gebhart/patrepeval huggingface dataset:
Comparison of Illumina and Ion Torrent RNA-Sequencing and Microarray-based approaches for Profiling the Transcriptome. (2014)

Currently, most of RNA-seq experiments are performed on Illumina platform, but other companies are competing for market share. In this highly competitive environment, cross-platform comparisons and/or validations are becoming increasingly critical. Results of several comparisons in which the same samples were studied using Illumina and Ion Torrent RNA-seq, and different microarray-based approaches are presented. To prepare the libraries, the RNA samples were processed using Illumina TruSeq protocol (a protocol capturing polyadenylated RNA) and sequenced on Illumina HiSeq 2500 producing 100x100-nt paired-end reads. The same samples were processed using the Ion Torrent Total RNA-Seq V2 protocol which is capable of capturing non-coding RNA and preserves the strand specificity. These libraries were sequenced on the Ion Proton using the P1 chip and produced up to 200-nt reads. The data obtained with both platforms was compared for quality, alignment statistics, error rates, evenness and continuity of coverage, RNA biotype representation, and accuracy for expression profiling. Additionally, detailed comparison of technical aspects including input amount, throughput, experimental time and reagent costs is presented. Lastly, the same samples were interrogated using Agilent V2 Human Whole Genome arrays, Affymetrix Gene arrays ST (1.0 and 2.0) and newly commercialized Affymetrix Human Transcriptome Arrays. There was a significant correlation between the Illumina and Ion Torrent RNA-Seq gene expression data and microarray data generated from the same samples; however, the RNA-Seq detects additional transcripts whose expression were either not interrogated or not detected by microarrays.
Present performance and future directions in two-photon addressed write once read many (WORM) volumetric optical disk storage systems (2003)

Current performance in two-photon WORM volumetric write once read many data storage systems is presented and future directions discussed. Influence of numerical aperture in a 3-D multi-layer optical data storage system is analyzed.
Influence of framework silicon/aluminum ratio on the Raman spectra of faujasitic zeolites (1991)

ADVERTISEMENT RETURN TO ISSUEPREVArticleNEXTInfluence of framework silicon/aluminum ratio on the Raman spectra of faujasitic zeolitesPrabir K. Dutta and Jen TwuCite this: J. Phys. Chem. 1991, 95, 6, 2498–2501Publication Date (Print):March 1, 1991Publication History Published online1 May 2002Published inissue 1 March 1991https://doi.org/10.1021/j100159a072RIGHTS & PERMISSIONSArticle Views354Altmetric-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 InReddit PDF (509 KB) Get e-Alerts
Dimensional scaling effects on transport properties of ultrathin body p-i-n diodes (2008)

Device scaling has been a subject of research for both optoelectronics and electronics. In order to investigate the electronic properties of scaled devices we studied lateral p-i-n structures using thin silicon on insulator (SOI) or poly-Si layers of varying dimension. With the help of these structures we try to explain the size dependencies on electronic transport properties. Further, we also propose a new device concept called charge plasma diode.
Fractional anisotropy and tau‐PET show parallel changes in amnestic AD, MCI, and controls in the medial temporal lobe (2020)

Abstract Background Microstructural tissue alterations in Alzheimer disease (AD) contribute to decreased fractional anisotropy (FA) in white matter (Sexton et al. 2011), which may be secondary to tau‐based neurodegeneration that starts in the medial temporal lobe (MTL). Here, we show that tau accumulation in the entorhinal and perirhinal cortices (ERC/PRC) – the first area of the MTL known to accumulate tau pathology (Braak &amp; Braak, 1991) – correlates with parahippocampal gyral FA, and both are altered in AD and mild cognitive impairment (MCI) compared with control subjects. Method 21 subjects, 5 amyloid‐positive AD (3 amnestic), 5 amyloid‐positive MCI (4 amnestic), and 11 healthy control, underwent a dynamic 90‐minute tau‐PET scan on a 3T PET‐MR after 5mCi intravenous injection of PI‐2620 (Life Molecular Imaging, Inc.). During the PET acquisition, coronal‐oblique T2‐weighted fast‐spin‐echo (TR 14111ms, TE 102.4ms, FA 111, 0.43x0.43x1.9mm resolution, 3m24s) and DTI (6b=0 s/mm 2 , 60 b=1000s/mm 2 directions, 1.6‐2.0mm isotropic) were acquired. Standardized uptake value ratio (SUVr) maps from 60‐90 were normalized to the inferior cerebellar cortex. DTI and PET were registered to coronal T2 MR image space. Hippocampal subfields (CA1, dentate gyrus and CA2‐4 (DG), subiculum, entorhinal/perirhinal cortex, and parahippocampal gyrus) were segmented using Automated Segmentation of Hippocampal Subfields (Yushkevich et al, 2010) with a tailored atlas (Parivash et al, 2019). Mean subfield SUVr and FA were computed after subfields were 1‐voxel 2D‐eroded in the coronal‐oblique plane. Statistics utilized a linear regression model correcting for age. Result SUVr differences were present between amnestic AD/MCI (N=7) and controls (N=11) in the ERC/PRC (p&lt;0.001), more than in other subfields (Figure 1A). Amnestic AD/MCI demonstrated significantly lower FA than controls in the parahippocampal gyrus (p =0.04) (Figure 1B). FA in the parahippocampal gyrus correlates strongly (R=‐0.60) with ERC/PRC tau SUVr in amnestic AD, amnestic MCI, and controls and shows clear clustering by subject group (Figure 2). Conclusion The correlation between parahippocampal FA and tau SUVr in the ERC/PRC indicate that simultaneous in vivo PET/MRI measurements of early‐stage tau accumulation and white matter degradation may be useful to interrogate the relationship between tau accumulation and MTL white matter microstructure.
Search for low-mass resonances decaying into bottom quark-antiquark pairs in proton-proton collisions at s=13  TeV (2019)

A search for narrow, low-mass, scalar, and pseudoscalar resonances decaying to bottom quark-antiquark pairs is presented. The search is based on events recorded in $\sqrt{s}=13\text{ }\text{ }\mathrm{TeV}$ proton-proton collisions with the CMS detector at the LHC, collected in 2016, and corresponding to an integrated luminosity of $35.9\text{ }\text{ }{\mathrm{fb}}^{\ensuremath{-}1}$. The search selects events in which the resonance would be produced with high transverse momentum because of the presence of initial- or final-state radiation. In such events, the decay products of the resonance would be reconstructed as a single large-radius jet with high mass and two-prong substructure. A potential signal would be identified as a narrow excess in the jet invariant mass spectrum. No evidence for such a resonance is observed within the mass range from 50 to 350 GeV, and upper limits at 95% confidence level are set on the product of the cross section and branching fraction to a bottom quark-antiquark pair. These constitute the first constraints from the LHC on exotic bottom quark-antiquark resonances with masses below 325 GeV.
Should probiotics be tested on ex vivo organ culture models? (2012)

The use of probiotic strains as nutritional supplements has been gaining ground in the last decade. As the mechanisms with which they modulate innate and adaptive immunity start to unravel, probiotics have repeatedly been suggested as potential treatment for a wide variety of diseases, including inflammatory bowel disease (IBD). However, even though the benefits of probiotic treatment for conditions like atopic dermatitis are well established, very limited clinical benefit has been obtained on IBD treatment. This could be due to the lack of suitable models on which to obtain valid pre-clinical data to select the most appropriate strain for a given condition. We recently described a newly developed model for the culture and apical stimulation of whole human intestinal mucosal explants. We showed that the tissue was only viable if incubated in an O(2) chamber, but it was possible to stimulate the tissue with bacteria in a conventional incubator. We used the new set-up to test three different Lactobacilli strains, none of which appeared to be benign on inflamed IBD mucosa.
Amniotic Fluid and Placental Membranes: Unexpected Sources of Highly Multipotent Cells (2013)

Gestational tissue such as the placenta, placental membranes, and amniotic fluid are usually discarded following birth. Recently, researchers have identified gestational tissue as an untapped source of stem cells that are highly multipotent and possess potent immunosuppressive properties. Placental mesenchymal stem cells (MSCs), human amnion epithelial cells (hAECs), and amniotic fluid-derived stem cells (AFSCs) have been shown to differentiate into various cell types including adipogenic, osteogenic, myogenic, endothelial, pulmonary, neurogenic, hepatogenic, cardiac, and pancreatic lineages. Their immunomodulatory properties suggest that gestational stem cells may have an important application in the treatment of various inflammatory diseases such as graft versus host and autoimmune diseases. In clinical and preclinical studies, gestational stem cells have shown efficacy in the treatment of Crohn disease, lung disease, diabetes, repair of bone defects, heart disease, kidney disease, neural degeneration, and blood disorders. Stem cells derived from the placenta, placental membranes, and amniotic fluid are a valuable resource for the field of regenerative medicine.
Bis(1,5-cyclooctadiene)nickel(0) (2001)

[1295-35-8] C16H24Ni (MW 275.08) (Ni(cod)2 is a source of nickel(0) useful for the preparation of π-allylnickel halides,2 for coupling of aryl and alkenyl halides,3 and for the oligomerization and cycloaddition of strained alkenes,4 of alkynes,5 and of 1,3-dienes6) Physical Data: mp 60 °C dec (N2). Solubility: sol benzene, toluene, THF, ether, DMF, HMPA, N-methylpyrrolidinone. Form Supplied in: yellow-orange crystals of 98+% purity. Analysis of Reagent Purity: 1H NMR: δ 4.31 (br, CH), 2.08 (br, CH2).1 Preparative Methods: the standard preparation2b is a modification of the original procedure by Wilke and co-workers7 and involves the reduction of Nickel(II) Acetylacetonate, Ni(acac)2, with Triethylaluminum in the presence of 1,5-cyclooctadiene (cod) and 1,3-butadiene in toluene. A more convenient preparation utilizes Diisobutylaluminum Hydride (DIBAL) as the reducing agent.8 In a typical reaction, 45.4 mL of a 1.0 M THF solution of DIBAL was added to a 250 mL Schlenk flask containing 4.67 g of Ni(acac)2, and 7.93 g cod in THF solution under a nitrogen atmosphere at −78 °C. The resulting dark, reddish-brown solution was warmed to 0 °C and treated with diethyl ether to give a light yellow precipitate. Filtration under nitrogen gave a 72% yield of Ni(cod)2 which was suitable for immediate use. Optional recrystallization from toluene under inert atmosphere gave bright yellow-orange needles with 40% recovery. Handling, Storage, and Precautions: highly oxygen sensitive. Special inert-atmosphere techniques must be used.9 Should be stored at 0 °C.
Performance analysis of Viterbi decoding for 64-DAPSK and 64-QAM modulated OFDM signals (1998)

The multilevel modulation techniques of 64-quadrature amplitude modulation (QAM) and 64-differential amplitude and phase-shift keying (DAPSK) have been proposed in combination with the orthogonal frequency-division multiplexing (OFDM) scheme for digital terrestrial video broadcasting (DTVB). With this system a data rate of 34 Mb/s can be transmitted over an 8-MHz radio channel. A comparison of these modulation methods in the uncoded case has been presented by Engels and Rohling (see European Trans. Telecommun., vol.6, p.633-40, 1995). The channel coding scheme proposed for DTVB by Schafer (see Proc. Int. Broadcasting Convention, Amsterdam, The Netherlands, p.79-84, 1995) consists of an inner convolutional code concatenated with an outer Reed-Solomon (RS) code. In this paper the performance of the convolutional codes is analyzed for the two modulation techniques. This analysis includes soft decision Viterbi (1971) decoding of the convolutional code. For soft decision decoding of DAPSK modulated signals a new metric is developed.
Sharing networked resources with brokered leases (2006)

This paper presents the design and implementation of Shirako, a system for on-demand leasing of shared networked resources. Shirako is a prototype of a serviceoriented architecture for resource providers and consumers to negotiate access to resources over time, arbitrated by brokers. It is based on a general lease abstraction: a lease represents a contract for some quantity of a typed resource over an interval of time. Resource types have attributes that define their performance behavior and degree of isolation. Shirako decouples fundamental leasing mechanisms from resource allocation policies and the details of managing a specific resource or service. It offers an extensible interface for custom resource management policies and new resource types. We show how Shirako enables applications to lease groups of resources across multiple autonomous sites, adapt to the dynamics of resource competition and changing load, and guide configuration and deployment. Experiments with the prototype quantify the costs and scalability of the leasing mechanisms, and the impact of lease terms on fidelity and adaptation. 1
Modeling and simulation of large-scale Systems: a systematic comparison\n of modeling paradigms (2019)

A trend across most areas where simulation-driven development is used is the\never increasing size and complexity of the systems under consideration, pushing\nestablished methods of modeling and simulation towards their limits. This paper\ncomplements existing surveys on large-scale modeling and simulation of physical\nsystems by conducting expert surveys. We conducted a two-stage empirical survey\nin order to investigate research needs, current challenges as well as promising\nmodeling and simulation paradigms. Furthermore, we applied the analytic\nhierarchy process method to prioritise the strengths and weakness of different\nmodeling paradigms. The results of this study show that experts consider\nacausal modeling techniques to be suitable for modeling large scale systems,\nwhile causal techniques are considered less suitable.\n
From Memory in our Brain to Emerging Resistive Memories in Neuromorphic Systems (2015)

In this work, we will focus on the role that new nonvolatile resistive memory technologies (as OxRAM and CBRAM) can play in emerging fields of application, such as neuromorphic circuits, to save energy and increase performance. We will present large-scale energy efficient neuromorphic systems based on ReRAM as stochastic-binary synapses. Prototype applications such as complex visual- and auditory-pattern extraction will be discussed using feedforward spiking neural networks. A parallel will be drawn between these systems and human memory, as recent discoveries on the human brain and cognitive processes may bring benefits and open new perspectives for intelligent data processing.
NACHRUF AUF HORST EHNI (2015)

Die ZSF verfolgt das Anliegen, die wissenschaftlichen Diskurse zu den Phänomenen Bewegung, Spiel und Sport in den Perspektiven von Erziehung, Bildung, Sozialisation und Unterricht zu erschließen und zu fördern. Dafür soll nicht die Festlegung auf ein bestimmtes inhaltliches oder forschungsmethodisches Paradigma bestimmend sein, sondern gedankliche Beweglichkeit, konstruktiver Dialog, fruchtbare Entwicklung und Reflexion von Theorie und Empirie. In das Blickfeld können dabei alle Abschnitte des Lebenslaufs und alle Praxisfelder von Sport- und Bewegungskultur geraten, in denen pädagogische Fragestellungen eine Rolle spielen (z. B. Schulsport, Vereinssport, Selbstorganisierter Sport etc.). Die Vielfalt sportpädagogischer Forschungsthemen und -ausrichtungen soll so – orientiert an wissenschaftlicher Substanz und gesellschaftlicher Relevanz – ein offenes Forum erhalten, Entwicklungen zu beschreiben, zu analysieren und zu erörtern, sie kritisch zu hinterfragen oder auch zukunftsbezogen zu modellieren.
Reevaluating the Stability of the PEO-Based Solid-State Electrolytes for High Voltage Solid-State Batteries (2022)

Poly(ethylene oxide) (PEO) is a very popular polymer-based solid electrolyte material with relatively high ionic conductivity and dielectric constant 1 . However, many previous works mentioned that it could not be used in high voltage cells for its low oxidation potential (~3.9V vs. Li/Li+) 2 . However, only a handful of prior investigations evaluated the stability of the PEO-based solid-state electrolyte considering the contribution of the cathode surface chemistry to electrolyte oxidation and decomposition. Since most of the previous research exploring high voltage cathodes with PEO used LiCoO 2 , it could be possible the other cathode compositions will erode the PEO-based solid electrolyte in different and less extreme ways. Our work revisits the high voltage electrochemical stability of PEO-based solid state-electrolyte materials. Potentiodynamic and galvanostatic tests were performed in test cells using PEO electrolyte layers with either LiNi x Mn y Co z O 2 or LiCoO 2 cathode materials. We found that the high voltage instability of PEO-based solid-state cells is profoundly affected by the instability of the cathode material used. Specifically, the LiCoO 2 electrodes were observed to undergo an irreversible oxidation process where they shattered into small pieces, which then led to a rapid irreversible loss in capacity. In contrast, we found that the PEO-based solid-state electrolytes could be stably cycled with high-nickel content cathodes stably at a voltage up to 4.5V vs. Li/Li+ over many cycles with minimal capacity deterioration. K. Chrissopoulou, K. S. Andrikopoulos, S. Fotiadou, S. Bollas, C. Karageorgaki, D. Christofilos, G. A. Voyiatzis, and S. H. Anastasiadis, 44 , 9710–9722 (2011). J. Qiu, X. Liu, R. Chen, Q. Li, Y. Wang, P. Chen, L. Gan, S.-J. Lee, D. Nordlund, Y. Liu, X. Yu, X. Bai, H. Li, and L. Chen, Adv. Funct. Mater. , 30 , 1909392 (2020).
Application of vitamin E to antagonize SWCNTs-induced exacerbation of allergic asthma (2014)

The aggravating effects of zero-dimensional, particle-shaped nanomaterials on allergic asthma have been previously investigated, but similar possible effects of one-dimensional shaped nanomaterials have not been reported. More importantly, there are no available means to counteract the adverse nanomaterial effects to allow for their safe use. In this study, an ovalbumin (OVA)-sensitized rat asthma model was established to investigate whether single walled carbon nanotubes (SWCNTs) aggravate allergic asthma. The results showed that SWCNTs in rats exacerbated OVA-induced allergic asthma and that this exacerbation was counteracted by concurrent administration vitamin E. A mechanism involving the elimination of reactive oxygen species, downregulation of Th2 responses, reduced Ig production, and the relief of allergic asthma symptoms was proposed to explain the antagonistic effects of vitamin E. This work could provide a universal strategy to effectively protect people with allergic asthma from SWCNTs or similar nanomaterial-induced aggravating effects.
Reduced consumption of sugar identifies a regulatory role for a Pitx2/Vglut2 co-expressing subpopulation in the structure and function of the mouse subthalamic nucleus (2016)

The basal ganglia are the key circuitry controlling movement and reward behavior. Both locomotion and reward-related behavior are also modified by dopaminergic input from the substantia nigra and the ventral tegmental area (VTA). If the basal ganglia are severed by lesion or in disease, such as in Parkinson’s disease, the affected individuals suffer from severe motor impairments and often of affective and reward-related symptoms. The subthalamic nucleus (STN) is a glutamatergic key area of the basal ganglia and a common target for deep brain stimulation in Parkinson’s disease to alleviate motor symptoms. The STN serves not only motoric, but also limbic and cognitive functions, which is often attributed to a tripartite anatomical subdivision. However, the functional output of both VTA and STN may rely more on intermingled subpopulations than on a strictly anatomical subdivision. In this doctoral thesis, the role of subpopulations within and associated with the basal ganglia is addressed from both a genetic and a behavioral angle. The identification of a genetically defined subpopulation within the STN, co-expressing Paired-like homeodomain transcription factor 2 (Pitx2) and Vesicular glutamate transport 2 (Vglut2), made it possible to conditionally reduce glutamatergic transmission from this subgroup of neurons and to investigate its influence on locomotion and motivational behavior, giving interesting insights into the mechanisms possibly underlying deep brain stimulation therapy and its side-effects. We address the strong influence of the Pitx2-Vglut2 subpopulation on movement, as well as the more subtle changes in reward-related behavior and the impact of the alterations on the reward-related dopaminergic circuitry. We also further elucidate the genetic composition of the STN by finding new markers for putative STN subpopulations, thereby opening up new possibilities to target those cells genetically and optogenetically. This will help in future to examine both STN development, function in the adult central nervous system and defects caused by specific deletion. Eventually identifying and characterizing subpopulations of the STN can contribute to the optimization of deep brain stimulation and help to reduce its side-effects, or even open up possibilities for genetic or optogenetic therapy approaches.
On the Modeling and Compensation of Backward Crosstalk in MIMO Transmitters (2017)

In this letter, the impact of backward crosstalk at the output of power amplifiers (PAs) on the behavioral model of the multi-input multi-output (MIMO) transmitter is investigated. In this case, the interference signal from other branches leaks into the output of PA and changes the PA behavioral model. A novel generalized memory polynomial is proposed to model the nonlinear distortion caused by this type of crosstalk. Moreover, it is shown that a digital predistortion (DPD) algorithm based on a 2-D generalized memory polynomial can efficiently compensate for the nonlinearity and backward crosstalk impairment effects in MIMO transmitter. The experimental results validate the performance of the proposed model and the DPD method in four different scenarios. An adjusted channel power ratio of less than -50 dBc for the linearized output signal in the presence of -15/-10 dB crosstalk is achieved.