the novelty in this approach is the focus on stimulating osteoclastic resorption as the starter for BTO and its concurrent new vascularized bone formation. A biodegradable tyrosine-derived polycarbonate, E1001(1k), was chosen as the polymer base due to its ability to support bone regeneration in vivo. The polymer was functionalized with a RGD peptide or collagen I, or blended with β-tricalcium phosphate. Osteoclast attachment and early stages of active resorption were observed on all substrates. The transparency of E1001(1k) in combination with high resolution confocal imaging enabled visualization of morphological features of osteoclast activation such as the formation of the "actin ring" and the "ruffled border", which previously required destructive forms of imaging such as transmission electron microscopy. The significance of these results is twofold: (1) E1001(1k) is suitable for osteoclast attachment and supports osteoclast maturation, making it a base polymer that can be further modified to optimize stimulation of BTO and (2) the transparency of this polymer makes it a suitable analytical tool for studying osteoclast behavior.
Mutations in the Nuclear Encoded Novel Mitochondrial Protein CHCHD10 Cause an Autosomal Dominant Mitochondrial Myopathy (IN7-2.002) (2012)

Objective: To report a novel causative gene for an autosomal dominant mitochondrial myopathy. Background Mitochondrial myopathies belong to a larger group of systemic diseases caused by morphological or biochemical abnormalities of mitochondria. Mitochondrial disorders can be caused by mutation either in the mitochondrial or in the nuclear genome. Design/Methods: Patients are part of previously reported Hispanic kindred with autosomal dominant mitochondrial myopathy (Heiman-Patterson et al 1997). Linkage analysis was established using fluorescent microsatellite markers and illumina genome wide SNP markers. Candidate gene was identified using MitoCarta (Vamsi K. Mootha, personal communication). Candidate gene was sequenced using Beckman Coulter CEQ 8000 DNA analysis system. The cDNA of wild type, single and double mutant gene were cloned in pCMV-Myc vector and co-transfected with pDsRed2-mito in HEK293 cells. The co-localization was monitored with confocal microscopy. Results: In this five generation Hispanic family we established linkage to chromosome 22q11. Using the tools of integrative gneomics, we established CHCHD10/ C22orf16 as the high scoring mitochondrial candidate gene in our minimal candidate region. Sequence analysis revealed a double heterozygote missense mutation in this gene. These two mutations segregated with disease phenotype and were absent in 500 Caucasians and Hispanic non affected controls. Both wild types, single and double mutant proteins co-localized with mitochondria. Conclusions: We identified a new nuclear encoded mitochondrial gene ( CHCHD10 ) as the cause of an autosomal dominant mitochondrial myopathy. CHCHD10 encodes a non characterized 142 aa protein with a target mitochondrial signaling peptide and a conserved CHCH domain. This CHCH domain is present in many intermembrane space proteins, such as the family of small Tim proteins. The exact function of this protein remains to be determined. Our findings expands the spectrum of mitochondrial myopathies caused by nuclear gene dysfunction. Disclosure: Dr. Ajroud-Driss has nothing to disclose. Dr. Fecto has nothing to disclose. Dr. Ajroud has nothing to disclose. Dr. Siddique has nothing to disclose.
Low-loss Mode Converter for Silicon-Polymer Hybrid Slot Photonic Crystal Waveguide (2015)

We demonstrate an efficient adiabatic mode converter for coupling light into a silicon slot photonic crystal waveguide with slot width as large as 320nm. The loss of the mode converter is measured to be 0.08dB.
Diameter dependence of electron mobility in InGaAs nanowires (2013)

In this work, we present the diameter dependent electron mobility study of InGaAs nanowires (NWs) grown by gold-catalyzed vapor transport method. These single crystalline nanowires have an In-rich stoichiometry (i.e., In0.7Ga0.3As) with dispersed diameters from 15 to 55 nm. The current-voltage behaviors of fabricated nanowire field-effect transistors reveal that the aggressive scaling of nanowire diameter will induce a degradation of electron mobility, while low-temperature measurements further decouple the effects of surface/interface traps and phonon scattering, highlighting the impact of surface roughness scattering on the electron mobility. This work suggests a careful design consideration of nanowire dimension is required for achieving the optimal device performances.
Correction: Adipocyte arrestin domain-containing 3 protein (Arrdc3) regulates uncoupling protein 1 (Ucp1) expression in white adipose independently of canonical changes in β-adrenergic receptor signaling (2017)

[This corrects the article DOI: 10.1371/journal.pone.0173823.].
Practical Experience Gained Operating a Compact Ultradeepwater Drill Ship (2013)

Abstract This paper describes the practical experiences gained during the first year of operation of a new Panamax-size ultra deepwater drill ship. The vessel started operations in the Gulf of Mexico in July 2012. The practical experience is offset against the vessel's design expectations: improved safety, an increased drilling efficiency and reduced operational costs. The drill ship is of an integrated design covering vessel, drill tower and equipment handling. The drill ship offers an equal payload compared to other ultra deepwater drill ships but at half the displacement. This paper details the effects of the highly automated onboard material and equipment handling on the vessel's drilling efficiency and on the operational cost The material and equipment handling is designed around the box girder drill tower that has no V-door limitation and features a drilling side and a construction side, thus minimising flat time. Stands built on one side of the tower can be stored in two set back drums, one on each side of the tower, and taken out when needed. Four pipe handlers are available for handling purposes. This paper covers the field experience with all features of the drill tower that are designed to save time and/or increase efficiency and/or enhance onboard safety. These include the drill tower's dual drawworks eliminating slip-cut procedures, the passive and active heave compensation on the drawworks, and the splittable blocks. The latter allow increasing the block speed for lighter loads.
UROLITHIASIS, ENDOUROLOGY AND LAPAROSCOPY (2003)

No AccessJournal of UrologyUROLOGICAL SURVEY: ABSTRACTS1 Aug 2003UROLITHIASIS, ENDOUROLOGY AND LAPAROSCOPY Ralph V. ClaymanM.D. Ralph V. ClaymanRalph V. Clayman More articles by this author View All Author Informationhttps://doi.org/10.1016/S0022-5347(05)63415-5AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail References 1 : Maximizing ureteroscope deflection: “play it straight.”. Urology2002; 60: 902. Google Scholar 1 : Diagnosis and treatment of ureteral calculi during pregnancy with rigid ureteroscopes. J Urol1996; 155: 875. Link, Google Scholar 2 : Ureteroscopy as a first-line intervention for ureteral calculi in pregnancy. J Endourol2002; 16: 19. Google Scholar © 2003 by American Urological Association, Inc.FiguresReferencesRelatedDetails Volume 170Issue 2August 2003Page: 684-693 Advertisement Copyright & Permissions© 2003 by American Urological Association, Inc.MetricsAuthor Information Ralph V. Clayman More articles by this author Expand All Advertisement Loading ...
Preventing mother to child transmission of HIV: lessons learned from China (2020)

Although the overall MTCT rate remains relatively high, the real-world effect of prenatal cART+IP + FF in China has exerted the same protective effects in high-income countries. With the extension of prenatal cART for pregnant women with HIV, the MTCT rate of HIV has gradually declined in China. However, the coverage of prenatal cART for pregnant women should be further improved. The effect of only post-exposure prophylaxis for infants was limited.
HAB: Human-centric augmented browser (2005)

In order to have displayed information on the small display of mobile apparatus conventionally, the menu had to be moved by button operation, or the picture had to be made to reduce according to the size of a display, and the limit was in the amount of information which can be displayed on a small display. On the other hand, the paper proposes the system called HAB (human-centric augmented browser) which displays by moving a display, with the screen fixed which spreads beyond a display. Thereby, even a 2 inches display can display a big picture 40 inches or more. We show the basic working principle based on the patent (P2002-114028) and explain the expected market with business model.
SGLT2 inhibitors in patients with heart failure: a comprehensive meta-analysis of five randomised controlled trials (2022)

None.
Triaxial force measurement cantilever by sidewall-doping with rapid thermal diffusion (2010)

We propose a triaxial force measurement cantilever with piezoresistors fabricated by rapid thermal diffusion sidewall-doping. The device is developed as a tool for applying quantitative mechanical stimuli to cells and measuring their mechanical properties at the same time. The device consists of a sensing tip, two sensing beams, and four wiring beams. We form piezoresistors on the surface of the sensing tip and the sidewalls of the two sensing beams. We confirmed that our device was able to measure triaxial forces. The displacement sensitivities of the device were 1.59×10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-3</sup> ¿m <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-1</sup> , 1.18×10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-3</sup> ¿m <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-1</sup> and 3.26×10 <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-4</sup> ¿m <sup xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">-1</sup> for x, y, and z-direction, respectively.
An adaptive energy management scheme for real-time landslide detection (2013)

Sensor nodes in wireless sensor network are powered by batteries and thus the utilization of effective energy management techniques becomes one of the most important challenges in realistic design of WSN. This paper deals with an optimal energy management scheme in Landslide detection system deployed in Kerala. Based on the meteorological, hydrological and soil parameters, sensors will be dynamically prioritized, scheduled and selects appropriate sensors for event handling. The results of this research work shows that the life time of the network has been improved due to the implementation of this adaptive energy management scheme.
Inhibition of the solid state transformation of carbamazepine in aqueous solution: impact of polymeric properties (2017)

The effects of polymers on the anhydrate-to-hydrate transformation of carbamazepine (CBZ) was investigated. The three types of polymers studied were polyvinylpyrrolidone (PVP), polyvinyl alcohol (PVA) and substituted celluloses which included hydroxypropyl methylcellulose (HPMC) and methylcellulose (MC). Anhydrous CBZ was added to dilute aqueous polymer solutions and Raman spectroscopy measurements were collected to monitor the kinetics of the solution-mediated transformation to CBZ dihydrate. Polymers exhibiting the greatest inhibition were able to reduce the growth phase of the solution-mediated transformation and change the habit of the hydrate crystal indicating polymer adsorption to the hydrate crystal surface as the mechanism of inhibition. The results of the various polymers showed that short chain substituted celluloses (HPMC and MC) inhibited the CBZ transformation to a much greater extent than longer chains. The same trend was observed for PVP and PVA, but to a lesser extent. These chain length effects were attributed to changes in polymer confirmation when adsorbed on the crystal surface. Additionally, decreasing the percentage of hydroxyl groups on the PVA polymer backbone reduced the ability of the polymer to inhibit the transformation and changing the degree of substitutions of methyl and hydroxypropyl groups on the cellulosic polymer backbone had no effect on the transformation.
SELECTION CRITERIA OF TEST SIGNALS FOR CORRELATION-BASED WIRE FAULT ANALYSIS (PREPRINT) (2006)

This paper compares reflectometry signals for location of intermittent faults on live electrical cables. STDR, SSTDR, linear chirp, quadratic chirp, concave-up chirp, convex-down chirp and all frequency randomized phase noise signals were tested. The SSTDR was observed to be the most effective signal for live wire testing, because of its minimal interference with the existing signals and narrow correlation signature. This paper provides a methodology for systematically evaluating signal performance and design criteria for live wire test systems.
PIEZO1‐gene gain‐of‐function mutations with lower limb lymphedema onset in an adult: Clinical, scintigraphic, and noncontrast magnetic resonance lymphography findings (2021)

Primary lymphedema, a rare disease, has a genetic cause in ~40% of patients. Recently, loss-of-function mutations in PIEZO1, which encodes the mechanotransducer protein PIEZO1, were described as causing primary lymphedema, when gain-of-function PIEZO1 mutations were attributed to dehydrated hereditary stomatocytosis type-1 (DHS), a dominant red cell hemolytic disorder, with ~20% of patients having perinatal edema. Lymphedema was diagnosed in a 36-year-old man from a three-generation DHS family, with a PIEZO1-allele harboring 3 missense mutations in cis. Four affected family members had severe fetal and neonatal edema, most severe in the proband, whose generalized edema with prevailing ascites resolved after 8 months. Our patient's intermittent lower limb-lymphedema episodes during hot periods appeared at puberty; they became persistent and bilateral at age 32. Clinical Stemmer's sign confirmed lymphedema. Lower leg lymphoscintigraphy showed substantial dermal backflow in both calves, predominantly on the right. Noncontrast magnetic resonance lymphography showed bilateral lower limb lymphedema, dilated dysplastic lymphatic iliac, and inguinal trunks. Exome-sequencing analysis identified no additional pathogenic variation in primary lymphedema-associated genes. This is the first description of well-documented lymphedema in an adult with PIEZO1-DHS. The pathophysiology of PIEZO1-associated primary lymphedema is poorly understood. Whether it infers overlapping phenotypes or different mechanisms of gain- and loss-of-function PIEZO1 mutations deserves further investigation.
Undirected Graphical Models as Approximate Posteriors (2020)

The representation of the approximate posterior is a critical aspect of effective variational autoencoders (VAEs). Poor choices for the approximate posterior have a detrimental impact on the generative performance of VAEs due to the mismatch with the true posterior. We extend the class of posterior models that may be learned by using undirected graphical models. We develop an efficient method to train undirected approximate posteriors by showing that the gradient of the training objective with respect to the parameters of the undirected posterior can be computed by backpropagation through Markov chain Monte Carlo updates. We apply these gradient estimators for training discrete VAEs with Boltzmann machines as approximate posteriors and demonstrate that undirected models outperform previous results obtained using directed graphical models. Our implementation is available at this https URL .