gebhart/patrepeval huggingface dataset:
Sequence survey of receptor tyrosine kinases reveals mutations in glioblastomas (2005)

It is now clear that tyrosine kinases represent attractive targets for therapeutic intervention in cancer. Recent advances in DNA sequencing technology now provide the opportunity to survey mutational changes in cancer in a high-throughput and comprehensive manner. Here we report on the sequence analysis of members of the receptor tyrosine kinase (RTK) gene family in the genomes of glioblastoma brain tumors. Previous studies have identified a number of molecular alterations in glioblastoma, including amplification of the RTK epidermal growth factor receptor. We have identified mutations in two other RTKs: (i) fibroblast growth receptor 1, including the first mutations in the kinase domain in this gene observed in any cancer, and (ii) a frameshift mutation in the platelet-derived growth factor receptor-alpha gene. Fibroblast growth receptor 1, platelet-derived growth factor receptor-alpha, and epidermal growth factor receptor are all potential entry points to the phosphatidylinositol 3-kinase and mitogen-activated protein kinase intracellular signaling pathways already known to be important for neoplasia. Our results demonstrate the utility of applying DNA sequencing technology to systematically assess the coding sequence of genes within cancer genomes.
Highly Efficient Red–Orange Delayed Fluorescence Emitters Based on Strong π‐Accepting Dibenzophenazine and Dibenzoquinoxaline Cores: toward a Rational Pure‐Red OLED Design (2018)

Abstract Organic luminescent materials that exhibit thermally activated delayed fluorescence (TADF) can harvest both singlet and triplet excitons for light emission, leading to high electroluminescence (EL) quantum efficiencies in organic light‐emitting diodes (OLEDs). However, efficient red TADF materials are still very rare because of their restricted molecular design based on the energy gap law. To address this issue, elaborate π‐conjugated donor–acceptor (D–A) systems that can simultaneously achieve a large fluorescence radiative rate and small singlet–triplet energy splitting should be strategically designed. In this study, to produce high‐efficiency pure‐red TADF materials, a remarkably strong π‐accepting dicyanodibenzo[ a , c ]phenazine (CNBPz) unit has been introduced in a D–π–A molecular framework, and combined with a phenylene‐linked p ‐ditolylamine or 9,9‐dimethylacridan moiety. The steady‐state and time‐resolved photophysical measurements revealed intense genuine red TADF emissions of these CNBPz‐based molecules in both solution and doped thin films. The OLEDs incorporating the CNBPz‐based TADF emitters achieve the desired high‐efficiency pure‐red EL, centered at 670 nm with color coordinates of (0.66, 0.34), accompanied by a high maximum external EL quantum efficiency of 15.0%. Therefore, it is concluded that CNBPz, with its expanded π‐conjugation and strong electron‐accepting characteristics, is a particularly useful building unit to design long‐wavelength TADF materials that can overcome the intrinsic energy gap law obstacle.
A Deeply Pipelined CABAC Decoder for HEVC Supporting Level 6.2 High-Tier Applications (2014)

High Efficiency Video Coding (HEVC) is the latest video coding standard that specifies video resolutions up to 8K ultra-high definition (UHD) at 120 frames/s to support the next decade of video applications. This results in high-throughput requirements for the context-adaptive binary arithmetic coding (CABAC) entropy decoder, which was already a well-known bottleneck in H.264/AVC. To address the throughput challenges, several modifications were made to CABAC during the standardization of HEVC. This paper leverages these improvements in the design of a high-throughput HEVC CABAC decoder. It also supports the high-level parallel processing tools introduced by HEVC, including tile and wavefront parallel processing. The proposed design uses a deeply pipelined architecture to achieve a high clock rate. Additional techniques such as the state prefetch logic, latched-based context memory, and separate finite state machines are applied to minimize stall cycles, while multibypass-bin decoding is used to further increase the throughput. The design is implemented in an International Business Machines 45-nm silicon on insulator process. After place and route, its operating frequency reaches 1.6 GHz. The corresponding throughputs achieve up to 1696 and 2314 Mbin/s under common and theoretical worst-case test conditions, respectively. The results show that the design is sufficient to decode in real-time high-tier video bitstreams at level 6.2 (8K UHD at 120 frames/s), or main-tier bitstreams at level 5.1 (4K UHD at 60 frames/s) for applications requiring subframe latency, such as video conferencing.
Fresnel rhombs as achromatic phase shifters for infrared nulling interferometry: first experimental results (2007)

One of the most critical units of nulling interferometers is the Achromatic Phase Shifter. The concept we propose here is based on optimized Fresnel rhombs, using the total internal reflection phenomenon, modulated or not. The total internal reflection induces a phase shift between the polarization components of the incident light. We present the principles, the current status of the prototype manufacturing and testing operations, as well as preliminary experiments on a <i>ZnSe</i> Fresnel rhomb in the visible that have led to a first error source assessment study. Thanks to these first experimental results using a simple polarimeter arrangement, we have identified the bulk scattering as being the main error source. Fortunately, we have experimentally verified that the scattering can be mitigated using spatial filters and does not decrease the phase shifting capabilities of the <i>ZnSe</i> Fresnel rhomb.
The sncRNA Zoo: a repository for circulating small noncoding RNAs in animals (2019)

The repertoire of small noncoding RNAs (sncRNAs), particularly miRNAs, in animals is considered to be evolutionarily conserved. Studies on sncRNAs are often largely based on homology-based information, relying on genomic sequence similarity and excluding actual expression data. To obtain information on sncRNA expression (including miRNAs, snoRNAs, YRNAs and tRNAs), we performed low-input-volume next-generation sequencing of 500 pg of RNA from 21 animals at two German zoological gardens. Notably, none of the species under investigation were previously annotated in any miRNA reference database. Sequencing was performed on blood cells as they are amongst the most accessible, stable and abundant sources of the different sncRNA classes. We evaluated and compared the composition and nature of sncRNAs across the different species by computational approaches. While the distribution of sncRNAs in the different RNA classes varied significantly, general evolutionary patterns were maintained. In particular, miRNA sequences and expression were found to be even more conserved than previously assumed. To make the results available for other researchers, all data, including expression profiles at the species and family levels, and different tools for viewing, filtering and searching the data are freely available in the online resource ASRA (Animal sncRNA Atlas) at https://www.ccb.uni-saarland.de/asra/.
Acyclic diene metathesis (ADMET) polymerization. Synthesis of unsaturated polycarbonates (1993)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTAcyclic diene metathesis (ADMET) polymerization. Synthesis of unsaturated polycarbonatesK. B. Wagener and J. T. PattonCite this: Macromolecules 1993, 26, 2, 249–253Publication Date (Print):January 1, 1993Publication History Published online1 May 2002Published inissue 1 January 1993https://pubs.acs.org/doi/10.1021/ma00054a001https://doi.org/10.1021/ma00054a001research-articleACS PublicationsRequest reuse permissionsArticle Views345Altmetric-Citations61LEARN ABOUT THESE METRICSArticle Views are the COUNTER-compliant sum of full text article downloads since November 2008 (both PDF and HTML) across all institutions and individuals. These metrics are regularly updated to reflect usage leading up to the last few days.Citations are the number of other articles citing this article, calculated by Crossref and updated daily. Find more information about Crossref citation counts.The Altmetric Attention Score is a quantitative measure of the attention that a research article has received online. Clicking on the donut icon will load a page at altmetric.com with additional details about the score and the social media presence for the given article. Find more information on the Altmetric Attention Score and how the score is calculated. Share Add toView InAdd Full Text with ReferenceAdd Description ExportRISCitationCitation and abstractCitation and referencesMore Options Share onFacebookTwitterWechatLinked InRedditEmail Other access optionsGet e-Alertsclose Get e-Alerts
A New Sensing Metric to Reduce Data Fluctuations in a Nanogap-Embedded Field-Effect Transistor Biosensor (2012)

A new sensing metric is proposed for a field-effect transistor (FET)-based biosensor. As proof of concept, a nanogap-embedded FET is studied to reduce data fluctuations that originate from process variations during FET fabrication and environmental variations stemming from bioexperiments. The new sensing metric utilizes a crucial gate voltage ( <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">V</i> <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</sub> @ <i xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">I</i> <sub xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">sub,max</sub> ), which induces the maximum substrate current. The new sensing metric shows higher immunity against variations of the nanogap length, compared with the commonly used metric that relies on threshold voltage or drain current. The proposed metric also shows smaller fluctuation, which is caused by environmental variation coming from biotreatment steps. This analysis is verified experimentally and proved by device simulations. For simple analysis, the effect of external charge of the biomolecules is eliminated by using peptide nucleic acid, which is an electrically neutral biomolecule. Thus, by using such biomolecules, the permittivity effect rising from the biomolecules within the nanogap of the gate dielectric is investigated.
METALLIZED FOAMS FOR ANTENNA DESIGN: APPLICATION TO FRACTAL-SHAPED SIERPINSKI-CARPET MONOPOLE (2010)

The technology of metallized foam offers a new approach to design wire-like, flat, and 3D antennas. Only the necessary metal skin depth (some microns in UHF band) is deposited over arbitrary shaped structures. Thanks to this technology, new antenna designs have been possible offering low weight, possible shaping, and innovative
Parallel and deterministic algorithms from MRFs (Markov Random Fields): Surface reconstruction and integration. Memorandum report (1989)

In recent years many researchers have investigated the use of Markov random fields (MRFs) for computer vision. They can be applied for example in the output of the visual processes to reconstruct surfaces from sparse and noisy depth data, or to integrate early vision processes to label physical discontinuities. Drawbacks of MRFs models have been the computational complexity of the implementation and the difficulty in estimating the parameters of the model. This paper derives deterministic approximations to MRFs models. One of the considered models is shown to give in a natural way the graduate non convexity (GNC) algorithm. This model can be applied to smooth a field preserving its discontinuities. A new model is then proposed: it allows the gradient of the field to be enhanced at the discontinuities and smoothed elsewhere. All the theoretical results are obtained in the framework of the mean field theory, that is a well known statistical mechanics technique. A fast, parallel, and iterative algorithm to solve the deterministic equations of the two models is presented, together with experiments on synthetic and real images. The algorithm is applied to the problem of surface reconstruction is in the case of sparse data. A fast algorithm ismore » also described that solves the problem of aligning the discontinuities of different visual models with intensity edges via integration.« less
Method for Controlling Multi-DOF Ultrasonic Motor using Neural Network (2002)

多自由度超音波モータの制御法について検討した。はじめに, 超音波モータに関する先験的知見およびニューラルネットワークの非線形写像特性を用いて, 多自由度超音波モータの冗長および非線形性をも考慮した逆モデルを構築した。つぎに, 構築した逆モデルを利用した多自由度超音波モータの制御法を提案した。最後に, 本制御法の特性を計算機シミュレーションおよび実験にて検討し, その有効性を明らかにした。本制御法を用いることにより, 球状回転子の3自由度回転運動すべてを制御可能である。
Allergic lung responses are increased in prostaglandin H synthase–deficient mice (1999)

To investigate the function of prostaglandin H synthase-1 and synthase-2 (PGHS-1 and PGHS-2) in the normal lung and in allergic lung responses, we examined allergen-induced pulmonary inflammation and airway hyperresponsiveness in wild-type mice and in PGHS-1(-/-) and PGHS-2(-/-) mice. Among nonimmunized saline-exposed groups, we found no significant differences in lung function or histopathology, although PGE(2) was dramatically reduced in bronchoalveolar lavage (BAL) fluid from PGHS-1(-/-) mice, relative to wild-type or PGHS-2(-/-) mice. After ovalbumin sensitization and challenge, lung inflammatory indices (BAL cells, proteins, IgE, lung histopathology) were significantly greater in PGHS-1(-/-) mice compared with PGHS-2(-/-) mice, and both were far greater than in wild-type mice, as illustrated by the ratio of eosinophils in BAL fluid (8:5:1, respectively). Both allergic PGHS-1(-/-) and PGHS-2(-/-) mice exhibited decreased baseline respiratory system compliance, whereas only allergic PGHS-1(-/-) mice showed increased baseline resistance and responsiveness to methacholine. Ovalbumin exposure caused a modest increase in lung PGHS-2 protein and a corresponding increase in BAL fluid PGE(2) in wild-type mice. We conclude that (a) PGHS-1 is the predominant enzyme that biosynthesizes PGE(2) in the normal mouse lung; (b) PGHS-1 and PGHS-2 products limit allergic lung inflammation and IgE secretion and promote normal lung function; and (c) airway inflammation can be dissociated from the development of airway hyperresponsiveness in PGHS-2(-/-) mice.
A two-ray spectrum-approximation approach to Doppler spread estimation with robustness to the carrier frequency offset (2008)

We propose a new simple and accurate approach to estimate the Doppler spread which is a key parameter in the context of wireless communication systems. This new approach stems from the well known fact that the crosscorrelation of the channel is a weighted summation of monochromatic plane waves (or inverse Fourier transform of its power spectral density). In the case of Doppler spread, these plane waves are locally distributed around a main frequency which is nothing but the carrier frequency offset (CFO). This special feature accounts for the Taylor series expansions that we use herein to develop a two-ray spectrum approximate model. The resulting approximation allows us to determine a new simple and accurate closed-form estimator of the Doppler spread under the unique symmetry assumption on the channelpsilas spectrum. Simulations illustrate the advantages of the proposed technique and its robustness to the CFO.
Novel CDNF/MANF family of neurotrophic factors (2010)

Current therapeutic interventions for neurodegenerative diseases alleviate only disease symptoms, while treatments that could stop or reverse actual degenerative processes are not available. Parkinson's disease (PD) is a movement disorder with characteristic degeneration of dopaminergic neurons in the midbrain. Few neurotrophic factors (NTFs) that promote survival, maintenance, and differentiation of affected brain neurons are considered as potential therapeutic agents for the treatment of neurodegenerative diseases. Thus, it is important to search and study new NTFs that could also be used in therapy. In this review, we discuss novel evolutionary conserved family of NTFs consisting of two members in the vertebrates, cerebral dopamine neurotrophic factor (CDNF) and mesencephalic astrocyte-derived neurotrophic factor (MANF). Invertebrates, including Drosophila and Caenorhabditis have a single protein homologous to vertebrate CDNF/MANF. Characteristic feature of these proteins is eight structurally conserved cysteine residues, which determine the protein fold. The crystal structure analysis revealed that CDNF and MANF consist of two domains; an amino-terminal saposin-like domain that may interact with lipids or membranes, and a presumably unfolded carboxy-terminal domain that may protect cells against endoplasmic reticulum stress. CDNF and MANF protect midbrain dopaminergic neurons and restore motor function in 6-hydroxydopamine rat model of PD in vivo. In line, Drosophila MANF is needed for the maintenance of dopaminergic neurites and dopamine levels in the fly, suggesting that the function of CDNF/MANF proteins is evolutionary conserved. Future studies will reveal the receptors and mode of action of these novel factors, which are potential therapeutic proteins for the treatment of PD.
Specialty chemicals production case study: Economic analysis of modular chemical process intensification versus conventional stick‐built approaches (2021)

Abstract The beneficial synergies of chemical process intensification and plant modularization present a unique step‐wise advancement opportunity for many chemical manufacturers, but economic case studies are needed to raise awareness of such opportunities. The primary objective of this case study is to better understand the business case economics of a specialty chemical plant using modular chemical process intensification (MCPI), by comparing it with that of a conventional stick‐built (CSB) plant that produces the same product at the same production capacity. When comparing MCPI against CSB approaches for a plant project strategy decision, analysts should thoroughly understand and model the differences and similarities in scope bases. The MCPI approach for this case study benefitted from dramatic reductions in capital expenditures (CAPEX). A sizeable reduction in plant spatial volume likely explains some of these reductions. Sizeable operational expenditure (OPEX) reductions with the MCPI plant appear to be associated with the reduced operator staffing required from converting a labor‐intensive batch process into an automated, continuous flow process. Traditional project investment economic measures strongly favored the MCPI case for the design, construction, and operation of the specialty chemical plant. The net present value for the MCPI case was nearly twice that for the CSB case over a ten‐year period, and the payback period for the CSB case was nearly five times longer than that of the MCPI case. The opinion‐based perspective of the study participant identified significant contributors to superior MCPI economic performance for this case study. With the two conditions of low MCPI CAPEX and high product profit margin, economic analysis indicates that incorporation of a backup MCPI train, for operational redundancy when downtime occurs, is a very beneficial strategy.
On the Design of Campus Parking Systems With QoS Guarantees (2015)

Parking spaces are resources that can be pooled together and shared, particularly when there exist complementary daytime and nighttime users. We provide solutions to two design questions. First, given a quality of service requirement, how many spaces should be set aside as contingency during the day for nighttime users? Next, how can we replace the first-come-first-served access method by one that aims for optimal efficiency while keeping user preferences private?
A Highly Practical Route to 7-Hydroxy-1,3-dihydro-2H-1,4-benzodiazepin-2-one fromp-Anisidine (1999)

Abstract The title compound was accessed via a Friedel-Crafts reaction on anisidine, followed by cyclization, N-methylation and O-demethylation. NO column chromatography was required in the process.
Development And Operational Evaluation Of PACS Network At Georgetown University (1988)

The increased use of digital imaging and data base management technologies has set the stage for the development of comprehensive medical image and information management system for large medical facilities. An image management and communication system (IMACS) can take on a variety of forms depending on specific user needs. In one form or another, the technology of IMACS is a part of radiology&apos;s future.
Hybrid silicon free-space source with integrated beam steering (2013)

Free-space beam steering using optical phase arrays are desirable as a means of implementing Light Detection and Ranging (LIDAR) and free-space communication links without the need for moving parts, thus alleviating vulnerabilities due to vibrations and inertial forces. Implementing such an approach in silicon photonic integrated circuits is particularly desirable in order to take advantage of established CMOS processing techniques while reducing both device size and packaging complexity. In this work we demonstrate a free-space diode laser together with beam steering implemented on-chip in a silicon photonic circuit. A waveguide phased array, surface gratings, a hybrid III-V/silicon laser and an array of hybrid III/V silicon amplifiers were fabricated on-chip in order to achieve a fully integrated steerable free-space optical source with no external optical inputs, thus eliminating the need for fiber coupling altogether. The chip was fabricated using a modified version of the hybrid silicon process developed at UCSB, with modifications in order to incorporate diodes within the waveguide layer as well as within the III-V gain layer. Beam steering across a 12&deg; field of view with &plusmn;0.3&deg; accuracy and 1.8&deg;x0.6&deg; beam width was achieved, with background peaks suppressed 7 dB relative to the main lobe within the field of view for arbitrarily chosen beam directions.
<title>Polysilyne resists for 193 nm excimer laser lithography</title> (1991)

Polyalkylsilynes have been used as resists for 193-nm projection lithography. These resists can be either wet developed using toluene or dry developed using HBr reactive ion etching (RIE). Wet development relies on crosslinking via intermolecular Si-O-Si bond formation to reduce solubility (negative tone) whereas the dry development relies on photo-oxidation to induce etch selectivity (also negative tone). The sensitivity in either case ranges from 20 to 200 mJ/cm2 and depends on the resist formulation. The best resist compositions are those that contain predominantly small (n-butyl) aliphatic pendant groups rather than large (cyclohexyl, phenyl) pendant groups. Using a 0.33 NA catadioptric lens with a phase mask, equal line-and-space features as small as 0.15 micrometers have been printed and transferred through 1.0 micrometers of planarizing layer (aspect ratio > 6) using oxygen RIE.
A New Narrow Band Gap Electroactive Polymer:  Poly[2,5-bis{2-(3,4- ethylenedioxy)thienyl}silole] (2001)

A new silole-containing monomer, 1,1-dihexyl-3,4-diphenyl-2,5-bis{2-(3,4-ethylenedioxy)thienyl}silole, was synthesized and electropolymerized at a quite low potential (Eox,m = 0.29 V vs Fc/Fc+) to yield an electroactive polymer. Spectroelectrochemical and colorimetric analysis has shown that the polymer switches between blue and transmissive yellow-green upon doping. The low-lying LUMO levels of the siloles, combined with the electron-rich character of the 3,4-ethylene dioxythiophene units, confer upon this new polymer a narrow band gap of 1.3−1.4 eV.