gebhart/patrepeval huggingface dataset:
A lightweight streaming layer for multicore execution (2008)

As multicore architectures gain widespread use, it becomes increasingly important to be able to harness their additional processing power to achieve higher performance. However, exploiting parallel cores to improve single-program performance is difficult from a programmer's perspective because most existing programming languages dictate a sequential method of execution. Stream programming, which organizes programs by independent filters communicating over explicit data channels, exposes useful types of parallelism that can be exploited. However, there is still the burden of mapping high-level stream programs to specific multicore architectures. The complexities of each architecture's underlying details makes it difficult to schedule the execution of a stream program with high performance. In this paper, we present the specifications for an intermediate layer between the stream program and the target architecture. This multicore streaming layer (MSL) provides a common level of abstraction that facilitates efficient execution of stream programs by making it easier for compilers to manage computation, and by providing automatic orchestration and optimization of communication when appropriate. We implemented a framework for one such instance of the MSL targeted to the Cell processor and the StreamIt language and achieved greater than 88% utilization on all benchmarks with relatively small amounts of code. The framework can also be applied to other architectures and stream programming languages to enhance generality and portability.
Characterization of the histone H2A.Z-1 and H2A.Z-2 isoforms in vertebrates (2009)

Our biochemical, gene expression, and phylogenetic data suggest that the H2A.Z-1 and H2A.Z-2 variants function similarly yet they may have acquired a degree of functional independence.
The membrane proximal segment of the IL-2 receptor beta-chain acidic region is essential for IL2-dependent protein tyrosine kinase activation. (1994)

The signal transduction mechanism of the interleukin-2 receptor (IL-2R) remains largely undefined. The cytosolic domain of the IL-2R beta subunit is known to be essential for coupling to intracellular signaling pathways such as protein tyrosine kinase (PTK) and for control of IL-2 dependent cellular proliferation. A panel of cell lines that express IL-2R beta chains that contain sequential truncation mutations within the cytosolic domain were constructed. These cell lines were used to map the interaction of IL-2R with PTK activation, and the linkage of PTK function to activation of the enzyme phosphatidylinositol-3-kinase (Pl3K). The data show that the amino terminal segment of the acidic region (residues 314-350) within IL-2R beta is a critical site for PTK activation, and that activation of Pl3K is linked to IL-2 dependent tyrosine phosphorylation.
Seliciclib (R-roscovitine) induces apoptosis in undifferentiated nasopharyngeal cancer (NPC) in vivo and in vitro (2005)

3145 Cyclin dependent kinase (CDK) inhibition mimics tumor suppressor protein function and induces cell cycle arrest and apoptosis in cancer cell lines. Seliciclib, an orally administered inhibitor of CDKs (including 2, 7 and 9), induces apoptosis in several human tumor cell lines through inhibition of anti-apoptotic proteins like Mcl-1, survivin and XIAP. It may also block the cell cycle via inhibition of Rb phosphorylation. Cell cycle dysregulation, with deactivation of p27 and p16 are frequently found in undifferentiated NPC. Loss of p16 leads to Rb phosphorylation and uncontrolled proliferation. Therefore, we sought to evaluate the cellular and molecular effects of seliciclib in NPC in vitro and in vivo. 4 undifferentiated NPC cell lines (CEN-1, CNE-2, HK-1, HONE-1) were exposed to varying concentrations of seliciclib for up to 72 hours and subjected to MTT assay, western blot, and flow cytometric cell cycle analysis. Patients with locally advanced NPC were treated with seliciclib: 800mg bid (level 1) and 400mg bid (level 2) on days 1–3 and 8–12 prior to definitive therapy, and had pre- and post-treatment tumor biopsies (day 12) immunohistochemically (IHC) stained for apoptosis with a monoclonal antibody F7–26 specific for ssDNA, and plasma samples analyzed for cell death markers (TPS assay). Seliciclib induced apoptosis in all cell lines with variable IC50s (13.79–22.10 μM), with cell arrest and accumulation in subG1. Bcl-2 was up-regulated at 12–24 hrs, then down-regulated at 72 hrs following exposure. 11 patients have been treated. At level 1 (n=3), grade 2 nausea/vomiting and grade 3 elevation of ALT occurred in 1 patient each. Level 2 (n=8) dose was tolerable with minimal side effects. 3/8 evaluable patients had >25% reduction in clinically measured cervical lymph nodes. IHC showed expression patterns associated with tumor cell apoptosis. Increase in signal in the TPS assay indicating cell necrosis was seen in a patient. Seliciclib induces apoptosis in NPC in vitro and in vivo. This is proof of principle of seliciclib effect in NPC; further work to define pharmacodynamic markers of response in vitro and in vivo will yield greater insight into the potential mechanisms of action of selciclib in NPC. Author Disclosure Employment or Leadership Consultant or Advisory Role Stock Ownership Honoraria Research Funding Expert Testimony Other Remuneration cyclacel Ltd.
Intranasal micro-optical coherence tomography imaging for cystic fibrosis studies (2019)

Cystic fibrosis (CF) is a genetic disease caused by mutations in the CF transmembrane conductance regulator (CFTR) gene. Although impairment of mucociliary clearance contributes to severe morbidity and mortality in people with CF, a clear understanding of the pathophysiology is lacking. This is, in part, due to the absence of clinical imaging techniques capable of capturing CFTR-dependent functional metrics at the cellular level. Here, we report the clinical translation of a 1-μm resolution micro-optical coherence tomography (μOCT) technology to quantitatively characterize the functional microanatomy of human upper airways. Using a minimally invasive intranasal imaging approach, we performed a clinical study on age- and sex-matched CF and control groups. We observed delayed mucociliary transport rate at the cellular level, depletion of periciliary liquid layer, and prevalent loss of ciliation in subjects with CF. Distinctive morphological differences in mucus and various forms of epithelial injury were also revealed by μOCT imaging and had prominent effects on the mucociliary transport apparatus. Elevated mucus reflectance intensity in CF, a proxy for viscosity in situ, had a dominant effect. These results demonstrate the utility of μOCT to determine epithelial function and monitor disease status of CF airways on a per-patient basis, with applicability for other diseases of mucus clearance.
Routing Solutions for Future Dynamic Networks (2008)

Dynamic networks with users from heterogeneous networks, different operator, provider or technology domains are needed for scenarios such as emergency and disaster recovery, field work among others. One of the challenges is to design routing protocols that satisfy the consequent requirements. In this paper we present extensions for Bluetooth, AODV, TORA, and OSPF protocols, called Blue-AN, AODV-AN, TORAN and OSPF-AN that could be used in future network design. These new protocols add services information in their databases and also operate in their respective environments. We used OMNet++ simulator to conduct our experiments.
AdOpt: analog VLSI stochastic optimization for adaptive optics (2003)

Phase distortion in wavefront propagation is one of the key problems in optical imaging and laser optics applications. We present a hybrid VLSI and optical system for real-time adaptive phase distortion compensation. The system operates "model-free", independent of the specifics of the distorting optical medium and the compensation control elements. Our VLSI system implements stochastic parallel perturbative gradient descent/ascent so that we achieve fast optimization of the chosen performance metric to achieve real-time compensation. We include experimental results of the hybrid VLSI-optical system demonstrating successful operation for a laser-beam focusing/defocusing task.
High spatially sensitive quantitative phase imaging assisted with deep\n neural network for classification of human spermatozoa under stressed\n condition (2020)

Sperm cell motility and morphology observed under the bright field microscopy\nare the only criteria for selecting particular sperm cell during\nIntracytoplasmic Sperm Injection (ICSI) procedure of Assisted Reproductive\nTechnology (ART). Several factors such as, oxidative stress, cryopreservation,\nheat, smoking and alcohol consumption, are negatively associated with the\nquality of sperm cell and fertilization potential due to the changing of\nsub-cellular structures and functions which are overlooked. A bright field\nimaging contrast is insufficient to distinguish tiniest morphological cell\nfeatures that might influence the fertilizing ability of sperm cell. We\ndeveloped a partially spatially coherent digital holographic microscope\n(PSC-DHM) for quantitative phase imaging (QPI) in order to distinguish normal\nsperm cells from sperm cells under different stress conditions such as\ncryopreservation, exposure to hydrogen peroxide and ethanol without any\nlabeling. Phase maps of 10,163 sperm cells (2,400 control cells, 2,750\nspermatozoa after cryopreservation, 2,515 and 2,498 cells under hydrogen\nperoxide and ethanol respectively) are reconstructed using the data acquired\nfrom PSC-DHM system. Total of seven feedforward deep neural networks (DNN) were\nemployed for the classification of the phase maps for normal and stress\naffected sperm cells. When validated against the test dataset, the DNN provided\nan average sensitivity, specificity and accuracy of 84.88%, 95.03% and 85%,\nrespectively. The current approach DNN and QPI techniques of quantitative\ninformation can be applied for further improving ICSI procedure and the\ndiagnostic efficiency for the classification of semen quality in regards to\ntheir fertilization potential and other biomedical applications in general.\n
ChemInform Abstract: Stereoselective Synthesis of C‐Alkyl and Functionalized C‐Alkyl Glycosides Using “Thiophene” as a Masked C‐4 Synthon. (2001)

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.
Do worsening lung ultrasound scans identify severe COVID-19 trajectories? (2022)

Our results do not support the use of serial LUS scans to monitor COVID-19 disease progression among hospitalized adults.
Letter: the combination of histologic remission and Mayo endoscopic score 1 as a suitable therapeutic target in ulcerative colitis—authors' reply (2021)

LINKED CONTENT This article is linked to Jangi et al and Maeda et al papers. To view these articles, visit https://doi.org/10.1111/apt.16026 and https://doi.org/10.1111/apt.16302
Coincidence time resolution of 30 ps FWHM using a pair of Cherenkov-radiator-integrated MCP-PMTs (2019)

Radiation detectors dedicated to time-of-flight positron emission tomography (PET) have been developed, and coincidence time resolution (CTR) of sub-100 ps full width at half maximum (FWHM) has been achieved by carefully optimizing scintillators and photodetectors. Achieving a CTR of 30 ps FWHM by using a pair of annihilation γ-rays would allow us to directly localize the annihilation point within an accuracy of 4.5 mm. Such direct localization can potentially eliminate the requirement of image reconstruction processes in clinical PET systems, which would have a huge impact on clinical protocols and molecular imaging. To obtain such a high CTR, researchers have investigated the use of prompt emissions such as Cherenkov radiation and hot-intra band luminescence. Although it is still challenging to achieve a CTR of 30 ps FWHM even with a Cherenkov-based detector, the experimentally measured CTR is approaching the goal. In this work, we developed a Cherenkov-radiator-integrated micro-channel plate photomultiplier tube (CRI-MCP-PMT), where there are no optical boundaries between the radiator and photocathode, and its timing performance was investigated. By removing the optical boundaries, reflections are eliminated and transmission to the photocathode is improved, resulting in high timing capability. As a result, a CTR of 30.1 ± 2.4 ps FWHM, which is equivalent to a position resolution of 4.5 ± 0.3 mm along a line of response (LOR), was obtained by using a pair of CRI-MCP-PMTs.
Synaptic activation of bulbospongiosus motoneurons via dorsal gray commissural inputs (2012)

Ejaculation is controlled by coordinated and rhythmic contractions of bulbospongiosus (BSM) and ischiocavernosus muscles. Motoneurons that innervate and control BSM contractions are located in the dorsomedial portion of the ventral horn in the L(5-6) spinal cord termed the dorsomedial (DM) nucleus. We characterized intrinsic properties of DM motoneurons as well as synaptic inputs from the dorsal gray commissure (DGC). Electrical stimulation of DGC fibers elicited fast inhibitory and excitatory responses. In the presence of glutamate receptor antagonists, both fast GABAergic as well as glycinergic inhibitory postsynaptic potentials (IPSPs) were recorded. No slow GABA(B)-mediated inhibition was evident. In the presence of GABA(A) and glycine receptor antagonists, DGC stimulation elicited fast glutamatergic excitatory responses that were blocked by application of CNQX. Importantly, a slow depolarization (timescale of seconds) was routinely observed that sufficiently depolarized the DM motoneurons to fire "bursts" of action potentials. This slow depolarization was elicited by a range of stimulus train frequencies and was insensitive to glutamate receptor antagonists (CNQX and d-APV). The slow depolarization was accompanied by an increase in membrane resistance with an extrapolated reversal potential near the K(+) Nernst potential. It was mediated by the combination of the block of a depolarization-activated K(+) current and the activation of a QX-314-sensitive cation current. These results demonstrate that fast synaptic responses in DM motoneurons are mediated primarily by glutamate, GABA, and glycine receptors. In addition, slow nonglutamatergic excitatory postsynaptic potentials (EPSPs), generated through DGC stimulation, can elicit burstlike responses in these neurons.
Computer symbolic math & education (1979)

None of the commonly-taught programming languages is very relevant to the typical elementary-school through college math curriculum, but computer symbolic math is relevant to most of that curriculum. Consequently, a vast opportunity for beneficial mutual reinforcement and cross-motivation between math and computer education is being squandered. This paper substantiates these claims, explains their major causes, then proposes remedies.
Single Wafer sSOI by SIMOX (2006)

Globally strained (tensile) silicon-on-insulator (sSOI) is being studied extensively to obtain higher performance CMOS. sSOI offers three key advantages over bulk-Si: (i) reduced parasitic capacitance; and (ii) enhanced electron mobility; and (iii) compatibility with ultra thin SOI device design. Conventionally, sSOI is fabricated by wafer bonding and layer transfer of strain Si. Although this technique has successfully been used to produce sSOI substrates, its fabrication cost is a concern for commercial applications. Some of the key process/substrate elements in fabricating such sSOI include: (i) a device wafer that contains epitaxially grown thick graded buffer layers (GBL) of SiGe with strain-Si on top; (ii) deposition of an oxide layer on (i); (iii) bonding of the device wafer with a handle wafer (bulk-Si); and (iv) layer transfer of strain-Si/oxide stack onto the handle wafer. This work was aimed at finding lower cost alternatives to fabricate sSOI substrates. We demonstrate that sSOI can be fabricated by separation of implanted oxygen (SIMOX) method using only a single wafer (described as the device wafer above). The method is compatible with existing commercial SIMOX process
Conclusions (2016)

Several stages of decoupling capacitors are typically placed across the power and ground lines to bypass inductive interconnect. Decoupling capacitors are the focus of Part III.
Inclusive search for same-sign dilepton signatures in pp collisions at $ \sqrt {s} = 7 $ TeV with the ATLAS detector (2011)

An inclusive search is presented for new physics in events with two isolated leptons (e or ) having the same electric charge. The data are selected from events collected from pp collisions at s = 7 TeV by the ATLAS detector and correspond to an integrated luminosity of 34 pb -1 . The spectra in dilepton invariant mass, missing transverse momentum and jet multiplicity are presented and compared to Standard Model predictions. In this event sample, no evidence is found for contributions beyond those of the Standard Model. Limits are set on the cross-section in a fiducial region for new sources of same-sign high-mass dilepton events in the ee, e and channels. Four models predicting samesign dilepton signals are constrained: two descriptions of Majorana neutrinos, a cascade topology similar to supersymmetry or universal extra dimensions, and fourth generation d-type quarks. Assuming a new physics scale of 1 TeV, Majorana neutrinos produced by an effective operator V with masses below 460 GeV are excluded at 95% confidence level. A lower limit of 290 GeV is set at 95% confidence level on the mass of fourth generation d-type quarks.
Supplementary Table S16 from The Genomic Landscape of Pediatric Ewing Sarcoma (2023)

&lt;p&gt;Variants identified from WES of 11 cell lines after filtering.&lt;/p&gt;
Recent Advances in Squaraine Dyes for Bulk-Heterojunction Organic Solar Cells (2019)

Abstract Squaraine (SQ) dyes are an important class of electron-donating (donors or p-type) semiconductors for organic solar cells (OSC) due to their facile synthetic access, broad optical absorption with high oscillator strengths, and chemical robustness. Blending them with compatible electron-acceptors (acceptors or n-type) yields OSC devices known as bulk-heterojunction (BHJ) small molecule donor organic solar cells (SMD-OSCs). Through extensive research on materials design, synthesis, characterization, and device optimization over the past ˝ve years, SMD-OSCs employing SQ-based structures have achieved remarkable increases in device power conversion e˚ciency (PCE), now approaching 8%. Although these PCEs have not yet equaled the performance of state- of-the art donor polymers and some other SMD semiconductors, SQ-based OSC progress highlights successful and generalizable strategies for small molecule solar cells that should lead to future advances. In this review, recent developments in SQ-based OSCs are discussed and analyzed.
Energy Demand Prediction with Federated Learning for Electric Vehicle Networks (2019)

In this paper, we propose novel approaches using state-of-the-art machine learning techniques, aiming at predicting energy demand for electric vehicle (EV) networks. These methods can learn and find the correlation of complex hidden features to improve the prediction accuracy. First, we propose an energy demand learning (EDL)-based prediction solution in which a charging station provider (CSP) gathers information from all charging stations (CSs) and then performs the EDL algorithm to predict the energy demand for the considered area. However, this approach requires frequent data sharing between the CSs and the CSP, thereby driving communication overhead and privacy issues for the EVs and CSs. To address this problem, we propose a federated energy demand learning (FEDL) approach which allows the CSs sharing their information without revealing real datasets. Specifically, the CSs only need to send their trained models to the CSP for processing. In this case, we can significantly reduce the communication overhead and effectively protect data privacy for the EV users. To further improve the effectiveness of the FEDL, we then introduce a novel clustering- based EDL approach for EV networks by grouping the CSs into clusters before applying the EDL algorithms. Through experimental results, we show that our proposed approaches can improve the accuracy of energy demand prediction up to 24.63% and decrease communication overhead by 83.4% compared with other baseline machine learning algorithms.
Non-invasive imaging of carotid arterial restenosis using 3T cardiovascular magnetic resonance (2014)

As defined by CMR, restenotic lesions of the carotid artery fall into three distinct types and differ in composition from primary atherosclerotic plaques. If validated by subsequent histological studies, these findings could suggest a role for CMR in detecting high-risk (i.e. lipid-rich) restenotic lesions.
ChemInform Abstract: Reactions of Allenyltri‐n‐butylstannane with Halides of Phosphorus, Arsenic, Antimony, Germanium, Tin, and Boron. Preparation of Propargylic and/or Allenic Derivatives. (2000)

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.
3-D Modeling from Images (2020)

The results from this exploratory study support the need for further studies to document the pattern of adherence to radiotherapy in the rest of the country among this minority population. The results suggest that an intervention to improve information and adherence to radiation therapy may be necessary to assure Latinas a chance for rates of cure comparable with the national standards.