gebhart/patrepeval huggingface dataset:
Assessment on the Achievable Throughput of Multi-Band ITU-T G.652.D Fiber Transmission Systems (2020)

Fiber-optic multi-band transmission (MBT) aims at exploiting the low-loss spectral windows of single-mode fibers (SMFs) for data transport, expanding by ~11× the available bandwidth of C-band line systems and by ~5× C+L-band line systems'. MBT offers a high potential for cost-efficient throughput upgrades of optical networks, even in absence of available dark-fibers, as it utilizes more efficiently the existing infrastructures. This represents the main advantage compared to approaches such as multi-mode/-core fibers or spatial division multiplexing. Furthermore, the industrial trend is clear: the first commercial C+L-band systems are entering the market and research has moved toward the neighboring S-band. This article discusses the potential and challenges of MBT covering the ITU-T optical bands O → L. MBT performance is assessed by addressing the generalized SNR (GSNR) including both the linear and non-linear fiber propagation effects. Non-linear fiber propagation is taken into account by computing the generated non-linear interference by using the generalized Gaussian-noise (GGN) model, which takes into account the interaction of non-linear fiber propagation with stimulated Raman scattering (SRS), and in general considers wavelength-dependent fiber parameters. For linear effects, we hypothesize typical components' figures and discussion on components' limitations, such as transceivers,' amplifiers' and filters' are not part of this work. We focus on assessing the transmission throughput that is realistic to achieve by using feasible multi-band components without specific optimizations and implementation discussion. So, results are meant to address the potential throughput scaling by turning-on excess fiber transmission bands. As transmission fiber, we focus exclusively on the ITU-T G.652.D, since it is the most widely deployed fiber type worldwide and the mostly suitable to multi-band transmission, thanks to its ultra-wide low-loss single-mode high-dispersion spectral region. Similar analyses could be carried out for other single-mode fiber types. We estimate a total single-fiber throughput of 450 Tb/s over a distance of 50 km and 220 Tb/s over regional distances of 600 km: ~10× and 8× more than C-band transmission respectively and ~2.5× more than full C+L.
Improved hypothermic short-term storage of isolated mouse islets by adding serum to preservation solutions (2013)

Preserving isolated islets at low temperature appears attractive because it can keep islet quantity comparable to freshly isolated islets. In this study, we evaluated the effect of serum as an additive to preservation solutions on islet quality after short-term hypothermic storage. Isolated mouse islets were preserved at 4°C in University of Wisconsin solution (UW) alone, UW with serum, M-Kyoto solution (MK) alone or MK with serum. We then assessed islet quantity, morphology, viability and function in vitro as well as in vivo. Islet quantity after storage in all four solutions was well maintained for up to 120 h. However, islets functioned for different duration; glucose-stimulated insulin release assay revealed that the duration was 72 h when islets were stored in UW with serum and MK with serum, but only 24 h in UW alone, and the islet function disappeared immediately in MK alone. Viability assay confirmed that more than 70% islet cells survived for up to 48 h when islets are preserved in UW with serum and MK with serum, but the viability decreased rapidly in UW alone and MK alone. In in vivo bioassays using 48-h preserved isogeneic islets, all recipient mice restored normal blood glucose concentrations by transplants preserved in UW with serum or MK with serum, whereas 33.3% recipients and no recipient restored diabetes by transplants preserved in UW alone and in MK alone respectively. Adding serum to both UW and MK improves their capability to store isolated islets by maintaining islet functional viability.
CCDC 285322: Experimental Crystal Structure Determination (2006)

An entry from the Cambridge Structural Database, the world’s repository for small molecule crystal structures. The entry contains experimental data from a crystal diffraction study. The deposited dataset for this entry is freely available from the CCDC and typically includes 3D coordinates, cell parameters, space group, experimental conditions and quality measures.
A class of cooperative communication protocols for multi-node wireless networks (2005)

In this paper, a class of cooperative communication protocols with arbitrary N-relay nodes is proposed for wireless networks, in which each relay coherently combines the signals received from the source and m (1/spl les/m/spl les/N-1) previous relays. Exact symbol-error-rate (SER) expressions for an arbitrary N-node network employing MPSK or QAM modulation are derived. Also an approximate expression for the SER, that is tight at high SNR, is provided. Furthermore, an optimal power allocation problem based on minimizing the asymptotically tight SER expression is formulated. Closed form solutions for the optimal power allocation problem are provided for some network topologies.
Human monoclonal antibodies and analytic vaccinology (2008)

Following appropriate priming by infection or vaccination memory B cells and serum antibody levels are sustained for a lifetime conferring immediate protection upon secondary encounter with the pathogen. I will first discuss the differential requirements for activation of human naive and memory B cells and propose a homeostatic model for the maintenance of the memory B cell pool and of serum antibody levels. I will then describe two methods that can be used to interrogate the human memory B-cell repertoire. The first is based on limiting dilution analysis of polyclonally stimulated mononuclear cells. Using this method we measured the frequency and fine specificity of memory B cells in serial samples under steady state conditions and after vaccination. In particular we found that only a small fraction of virus-specific memory B cells produce neutralizing antibodies, while the majority recognizes internal or denatured antigens. The second method is based on the efficient immortalization and cloning of memory B cells. Using this method we have been able to isolate from the human memory repertoire several potent and broadly neutralizing monoclonal antibodies against viruses such as SARS, Dengue, H5N1, HCMV and HIV-1. I will discuss how such antibodies can be used not only to provide immediate protection, but also as probes for epitope discovery and vaccine design. This abstract was published in Cancer Immunity, a Cancer Research Institute journal that ceased publication in 2013 and is now provided online in association with Cancer Immunology Research.
Classifying Computer Generated Charts (2007)

We present an approach for classifying images of charts based on the shape and spatial relationships of their primitives. Five categories are considered: bar-charts, curve-plots, pie-charts, scatter-plots and surface-plots. We introduce two novel features to represent the structural information based on (a) region segmentation and (b) curve saliency. The local shape is characterized using the Histograms of Oriented Gradients (HOG) and the Scale Invariant Feature Transform (SIFT) descriptors. Each image is represented by sets of feature vectors of each modality. The similarity between two images is measured by the overlap in the distribution of the features -measured using the Pyramid Match algorithm. A test image is classified based on its similarity with training images from the categories. The approach is tested with a database of images collected from the Internet.
PRDM1 Is Required for Mantle Cell Lymphoma Response to Bortezomib (2010)

Mantle cell lymphoma (MCL) is an aggressive form of B-cell lymphoma with a poor disease-free survival rate. The proteasome inhibitor bortezomib is approved for the treatment of relapsed and refractory MCL and has efficacy in about 30% of patients. However, the precise mechanism of action of bortezomib is not well understood. This report establishes a requirement for the transcription repressor PR domain zinc finger protein 1 (PRDM1, Blimp1) in the response to bortezomib. Bortezomib rapidly induces transcription of PRDM1 as part of the apoptotic response in both cell lines and primary MCL tumor cells. Knockdown of PRDM1 blocks activation of NOXA and inhibits apoptosis, whereas ectopic expression of PRDM1 alone leads to apoptosis in MCL. Two novel direct targets of PRDM1 were identified in MCL cells: MKI67 (Ki67) and proliferating cell nuclear antigen (PCNA). Both MKI67 and PCNA are required for proliferation and survival. Chromatin immunoprecipitation and knockdown studies reveal that specific repression of MKI67 and PCNA is mediated by PRDM1 in response to bortezomib. Furthermore, promoter studies and mutation/deletion analysis show that PRDM1 functions through specific sites in the PCNA proximal promoter and an MKI67 distal upstream repression domain. Together, these findings establish PRDM1 as a key mediator of bortezomib activity in MCL.
Elementary Steps and Mechanisms: Sections 5.3 – 5.5 (1997)

SCOPUS: ch.b
ChemInform Abstract: Cation Exchange Properties of LiTi2(PO4)3 and Synthesis of Its Microporous Materials via Glass. (1993)

Abstract ChemInform is a weekly Abstracting Service, delivering concise information at a glance that was extracted from about 100 leading journals. To access a ChemInform Abstract of an article which was published elsewhere, please select a “Full Text” option. The original article is trackable via the “References” option.
Mutation of conserved aspartates affects maturation of both aspartate mutant and endogenous presenilin 1 and presenilin 2 complexes. (2000)

Presenilin (PS1 and PS2) holoproteins are transiently incorporated into low molecular weight (MW) complexes. During subsequent incorporation into a higher MW complex, they undergo endoproteolysis to generate stable N- and C-terminal fragments. Mutation of either of two conserved aspartate residues in transmembrane domains inhibits both presenilin-endoproteolysis and the proteolytic processing of beta-amyloid precursor protein and Notch. We show that although PS1/PS2 endoproteolysis is not required for inclusion into the higher MW N- and C-terminal fragment-containing complex, aspartate mutant holoprotein presenilins are not incorporated into the high MW complexes. Aspartate mutant presenilin holoproteins also preclude entry of endogenous wild type PS1/PS2 into the high MW complexes but do not affect the incorporation of wild type holoproteins into lower MW holoprotein complexes. These data suggest that the loss of function effects of the aspartate mutants result in altered PS complex maturation and argue that the functional presenilin moieties are contained in the high molecular weight complexes.
Molecular Bases of Three Characteristic Phenotypes of Pneumococcus: Optochin-Sensitivity, Coumarin-Sensitivity, and Quinolone-Resistance (1997)

Streptococcus pneumoniae is uniquely sensitive to amino alcohol antimalarials in the erythro configuration, such as optochin, quinine, and quinidine. The protein responsible for the optochin (quinine)-sensitive (Opts, Qins) phenotype of pneumococcus is the proteolipid c subunit of the FzeroF1 H(+)-ATPase. OptR/QinR isolates arose by point mutations in the atpC gene and produce different amino acid changes in one of the two transmembrane alpha-helices of the c subunit. In addition, comparison of the sequence of the atpCAB genes of S. pneumoniae R6 (Opts) and M222 (an OptR strain produced by interspecies recombination between pneumococcus and S. oralis), and S. oralis (OptR) revealed that, in M222, an interchange of atpC and atpA had occurred. We also demonstrate that optochin, quinine, and related compounds specifically inhibited the membrane-bound ATPase activity. Equivalent differences between Opts/Qins and OptR/QinR strains, both in growth inhibition and in membrane ATPase resistance, were found. Pneumococci also show a characteristic sensitivity to coumarin drugs, and a relatively high level of resistance to most quinolones. We have cloned and sequenced the gyrB gene, and characterized novobiocin resistant mutants. The same amino acid substitution (Ser-127 to Leu) confers novobiocin resistance on four isolates. This residue position is equivalent to Val-120 of Escherichia coli ryGB, a residue that lies inside the ATP-binding domain but is not involved in novobiocin binding in E. coli, as revealed by crystallographic data. In addition, the genes encoding the ParC and ParE subunits of topoisomerase IV, together with the region encoding amino acids 46 to 172 (residue numbers as in E. coli) of the pneumococcal ryGA subunit, were characterized in respect to fluoroquinolone resistance. The gyrA gene maps to a physical location distant from the gyrB and parEC loci on the chromosome. Ciprofloxacin-resistant (CpR) clinical isolates had mutations affecting amino acid residues of the quinolone resistance-determining region of ParC (low-level CpR), or in both resistance-determining regions of ParC and GyrA (high-level CpR). Mutations were found in residue positions equivalent to Ser-83 and Asp-87 of the E. coli GyrA subunit. Transformation experiments demonstrated that topoisomerase IV is the primary target of ciprofloxacin, DNA gyrase being a secondary one.
Design and Implementation of a Five-Port LLC Converter for PV Applications (2023)

A five-port LLC converter for photovoltaic (PV) application is proposed in this paper. In this topology, a single LLC resonant tank is utilized to transfer the energy from four PV panels to the output. The PWM generation of all these switches depends on switching frequency and three phase shifts. Maximum power point tracking (MPPT) for all PV panels is achieved by adopting Perturb and Observe (P&O) based control method. A 500W prototype has been built and tested to verify the operation of the converter. The experimental results verify that the converter can achieve MPPT for each PV panel. The achieved peak efficiency of the converter is 94.3% when all four PV panels track their maximum power point (MPP) individually.
Two-Dimensional Nanoparticle Arrays Derived from Ferritin Monolayers (2007)

A scalable technique for making silica coatings with embedded two-dimensional arrays of iron oxide nanoparticles is presented. The iron oxide nanoparticle arrays were formed by depositing quasi-crystalline ferritin layers, an iron storage protein with an iron oxide mineral core, on solid substrates by a spread-coating technique based on evaporation-induced convective assembly. The layer of protein molecular arrays was then encapsulated in a silica matrix film deposited from a sol precursor. The organic protein shell of the ferritin molecules was then removed by controlled pyrolysis, leaving ordered iron oxide cores bound in the silica matrix. This article is the first report on combining convective self-assembly of proteins with sol−gel techniques of oxide film formation. The technique is technologically feasible and scalable to make coatings of encapsulated ordered magnetic clusters tens of cm2 or larger in size.
A learning based hierarchical model for vessel segmentation (2008)

In this paper we present a learning based method for vessel segmentation in angiographic videos. Vessel segmentation is an important task in medical imaging and has been investigated extensively in the past. Traditional approaches often require pre-processing steps, standard conditions or manually set seed points. Our method is automatic, fast and robust towards noise often seen in low radiation X-ray images. Furthermore, it can be easily trained and used for any kind of tubular structure. We formulate the segmentation task as a hierarchical learning problem over 3 levels: border points, cross-segments and vessel pieces, corresponding to the vessel's position, width and length. Following the marginal space learning paradigm the detection on each level is performed by a learned classifier. We use probabilistic boosting trees with Haar and steerable features. First results of segmenting the vessel which surrounds a guide wire in 200 frames are presented and future additions are discussed.
Asymmetric Optical Connections for Improved Network Efficiency: Erratum (2013)

Get PDF Email Share Share with Facebook Tweet This Post on reddit Share with LinkedIn Add to CiteULike Add to Mendeley Add to BibSonomy Get Citation Copy Citation Text Sheryl L. Woodward, Weiyi Zhang, Balagangadhar G. Bathula, Gagan Choudhury, Rakesh K. Sinha, Mark D. Feuer, John Strand, and Angela L. Chiu, "Asymmetric Optical Connections for Improved Network Efficiency: Erratum," J. Opt. Commun. Netw. 5, 1468-1468 (2013) Export Citation BibTex Endnote (RIS) HTML Plain Text Citation alert Save article
Customer-oriented GMPLS service management and resilience differentiation (2004)

Generalized Multi-Protocol Label Switching (GMPLS) is currently under standardization at the Internet Engineering Task Force (IETF). It basically reuses the MPLS control plane (IP routing and signaling) for various technologies such as fiber switching, DWDM, SONET, and packet MPLS. In this article, we propose a management architecture, which allows a service provider to offer customers various services based on a GMPLS infrastructure. The business model behind the architecture is comparable to the online flight ticket sales systems known.
Label-free Quantitative Analysis of One-dimensional PAGE LC/MS/MS Proteome (2008)

A widely used method for protein identification couples prefractionation of protein samples by one-dimensional (1D) PAGE with LC/MS/MS. We developed a new label-free quantitative algorithm by combining measurements of spectral counting, ion intensity, and peak area on 1D PAGE-based proteomics. This algorithm has several improvements over other label-free quantitative algorithms: (i) Errors in peak detection are reduced because the retention time is based on each LC/MS/MS run and actual precursor m/z. (ii) Detection sensitivity is increased because protein quantification is based on the combination of peptide count, ion intensity, and peak area. (iii) Peak intensity and peak area are calculated in each LC/MS/MS run for all slices from 1D PAGE for every single identified protein and visualized as a Western blot image. The sensitivity and accuracy of this algorithm were demonstrated by using standard curves (17.4 fmol to 8.7 pmol), complex protein mixtures (30 fmol to 1.16 pmol) of known composition, and spiked protein (34.8 fmol to 17.4 pmol) in complex proteins. We studied the feasibility of this approach using the secretome of angiotensin II (Ang II)-stimulated vascular smooth muscle cells (VSMCs). From the VSMC-conditioned medium, 629 proteins were identified including 212 putative secreted proteins. 26 proteins were differently expressed in control and Ang II-stimulated VSMCs, including 18 proteins not previously reported. Proteins related to cell growth (CYR61, protein NOV, and clusterin) were increased, whereas growth arrest-specific 6 (GAS6) and growth/differentiation factor 6 were decreased by Ang II stimulation. Ang II-stimulated changes of plasminogen activator inhibitor-1, GAS6, cathepsin B, and periostin were validated by Western blot. In conclusion, a novel label-free quantitative analysis of 1D PAGE-LC/MS/MS-based proteomics has been successfully applied to the identification of new potential mediators of Ang II action and may provide an alternative to traditional protein staining methods.
Body temperature as a mouse pharmacodynamic response to bombesin receptor subtype-3 agonists and other potential obesity treatments (2010)

Treatment of rodents with a bombesin receptor subtype-3 (BRS-3) agonist reduces food intake and increases fasting metabolic rate, causing weight loss with continued treatment. In small mammals, core body temperature (T(b)) is regulated in part by nutritional status, with a reduced T(b) during fasting. We report that fed Brs3 knockout mice have a lower T(b), which is discordant with their nutritional status. Treatment of wild-type mice with a BRS-3 agonist increased T(b), more so when the baseline T(b) was reduced such as by fasting or during the inactive phase of the light cycle. With repeated BRS-3 agonist dosing, the T(b) increase attenuated despite continued weight loss efficacy. The increase in T(b) was not prevented by inhibitors of prostaglandin E (PGE) production but was partially reduced by a β-adrenergic blocker. These results demonstrate that BRS-3 has a role in body temperature regulation, presumably secondary to its effect on energy metabolism, including effects on sympathetic tone. By making use of this phenomenon, the reversal of the fasting T(b) reduction was developed into a sensitive single-dose pharmacodynamic assay for BRS-3 agonism and other antiobesity compounds acting by various mechanisms, including sibutramine, cannabinoid-1, and melanin-concentrating hormone-1 receptor blockers, and melanocortin, β₃-adrenergic, and cholecystokinin-1 receptor agonists. These drugs increased both the fasted T(b) and the fasted, resting metabolic rates. The T(b) assay is a robust, information-rich assay that is simpler and has a greater throughput than measuring metabolic rate and is a practical, effective tool for drug discovery.
Influence of oxide thickness on an integrated electrothermal filter (2008)

An electrothermal filter (ETF) is an AC driven device consisting of a heater and thermopile implemented in the same substrate. A crucial characteristic is the frequency f_90 where the phase shift between the heater drive signal and the thermopile`s response is 90°.Theoretically, for a given layout, f_90 solely depends on the thermal parameters of the substrate. These are essentially process independent and have a very well defined temperature dependence (especially for silicon). By consequence the ETF is very suitable for use in a temperature to frequency convertor. This provides an attractive way to build a highly reproducible integrated temperature sensor, whose accuracy will only be limited by lithography.Earlier, an integrated ETF was modelled, fabricated and characterised. We noticed the predicted (130kHz) and measured (100kHz) values for f_90 were quite different. In this paper we will demonstrate the deviation can be mainly attributed to the presence of a thin (typically 3-4 microns in the process used) layer of silicon oxide on the substrate. The analysis is carried out by means of numerical 3D- and 2D-simulations. A clear influence of the oxide thickness on the phase shift is observed, which lowers f_90 to 112kHz. The remaining difference between this result and the experimental value can be explained by the non-uniform doping of the substrate. Counter-intuitive effects are noticed, such as smaller phase shifts for thicker oxides, and oscillations in the phase shift versus oxide thickness plot. These phenomena are confirmed by a simple analytical 1D-model. This finally leads to the formulation of some design guidelines, describing the minimal drive frequency or oxide thickness required for reproducible operation of an integrated ETF.