gebhart/patrepeval huggingface dataset:
Pathogenic, Therapeutic, or Diagnostic? (1999)

Nitrogen monoxide, more commonly called nitric oxide or simply NO, is a fascinating free radical molecule, which participates in a broad range of important physiologic processes, including vasodilation, neurotransmission, and host defense. NO is generated from L -arginine by the enzyme nitric oxide synthase (NOS), of which there are three known isoforms. Types I and III NOS, found predominantly in neurons and endothelium, respectively, are constitutively expressed and are dependent upon calcium for activity. The third isoform, NOS II, can be expressed by a wide range of cells primarily after it has been induced by certain cytokines, microbes, or microbial products (1, 2). All three isoforms are dimeric, with each subunit containing iron protoporpyrin IX, tetrahydrobiopterin, flavin adenine dinucleotide, flavin mononucleotide, and binding sites for L -arginine, calmodulin, and nicotinamide adenine dinucleotide phosphate (NADPH). In situ hybridization and immunohistochemical techniques have localized NOS in one isoform or another to a variety of cells in the human lung, including epithelium, endothelium, neurons, eosinophils, neutrophils, macrophages, and smooth-muscle cells (3). The role of NO in the pathogenesis of asthma is currently under intense debate. Initial interest stems from observations in the early 1990s that subjects with asthma had elevated expression of NOS II immunoreactive protein in airway cells (4) and significantly higher levels of NO gas in exhaled air, compared with normal subjects (3, 5). Since then, numerous studies have confirmed these findings and have demonstrated that in allergic asthmatics challenged with allergen, the levels of NO in exhaled air can be increased beyond the already elevated basal levels. Technical concerns were initially raised regarding the origin of the NO in exhaled breath because of the possible contribution of NO from the NO-rich nasal passages. Several approaches, including the use of bronchoscopy to sample lower airway gas directly and techniques to exclude nasal NO, such as exhaling against positive pressure to close the velum, have determined that the increased NO measured in exhaled air from asthmatics is derived from the lower airways (6). Additional studies have shown that NO in exhaled air can be lowered by steroid therapy and inhibitors of NOS. But what does this mean for disease pathogenesis and the development of new therapeutics for asthma? In analyzing these concepts and the role of NO in asthma, it is important to understand that the physiologic consequences of NO produced in the airways will be critically dependent upon the timing, amount, and sites of synthesis (or drug delivery) of this reactive molecule, as well as on
Collagen VI promotes recovery from colitis by inducing lymphangiogenesis and drainage of inflammatory cells (2023)

Despite a number of studies providing evidence that the extracellular matrix (ECM) is an active player in the pathogenesis of intestinal inflammation, knowledge on the actual contribution of specific ECM molecules in the progression of inflammatory bowel disease (IBD) remains scant. Here, we investigated the role of a major ECM protein, collagen VI (ColVI), in gut homeostasis and elucidated the impact of its deregulation on the pathophysiology of IBD. To this end, we combined in vivo and ex vivo studies on wild type and ColVI-deficient (Col6a1<sup>-/-</sup> ) mice both under physiological conditions and during experimentally induced acute colitis and its subsequent recovery, by means of gut histology and immunostaining, gene expression, bone marrow transplantation, flow cytometry of immune cell subpopulations, and lymph flow assessment. We found that ColVI displayed dynamic expression and ECM deposition during the acute inflammatory and recovery phases of experimentally induced colitis, whereas the genetic ablation of ColVI in Col6a1 null mice impaired the functionality of lymphatic vessels, which in turn affected the resolution of inflammation during colitis. Based on these findings, we investigated ColVI expression and deposition in ileal specimens from two cohorts of patients affected by Crohn's disease (CD) and correlated ColVI abundance to clinical outcome. Our results show that high ColVI immunoreactivity in ileal biopsies of CD patients at diagnosis correlates with increased risk of surgery and that ColVI expression in biopsies taken at the resection margin during surgery, and showing inactive disease, predict disease recurrence. Our data unveil a key role for ColVI in the intestinal microenvironment, where it is involved in lymphangiogenesis and intestinal inflammation. Altogether, these findings point at the dysregulation of ColVI expression as a novel factor contributing to the onset and maintenance of inflammation in CD via mechanisms impinging on the modulation of inflammatory cell recruitment and function. © 2023 The Authors. The Journal of Pathology published by John Wiley & Sons Ltd on behalf of The Pathological Society of Great Britain and Ireland.
Phosphorylation regulates human OCT4 (2012)

The transcription factor OCT4 is fundamental to maintaining pluripotency and self-renewal. To better understand protein-level regulation of OCT4, we applied liquid chromatography-MS to identify 14 localized sites of phosphorylation, 11 of which were previously unknown. Functional analysis of two sites, T234 and S235, suggested that phosphorylation within the homeobox region of OCT4 negatively regulates its activity by interrupting sequence-specific DNA binding. Mutating T234 and S235 to mimic constitutive phosphorylation at these sites reduces transcriptional activation from an OCT4-responsive reporter and decreases reprogramming efficiency. We also cataloged 144 unique phosphopeptides on known OCT4 interacting partners, including SOX2 and SALL4, that copurified during immunoprecipitation. These proteins were enriched for phosphorylation at motifs associated with ERK signaling. Likewise, OCT4 harbored several putative ERK phosphorylation sites. Kinase assays confirmed that ERK2 phosphorylated these sites in vitro, providing a direct link between ERK signaling and the transcriptional machinery that governs pluripotency.
Robust performance (2008)

With the addition of MIMO to IEEE 802.11, many new WLAN devices will have multiple antennas. Though an important benefit of multiple antennas is increased data rate with multiple spatial streams, multiple antennas may be also used to significantly improve the robustness of the system. Multiple antennas enable optional features such as receive diversity, spatial expansion, transmit beamforming, and space-time block coding (STBC). The topic of transmit beamforming is addressed in Chapter 12.
cis-Clerodane Type Diterpenes from Cistus monspeliensis (2003)

The aerial parts of Cistus monspeliensis yielded 11 cis-clerodane type diterpenes. Five of these, 3, 4, 8,9, and 10, are new compounds. Their structures have been elucidated on the basis of their spectral data (FABMS, 1D and 2D NMR).
A least squares based phase unwrapping algorithm for MRI (2005)

The authors have developed a technique based on a solution of the Poisson equation to unwrap the phase in magnetic resonance (MR) phase images. The method is based on the assumption that the magnitude of the inter-pixel phase change is less than /spl pi/ per pixel. Therefore, the authors obtain an estimate of the phase gradient by "wrapping" the gradient of the original phase image. The problem is then to obtain the absolute phase given the estimate of the phase gradient. The least-squares (LS) solution to this problem is shown to be a solution of the Poisson equation allowing the use of fast Poisson solvers. The absolute phase is then obtained by mapping the LS phase to the nearest multiple of 2/spl pi/ from the measured phase. The proposed technique is evaluated using MR phase images and is proven to be robust in the presence of noise. An application of the proposed method to the three-point Dixon technique for water and fat separation is demonstrated.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Outdoor DL MU-MIMO and Inter Access Point Coordination Performance of Low-SHF-Band C-RAN Massive MIMO System for 5G (2018)

This paper describes our activities related to massive multi input and multi output (MIMO) for use in 5G radio access network (RAN). To achieve capacity enhancement and low power consumption, Massive MIMO has drawn attention as a key technology. Our research focuses on utilizing Massive MIMO in the low super-high-frequency (SHF) band, which is expected to be used for 5G commercial bands relatively soon, and on enhancing spectrum efficiency by spatial multiplexing with a low-SHF-band Massive MIMO antenna. The present work introduces a prototype low-SHF-band Centralized-RAN (C-RAN) Massive MIMO System including a low-SHF-band Massive MIMO active antenna system (AAS) that has 64 antenna elements, reports on outdoor downlink (DL) multi-user (MU) MIMO and inter access point (AP) coordination evaluations with the prototype system, and presents the results of the evaluations. The results demonstrate that the prototype low-SHF-band C-RAN Massive MIMO system can increase RAN system capacity and improve cell edge performance.
Production of leukotrienes from mouse peritoneal macrophages by treatment with a neutral subfraction of bakers' yeast mannan. (1988)

We concluded that a neutral subfraction of mannan from bakers' yeast (Saccharomyces cerevisiae wild type strain), abbreviated as WNM, was able to induce the release of leukotrienes from mouse peritoneal macrophages (M phi). The culture supernatant fluid of M phi from normal mice cultured with WNM caused a marked contraction of guinea pig ileum. This activity was inhibited by pretreatment of M phi with inhibitor of phospholipase A2 or lipoxygenase before M phi were treated with WNM, and by treatment of the incubation bath with a slow reacting substance antagonist, FPL55712. On the other hand, pretreatment of M phi with a cyclooxygenase inhibitor potentiated contractile response of ileum by culture supernatant fluid of M phi. A high performance liquid chromatographic analysis of a culture supernatant fluid of M phi treated with WNM demonstrated the presence of leukotrienes C4 and D4, and their related compounds.
Optical spectroscopy of transient cavitation at high pressure (2007)

The UV-VIS spectrum of light emitted from transient cavitation events in a high-pressure acoustic resonator is measured to determine the contents and state of matter in the plasma hot spot at the collapse. Spectra are measured for spontaneous cavitation events in water and other liquids at static pressure up to 300 bar, both degassed and with various gases dissolved in the liquid. Spectra are captured with a grating monochromator using a gated detector, or multiple detectors with bandpass filters, to partially resolve the temporal structure of the emission event. These data are used to estimate the temperature and duration of the implosion. [Work supported by SMDC Contract No. W9113M-07-C-0178.]
Alanine Scan of [l-Dap2]Ramoplanin A2 Aglycon:  Assessment of the Importance of Each Residue (2007)

In efforts that define the importance of each residue and that identify key regions of the molecule, an alanine scan of the ramoplanin A2 aglycon, a potent antibiotic that inhibits bacterial cell wall biosynthesis, is detailed. As a consequence of both its increased stability (lactam vs lactone) and its "relative" ease of synthesis, the alanine scan was conducted on [Dap2]ramoplanin A2 aglycon, which possesses antimicrobial activity equal to or slightly more potent than that of ramoplanin A2 or its aglycon. Thus, 14 key analogues of the ramoplanin A2 aglycon, representing a scan of residues 3-13, 15, and 17, were prepared enlisting a convergent solution-phase total synthesis that consolidated the effort to a manageable level. The antimicrobial activity of the resulting library of analogues provides insight into the importance and potential role of each residue of this complex glycopeptide antibiotic.
Mechanistic Investigation of Intramolecular Aminoalkene and Aminoalkyne Hydroamination/Cyclization Catalyzed by Highly Electrophilic, Tetravalent Constrained Geometry 4d and 5f Complexes. Evidence for an M−N σ-Bonded Insertive Pathway (2007)

A mechanistic study of intramolecular hydroamination/cyclization catalyzed by tetravalent organoactinide and organozirconium complexes is presented. A series of selectively substituted constrained geometry complexes, (CGC)M(NR2)Cl (CGC = [Me2Si(eta5-Me4C5)(tBuN)]2-; M = Th, 1-Cl; U, 2-Cl; R = SiMe3; M = Zr, R = Me, 3-Cl) and (CGC)An(NMe2)OAr (An = Th, 1-OAr; An = U, 2-OAr), has been prepared via in situ protodeamination (complexes 1-2) or salt metathesis (3-Cl) in high purity and excellent yield and is found to be active precatalysts for intramolecular primary and secondary aminoalkyne and aminoalkene hydroamination/cyclization. Substrate reactivity trends, rate laws, and activation parameters for cyclizations mediated by these complexes are virtually identical to those of more conventional (CGC)MR2 (M = Th, R = NMe2, 1; M = U, R = NMe2, 2; M = Zr, R = Me, 3), (Me2SiCp' '2)UBn2 (Cp' ' = eta5-Me4C5; Bn = CH2Ph, 4), Cp'2AnR2 (Cp' = eta5-Me5C5; R = CH2SiMe3; An = Th, 5, U, 6), and analogous organolanthanide complexes. Deuterium KIEs measured at 25 degrees C in C6D6 for aminoalkene D2NCH2C(CH3)2CH2CHCH2 (11-d2) with precatalysts 2 and 2-Cl indicate that kH/kD = 3.3(5) and 2.6(4), respectively. Together, the data provide strong evidence in these systems for turnover-limiting C-C insertion into an M-N(H)R sigma-bond in the transition state. Related complexes (Me2SiCp' '2)U(Bn)(Cl) (4-Cl) and Cp'2An(R)(Cl) (R = CH2(SiMe3); An = Th, 5-Cl; An = U, 6-Cl) are also found to be effective precatalysts for this transformation. Additional arguments supporting M-N(H)R intermediates vs M=NR intermediates are presented.
Tailoring the mechanical properties of 3D‐designed poly(glycerol sebacate) scaffolds for cartilage applications (2010)

Matching tissue engineering scaffold modulus to that of native tissue is highly desirable. Effective scaffold modulus can be altered through changes in base material modulus and/or scaffold pore architecture. Because the latter may be restricted by tissue in-growth requirements, it is advantageous to be able to alter the base material modulus of a chosen scaffold material. Here, we show that the bulk modulus of poly(glycerol sebacate) (PGS) can be changed by varying molar ratios during prepolymer synthesis and by varying curing time. We go on to show that PGS can be used to create 3D designed scaffolds via solid freeform fabrication methods with modulus values that fall within the ranges of native articular cartilage equilibrium modulus. Furthermore, using base material modulus inputs, homogenization finite element analysis can effectively predict the tangent modulus of PGS scaffold designs, which provides a significant advantage for designing new cartilage regeneration scaffolds. Lastly, we demonstrate that this relatively new biomedical material supports cartilaginous matrix production by chondrocytes in vitro. (c) 2010 Wiley Periodicals, Inc. J Biomed Mater Res, 2010.
Modular VCSEL solution for uniform line illumination in the kW range (2012)

High power VCSEL arrays can be used as a versatile illumination and heating source. They are widely scalable in power and offer a robust and economic solution for many new applications with moderate brightness requirements. The use of VCSEL arrays for high power laser diode applications enables multiple benefits: Full wafer level production of VCSELs including the combination with micro-optics; assembly technologies allowing large synergy with LED assembly thus profiting from the rapid development in solid state lighting; an outstanding reliability and a modular approach on all levels. A high power VCSEL array module for a very uniform line illumination is described in detail which offers &gt;150W/cm optical output and enables less than 1% non-uniformities per mm along the line. The applied optical principle of near field imaging and massively superposing many thousand VCSELs by arrays of micro-lenses gives perfect control over the intensity distribution and is inherently robust. A specific array of parallelogram shaped VCSELs has been developed in combination with an appropriate micro-lens design and an alignment strategy. The concept uses parallel and serial connection of VCSEL arrays on sub-mounts on water coolers in order to realize a good combination of moderate operating currents and reliability. Lines of any desired length can be built from modules of 1cm length because this optical concept allows large mounting tolerances between individual modules. Therefore the concept is scalable for a wide range of applications. A demonstrator system with an optical output of 3.5kW and a line length of 20cm has been realized.
In situ gelation of PEG-PLGA-PEG triblock copolymer aqueous solutions and degradation thereof (2000)

Aqueous solutions of poly(ethylene glycol-b-[DL-lactic acid-co-glycolic acid]-b-ethylene glycol) (PEG-PLGA-PEG) triblock copolymers form a free-flowing sol at room temperature and become a gel at body temperature. In this study, in situ gel formation was investigated in rats. Upon subcutaneous injection of 33 wt % aqueous solutions of PEG-PLGA-PEG triblock copolymer into rats, transparent gels were observed. The gel showed good mechanical strength and the integrity of gels persisted longer than 1 month. The gel underwent degradation by hydrolysis and turned opaque. Degradation study showed preferential mass loss of PEG-rich segment from the in situ formed gel. Number average molecular weight determined by gel permeation chromatography decreased from 3300 to 1900 and 30% mass loss was observed over 1 month.
CATCHING EVERY DROP: REACHING BEYOND TRADITIONAL SSO RESPONSE (2005)

CATCHING EVERY DROP: REACHING BEYOND TRADITIONAL SSO RESPONSEOrange County, California boasts more than 112 miles of coastal and bay beaches and 33,000 acres of parkland and open space for recreational use. Many of these areas benefit from direct ties or proximity to a water resource such as a creek, bay, harbor, or beach. These resources are valued for a variety of reasons, and represent a major source of tourism dollars in coastal towns. In recent years,...Author(s)Nick ArhontesChris CromptonS. Colin ChungSteve EsmondSourceProceedings of the Water Environment FederationSubjectSession 36: Collection Systems: CMOM - The Right Way to do ItDocument typeConference PaperPublisherWater Environment FederationPrint publication date Jan, 2005ISSN1938-6478SICI1938-6478(20050101)2005:13L.2959;1-DOI10.2175/193864705783865460Volume / Issue2005 / 13Content sourceWEFTECFirst / last page(s)2959 - 2989Copyright2005Word count644
Linear Optimal Partial Transport Embedding (2023)

Optimal transport (OT) has gained popularity due to its various applications in fields such as machine learning, statistics, and signal processing. However, the balanced mass requirement limits its performance in practical problems. To address these limitations, variants of the OT problem, including unbalanced OT, Optimal partial transport (OPT), and Hellinger Kantorovich (HK), have been proposed. In this paper, we propose the Linear optimal partial transport (LOPT) embedding, which extends the (local) linearization technique on OT and HK to the OPT problem. The proposed embedding allows for faster computation of OPT distance between pairs of positive measures. Besides our theoretical contributions, we demonstrate the LOPT embedding technique in point-cloud interpolation and PCA analysis.
Organic crystals: More than simple additives toward better electroceramic materials (2010)

Roles of various organic crystals (OC), notably those containing nitrogen, on the preparation and properties of source materials for electroceramics are featured from the author's own experimental studies. When OC are intimately mixed with metal salts like carbonates, their decomposition is accelerated, liberating the diffusing species at temperatures lower than usual. Mixing of OC with metal oxides under mechanical stressing results in anion exchange and eases diffusion of guest species. Case studies on 3 categories, i.e. i) substitution of oxygen in titania with nitrogen and introduction of oxygen vacancies during co-grinding titania with urea, glycine and/or polytetra fluoroethylene; ii) increase in the rate of reaction of barium titanate formation via a solid state route by OCs with detailed process analysis with glycine as an example of OC, and iii) phase pure solid state synthesis of Li4Ti5O12 by mechanically activating the intermediate, Li2TiO3 with 3 amino acids as OCs.
Low-complexity energy-efficient broadcasting in wireless ad-hoc networks using network coding (2005)

Abstract — Energy efficiency, i.e., the amount of battery energy consumed to transmit bits across a wireless link, is a critical design parameter for wireless ad-hoc networks. We examine the problem of broadcasting information to all nodes in an ad-hoc network, when a large percentage of the nodes act as sources. We theoretically quantify the energy savings that network coding can offer for the cases of two regular topologies. We then propose low-complexity distributed algorithms, and demonstrate through simulation that for random networks, network coding can in fact offer significant benefits in terms of energy consumption. I.
Testosterone Replacement with 1% Testosterone Gel and Priapism: No Definite Risk Relationship (2013)

Safety data from the clinical trials for AndroGel 1% did not report any cases of priapism, and its incidence in the postmarketing pharmacovigilance data is extremely low, indicating a minimal risk of inducing priapism.
Functional Annotation of Human Long Non-Coding RNAs via Molecular Phenotyping (2019)

Abstract Long non-coding RNAs (lncRNAs) constitute the majority of transcripts in the mammalian genomes and yet, their functions remain largely unknown. We systematically knockdown 285 lncRNAs expression in human dermal fibroblasts and quantified cellular growth, morphological changes, and transcriptomic responses using Capped Analysis of Gene Expression (CAGE). Antisense oligonucleotides targeting the same lncRNA exhibited global concordance, and the molecular phenotype, measured by CAGE, recapitulated the observed cellular phenotypes while providing additional insights on the affected genes and pathways. Here, we disseminate the largest to-date lncRNA knockdown dataset with molecular phenotyping (over 1,000 CAGE deep-sequencing libraries) for further exploration and highlight functional roles for ZNF213-AS1 and lnc-KHDC3L-2.