gebhart/patrepeval huggingface dataset:
Insights into the Nature of Synergistic Effects in Proton-Conducting 4,4−1H,1H-Bitriazole-Poly(ethylene oxide) Composites (2009)

A nitrogen-containing heterocycle (NCH), 4,4-1H-1H-bi-1,2,3-triazole (bitriazole), capable of mimicking the hydrogen bonding of water in the solid state is synthesized and its ability to conduct protons in the presence of poly(ethylene oxides) under anhydrous conditions is investigated. Bitriazole is shown to have sufficient thermal and electrochemical stability for fuel cell applications. The composites formed between bitriazole and poly(ethylene oxides) give proton conductivities that can be described by the Vogel−Tamman−Fulcher (VTF) equation. These characteristics suggest coupling between polymer segmental motion and ion transport. The bitriazole N-H proton is shown to be the source of conductivity, and bitriazole and poly(ethylene oxides) function synergistically through specific intermolecular interactions and polymer-induced segmental motion to create a pathway for proton transport via structural diffusion.
Re: Conserved Collateral Antibiotic Susceptibility Networks in Diverse Clinical Strains of Escherichia coli (2019)

No AccessJournal of UrologyUrological Survey1 May 2019Re: Conserved Collateral Antibiotic Susceptibility Networks in Diverse Clinical Strains of Escherichia coli Anthony AtalaMD Anthony AtalaAnthony Atala More articles by this author View All Author Informationhttps://doi.org/10.1097/JU.0000000000000165AboutFull TextPDF ToolsAdd to favoritesDownload CitationsTrack CitationsPermissionsReprints ShareFacebookLinked InTwitterEmail "Re: Conserved Collateral Antibiotic Susceptibility Networks in Diverse Clinical Strains of Escherichia coli." The Journal of Urology, 201(5), p. 861 Suggested Reading : Fluoroquinolone resistant rectal colonization predicts risk of infectious complications after transrectal prostate biopsy. J Urol 2014; 192: 1673. Link, Google Scholar : Characterization of ciprofloxacin resistant Escherichia coli isolates among men undergoing evaluation for transrectal ultrasound guided prostate biopsy. J Urol 2013; 190: 2026. Link, Google Scholar © 2019 by American Urological Association Education and Research, Inc.FiguresReferencesRelatedDetails Volume 201Issue 5May 2019Page: 861-861 Advertisement Copyright & Permissions© 2019 by American Urological Association Education and Research, Inc.MetricsAuthor Information Anthony Atala More articles by this author Expand All Advertisement PDF downloadLoading ...
Supplementary Methods, Figures 1-5 from Reduced Expression of the Androgen Receptor by Third Generation of Antisense Shows Antitumor Activity in Models of Prostate Cancer (2023)

&lt;p&gt;PDF file - 304K&lt;/p&gt;
Study of Magnesium Boride Films Obtained From Mg(BH4)2 by CVD (2007)

Abstract Magnesium boride films are synthesized from Mg(BH 4 ) 2 by CVD. A new synthesis of the precursor is developed. Deposition time of the samples is varied to study its influence on film composition. The films are analyzed by means of X‐ray diffraction (XRD) and X‐ray photoelectron spectroscopy (XPS). The contributions of various chemical species (boride and oxides) in the depth profiles, carried out using Ar ion sputtering combined with cyclic XPS measurements, are separated by peak‐fitting analysis of photoelectron B1s and Auger MgKLL spectra. The samples are composed of MgB x film covered by an overlayer of magnesium and boron oxides.
ChemInform Abstract: Synthesis, Properties and Applications of Magnetic Nanoparticles (2012)

Abstract Review: 301 refs.
Korean Red ginseng prevents endothelial senescence by downregulating the HO-1/NF-κB/miRNA-155-5p/eNOS pathway (2020)

KRGE delayed or prevented HUVEC senescence through a signaling cascade involving the induction of HO-1, the inhibition of NF-<i>κ</i>B-dependent miR-155-5p biogenesis, and the maintenance of the eNOS/NO axis activity, suggesting that it may protect against vascular diseases associated with endothelial senescence.
P98 UNSATURATED LIPIDS ARE SIGNIFICANTLY UPREGULATED IN OESOPHAGEAL ADENOCARCINOMA (2019)

Abstract Aim This work aims to determine the glycerophospholipid (GPL) abundance between Oesophageal adenocarcinoma (OA) and proximal non-cancerous tissue at multiple levels using Desorption Electrospray Ionisation Mass spectrometry (DESI-MS) tissue imaging. Background &amp; Methods The prevalence of Oesophageal cancer in the United Kingdom has steadily risen since the 1970s. The prognosis for most patients is poor, with two thirds presenting with incurable disease. The abundance of lipids in OA has been shown to be atypical of normal cellular metabolism.1 This work utilises mass spectrometry imaging to identify variations in lipid abundance between OA and normal oesophagus (NO). Tissue was sampled from specimens dissected immediately post-resection from the tumour and at 5-centimetre intervals in the proximal oesophagus. DESI-MS tissue imaging, an ambient form of Mass Spectrometry, was performed to identify GPLs.2 DESI-MS images were correlated with Hematoxylin and Eosin staining (current gold standard). Principle component analysis with a supervised model classified tissue types by sensitivity and specificity. Results Tissue analysis confirmed unsaturated Phosphatidylglycerols and Phosphatidic acids were most abundant in OA compared to NO (p&lt;0.001). Tissue analysis by a Partial Least Square (PLS) supervised linear regression model classified cancer and non-cancer tissue with 85% sensitivity and 88% specificity. The abundance of several unsaturated GPL classes decreased proportionally in tissue sections at 5 and 10 centimetres from the primary tumour. Gene set enrichment has demonstrated potential dysregulation of this pathway in the literature. Conclusions This work highlights an important variant of lipid metabolism in OA, identified by DESI-MS. There is a significant overabundance of unsaturated Phosphatidylglycerol’s in OA compared to proximal NO. In addition, the unsaturated GPL classes found in the cancer become increasingly saturated at 5cm and 10cm from the tumour site. This variation in lipid molecular structure suggests a novel pathway for potential therapeutic modulation.
Effects of Harvest Maturity, Refrigeration and Blanching Treatments on the Volatile Profiles of Ripe “Tasti-Lee” Tomatoes (2021)

The interactive effects of six maturity stages and refrigerated storage (chilling)/blanching (heating) treatments on the volatile profiles of ripe tomatoes were studied. A total of 42 volatiles were identified, of which 19 compounds had odor activity values equal to or greater than 1. Of those, "green" and "leafy" aroma volatiles were most abundant. Chilling and heating treatments both suppressed overall volatile production, with chilling having the greater impact, regardless of harvest maturity. However, fruit harvested at the turning stage had the least volatile suppression by chilling and heating treatments in comparison with fruit harvested earlier or later, mostly in the fatty acid- and phenylalanine-derived volatiles. Volatiles derived from amino acids were promoted by heat treatment for fruit harvested at all maturities, and those derived from carotenoid and phenylalanine pathways and harvested at advanced harvest maturities were stimulated by chilling treatment. Volatile production is generally believed to be improved by delayed harvest, with vine-ripe being optimum. However, opposite results were observed possibly because the later-harvested fruit had longer exposure to open-field weather stress. The best harvest maturity recommendation is the turning stage where fruit developed abundant volatiles and were least impacted by chilling and heating treatments.
Controlled Synthesis of 2- and 3-Substituted Benzo[b]furans (2010)

A controlled regioselective synthesis of either C-2 or C-3 substituted benzo[b]furans from readily accessible 1-(2-hydroxyphenyl)-2-chloroethanones is described. Addition of a range of Grignard reagents to the α-chloro ketones generates alkoxide intermediates, which can form either 2-substituted benzo[b]furans via a [1,2]-aryl migration or 3-substituted benzo[b]furans via a direct cyclization and dehydration sequence. A temperature-dependent [1,2]-aryl migration mechanism for the formation of 2-substituted benzo[b]furan is proposed.
Table S1 from NK Cells Mediate Synergistic Antitumor Effects of Combined Inhibition of HDAC6 and BET in a SCLC Preclinical Model (2023)

&lt;p&gt;List of epigenetic genes and related shRNAs&lt;/p&gt;
Non-contact three-dimensional cell cluster formation on demand in open dishware using focused surface acoustic waves through a couplant layer (2021)

Three-dimensional cell agglomerates are broadly useful in tissue engineering and drug testing. We report a well-free method to form large (1-mm) multicellular clusters using 100-MHz surface acoustic waves (SAW) without direct contact with the media or cells. A fluid couplant is used to transformthe SAW into acoustic streaming in the cell-laden media held in a petri dish. The couplant transmits longitudinal sound waves, forming a Lamb wave in the petri dish that, in turn, produces longitudinal sound in the media. Due to recirculation, human embryonic kidney (HEK293) cells in the dish are carried to the center of the coupling location, forming a cluster in less than 10 min. A few minutes later, these clusters may then be translated and merged to form large agglomerations, and even repeatedly folded to produce a roughly spherical shape of over 1 mm in diameter for incubation—without damaging the existing intercellular bonds. Calcium ion signaling through these clusters and confocal images of multiprotein junctional complexes suggest a continuous tissue construct: intercellular communication. They may be formed at will, and the method is feasibly useful for formation of numerous agglomerates in a single petri dish.
A dynamic CAM - based on a one-hot-spot block code - for millions-entry lookup (2004)

With the aim of realizing large-scale and low-power CAMs for millions-entry lookup, the authors have devised a one-hot-spot block code and developed three circuit techniques. The proposed code efficiently stores IP addresses and reduces the entry count down by 52% on average. The first and second techniques, a hierarchical match-line structure and an on-chip entry compression/extraction scheme, enable the proposed code to be applied to our new CAM. In addition to the second technique, the third technique, a search-depth control scheme, restricts activating unneeded search lines and reduces power consumption down by 45%. In the case of 72-bit data, the proposed CAM, using a stacked capacitor, effectively achieves 1.5 million entries, which is six times larger than that of a conventional static TCAM.
The Multidrug Resistance-Associated Protein 4 (MRP4) Appears as a Functional Carrier of Prostaglandins Regulated by Oxytocin in the Bovine Endometrium (2011)

Prostaglandins (PG) are involved in several female reproductive processes, and their action is regulated at the levels of biosynthesis, catabolism, and signal transduction. Facilitated transport across cell membranes emerges as an additional checkpoint regulating PG action. We have already reported on the influx transporter solute carrier organic anion transporting polypeptide (SLCO2A1) [PG transporter (PGT)] in relation to PG action in the bovine endometrium. In the present study, we report on the functional expression and regulation of multidrug resistance-associated protein 4 (MRP4)/ATP-binding cassette carrier 4, an alternate PG transporter belonging to the ATP-binding cassette carrier (ABC) family. We have found that MRP4 protein was present throughout the estrous cycle and exhibited a pattern of expression similar to that of PGT with maximal expression during early-mid luteal phase in the bovine endometrium. Functional expression and regulation of MRP4 was studied in vitro using the newly developed bovine endometrial epithelial bEEL and stromal CSC cell lines. Oxytocin (OT) stimulated PGF2α production and MRP4 mRNA and protein in a time- and dose-dependent manner but had no effect on PGT. OT induced preferred accumulation of PG outside the cells and secretion toward the basolateral side of polarized bEEL cells grown on membrane inserts. MK-571 and indomethacin, two documented inhibitors of MRP4 activity, blocked preferred accumulation of PG, but interferon-τ and NS-398 had no effect on MRP4 expression or the direction of PG transport. Our results suggest that MRP4 is a functional PG carrier under the regulation of OT in the bovine endometrium.
"I Want to Figure Things Out": Supporting Exploration in Navigation for People with Visual Impairments (2023)

Navigation assistance systems (NASs) aim to help visually impaired people (VIPs) navigate unfamiliar environments. Most of today's NASs support VIPs via turn-by-turn navigation, but a growing body of work highlights the importance of exploration as well. It is unclear, however, how NASs should be designed to help VIPs explore unfamiliar environments. In this paper, we perform a qualitative study to understand VIPs' information needs and challenges with respect to exploring unfamiliar environments to inform the design of NASs that support exploration. Our findings reveal the types of spatial information that VIPs need as well as factors that affect VIPs' information preferences. We also discover specific challenges that VIPs face that future NASs can address, such as orientation and mobility education and collaborating effectively with others. We present design implications for NASs that support exploration, and we identify specific research opportunities and discuss open socio-technical challenges for making such NASs possible. We conclude by reflecting on our study procedure to inform future approaches in research on ethical considerations that may be adopted while interacting with the broader VIP community.
Novel Chitosan Hydrogels for the Treatment of Osteoarthritis: Mechanical Support, Lubrication and Prevention of Cartilage Degradation in a Rabbit Model of Osteoarthritis (2015)

peer reviewed
Energy Savings Potential of GaN LEDs for Energy Efficient Lighting and Future Research Directions (2013)

LEDs fabricated from gallium nitride have lead to the realization of high-efficiency white solid-state lighting. At UCSB’s Solid State Lighting and Energy Center we have fabricated advanced GaN white LEDs structures which exhibit luminous efficacy greater than 170 lm/Watt, and external quantum efficiencies higher than 50%. This has helped enabled LEDs lighting to compete with traditional lighting technologies such as incandescent and CFL. A review of the energy savings potential of LED based lighting compared to traditional technologies will be addressed. The U.S. Department of Energy estimates that in 2030 the energy savings from LED lighting in the U.S. alone would amount to over $250 billion in energy savings
Safety and Clinical Effects of Mesenchymal Stem Cells Secreting Neurotrophic Factor Transplantation in Patients With Amyotrophic Lateral Sclerosis (2016)

clinicaltrials.gov Identifiers: NCT01051882 and NCT01777646.
COMBINED HEART AND LIVER TRANSPLANTATION FOR CONGENITAL HEART DISEASE AND END-STAGE LIVER CIRRHOSIS (2010)

Toyoda, Y.; Bermudez, C.; Kormos, R.; Bhama, J.; Thacker, J.; Horai, T.; Sareyyupoglu, B.; Bonde, P.; Bansal, A.; Shigemura, N.; Humar, A.; FONTES, P. Author Information
Densely calcified tuberculous constrictive pericarditis with concurrent active pulmonary tuberculosis infection (2015)

Though pulmonary tuberculosis is a common chronic infection in the developing countries like Nepal, the incidence of tubercular constrictive pericarditis is very low. Here we report a patient of active pulmonary tuberculosis with sputum positive for acid fast bacilli along with densely calcified constrictive pericarditis which has been reported as a very rare presentation in the literature.DOI: http://dx.doi.org/10.3126/jcmsn.v10i2.12955 Journal of College of Medical Sciences-Nepal, 2014, Vol.10(2); 41-43
Physical characterization of HfO/sub 2/ deposited on Ge substrates by MOCVD (2004)

In this paper, we study the growth properties of HfO/sub 2/ on Ge by MOCVD, using TDEAH and O/sub 2/ precursors and compare the results to similar layers deposited on silicon substrates. Analysis techniques include ellipsometry, Rutherford Backscattering Spectra (RBS), transmission electron microscopy (TEM),X-ray diffraction (XRD), and time of flight secondary ion mass spectroscopy (TOFSIMS).
Numerical Simulation of Blood Flow Through Mechanical Heart Valves Using Meshless Techniques (2007)

Heart valve disease is a major contributor to cardiovascular mortality and morbidity. While bioprosthetic valves have satisfactory hemodynamic performance, mechanical heart valves (MHVs) are more durable, so their clinical use is increasing [1]. Unfortunately, current MHVs cause flow abnormalities, thrombosis and hemolysis [2]; they are therefore at a stage far from duplicating the function of natural valves. Recent improvements in computer performance and numerical methods have resulted in significant breakthroughs in MHV design [2]. In particular, computational fluid dynamics has been used to redesign valves to minimize the production of turbulence, regions of high shear stresses, pressure loss and stagnation regions in the vicinity of the leaflets [3]. These studies have, for the most part, used numerical techniques that require domain discretization such as finite element methods (FEM) or finite difference methods (FDM). However, these methods cannot represent the complexity of the moving and deforming boundaries present in an operating valve without extraordinarily high computational costs. That is, methods that use domain discretization require a fine mesh in small gaps between leaflets and near the valve housing. As a result, simplifying assumptions are typically made which introduce error into the results. We have recently implemented two meshless numerical techniques — the boundary element method (BEM) and the radial functions method (RFM) — that compute fluid flow fields without domain discretization and thus can model valve leaflet motions and unsteady flow with reasonable computational costs. The goal of this study was to model blood flow through mechanical heart valves using these techniques. In this paper we present the results of BEM simulations of heart valves in a range of open states. RFM techniques, which can efficiently simulate the nonlinear effects of inertia in the domain, are also described.
Multi-dimensional Aperture Design and Analysis for SAR Using the Cramr-Rao Theorem (2006)

We are applying the Cramer-Rao theorem to synthetic aperture radar (SAR) processing in order to establish flight paths that permit height estimation and minimize errors in reflectivity measurements. The Cramer-Rao bound (CRB) establishes a lower bound on the error variance of unbiased estimates. Error bounds are developed for multi-dimensional synthetic apertures that improve the overall performance and efficiency of monostatic, single-pass SAR missions. A computationally efficient means for the design and analysis of SAR waveforms is proposed using simulated scattering models that are limited in size. A comparison made with the error bounds for standard SAR show that estimates of scatterer range and cross-range positions are sufficiently accurate for multi-dimensional aperture SAR, even with the additional estimator for height.
Table S5 from MCL1 and DEDD Promote Urothelial Carcinoma Progression (2023)

&lt;p&gt;RIGER analyses of RNAi arrayed screen&lt;/p&gt;
Stable GPR101 over-Expressing Cell Lines As an Invaluable Tool for Functional Studies, Ligand Screening, and the Identification of Deregulated Genes/Pathways in Patients with X-Linked Acrogigantism (2017)

Background: GPR101 is an orphan G protein-coupled receptor (GPCR) that is duplicated in patients with X-linked acrogigantism (X-LAG) and over-expressed in their GH- and PRL-secreting tumors. GPR101 is a constitutively active GPCR that strongly activates the cAMP pathway. To elucidate the mechanisms through which GPR101 causes GH over-secretion we generated HEK293 and GH/PRL-secreting (GH3) cells with stable GPR101 expression. Methods: Both cell lines were created via direct integration of a human GPR101-coding sequence into their genome. In HEK293 cells this was achieved by transient transfection of a GPR101-expressing plasmid, while GH3 were transduced with GPR101 lentiviral particles. Cells were selected with appropriate antibiotics and the surviving clones expanded. GPR101 expression was quantified by RT-qPCR and immunofluorescence/western blotting. Cell proliferation (MTT assay), cAMP levels (125I-labeled cAMP tracer), and calcium signaling (FURA 2 AM) were determined. RNA was extracted from both cell lines and subjected to RNA-seq. Differential gene expression between control and GPR101-expressing cells and pathway analysis was carried out with the Stirplate and MetaCore softwares, respectively. De-regulated genes were validated by RT-qPCR. Results: High GPR101 expression was achieved in both cell lines and confirmed at the mRNA and protein level. GPR101-expressing cells proliferated at different rates from the respective controls: GPR101-HEK293 cells were slow-dividing, while GPR101-GH3 divided faster. cAMP production was enhanced in GPR101-GH3 and accompained by increased excitability of cells. Differential expression analysis in HEK293 cells revealed several up-regulated and few down-regulated genes. Among the genes with high expression, several were linked to the cAMP pathway: CGA, PCK1, LINC00473 and PDE3A. Enrichment analysis ranked cytoskeleton remodeling and cell cycle regulation (inhibition of G1/S transition) as the most relevant pathways. In GH3 cells most of the genes with a significantly different expression encoded for membrane-localized proteins, among which were ion channels (Trpm8, Kcnj1), GPCRs (Trhr), and calcium sensors (Syt4, Anxa1). Biological processes associated with these genes are: vesicle transport and fusion, cytoskeleton organization, and energy homeostasis. Conclusions: These results show that the intrinsic activity of GPR101 strongly stimulates cAMP production and this in turn facilitates voltage-gated calcium influx. Changes in cAMP/calcium signaling are accompanied with faster/slower cell division depending on the cell type. Accordingly, several genes associated with these and related pathways are differentially expressed. The establishment of these cell lines will be of paramount importance to validate putative GPR101 ligands and to conduct functional studies.