gebhart/patrepeval huggingface dataset:
Electrochemically Induced C−Br and C−I Bond Activation by the Pd3(dppm)3CO2+ Cluster, and Characterization of the Reactive Pd3(dppm)3CO+ Intermediate:  The First Confidently Identified Paramagnetic Pd Cluster (2001)

ADVERTISEMENT RETURN TO ISSUEPREVCommunicationNEXTElectrochemically Induced C−Br and C−I Bond Activation by the Pd3(dppm)3CO2+ Cluster, and Characterization of the Reactive Pd3(dppm)3CO+ Intermediate: The First Confidently Identified Paramagnetic Pd ClusterDavid Brevet, Dominique Lucas, Hélène Cattey, Frédéric Lemaître, Yves Mugnier, and Pierre D. HarveyView Author Information Laboratoire de Synthèse et d'Électrosynthèse Organométalliques, CNRS UMR 5632, Faculté des Sciences Gabriel, Université de Bourgogne 6 Boulevard Gabriel, 21000 Dijon, France Département de Chimie, Université de Sherbrooke Sherbrooke, Québec, Canada J1K 2R1 Cite this: J. Am. Chem. Soc. 2001, 123, 18, 4340–4341Publication Date (Web):April 12, 2001Publication History Received5 July 2000Revised26 December 2000Published online12 April 2001Published inissue 1 May 2001https://pubs.acs.org/doi/10.1021/ja002417ahttps://doi.org/10.1021/ja002417arapid-communicationACS PublicationsCopyright © 2001 American Chemical SocietyRequest reuse permissionsArticle Views374Altmetric-Citations24LEARN 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-AlertscloseSupporting Info (1)»Supporting Information Supporting Information SUBJECTS:Cluster chemistry,Electrolysis,Electron paramagnetic resonance spectroscopy,Palladium,Reactivity Get e-Alerts
Massive expansion of SCA2 with autonomic dysfunction, retinitis pigmentosa, and infantile spasms (2011)

Severe phenotype in children with massive expansion of SCA2 may be due to a functional deficit in protein networks in the postsynapse, specifically involving vesicle endocytosis.
Lung Cancer: Scalpels, Beams, Drugs, and Probes (1986)

Ninety percent of the 149,000 people who will have lung cancer in the United States this year will die of their disease,1 and the physicians caring for them must decide the best way to confront a bleak situation. The article by the Lung Cancer Study Group in this issue of the Journal 2 shows the limitations of two components (surgery and radiotherapy) of our triad of weapons in the treatment of lung cancer. In this prospective randomized clinical trial, postoperative adjuvant chest irradiation was given to patients with resected epidermoid (squamous-cell) carcinoma and positive hilar (N1) or mediastinal (N2) nodes in . . .
Supplementary Methods, Figures 1-4, Movie Legend, Table Legends 1-5 from The Transcription Factor ZNF217 Is a Prognostic Biomarker and Therapeutic Target during Breast Cancer Progression (2023)

&lt;p&gt;PDF file - 2.4MB&lt;/p&gt;
Pro-fibrotic pathway activation in trabecular meshwork and lamina cribrosa is the main driving force of glaucoma (2016)

While primary open-angle glaucoma (POAG) is a leading cause of blindness worldwide, it still does not have a clear mechanism that can explain all clinical cases of the disease. Elevated IOP is associated with increased accumulation of extracellular matrix (ECM) proteins in the trabecular meshwork (TM) that prevents normal outflow of aqueous humor (AH) and has damaging effects on the fine mesh-like lamina cribrosa (LC) through which the optic nerve fibers pass. Applying a pathway analysis algorithm, we discovered that an elevated level of TGFβ observed in glaucoma-affected tissues could lead to pro-fibrotic pathway activation in TM and in LC. In turn, activated pro-fibrotic pathways lead to ECM remodeling in TM and LC, making TM less efficient in AH drainage and making LC more susceptible to damage from elevated IOP via ECM transformation in LC. We propose pathway targets for potential therapeutic interventions to delay or avoid fibrosis initiation in TM and LC tissues.
Demo: Human-Interactive Hardware-In-the-Loop Simulator for Cooperative Intelligent Transportation Systems and services (2015)

In this demo, we introduce a Human-Interactive Hardware-In-the-Loop Simulation (HI2LS) framework for evaluating Cooperative Intelligent Transportation Systems (C-ITS) and road safety services. C-ITS is a complex system consisting of Wireless Access in Vehicular Environments (WAVE) communication devices, Human-Machine Interface (HMI), and computing elements to evaluate collision risk. Furthermore, C-ITS and services require the high reliability in a complicated operating environments including the human factors, and thus system testing is very important and essential process. In this demo, we propose a HI2LS framework for designing and evaluating road safety systems based on vehicle-to-vehicle/-infrastructure (V2X) communications. It enables developers to evaluate their road safety system designs in a wide range of virtual traffic environments and road conditions, which can replace dangerous and time-consuming field tests while guaranteeing the high reliability.
Energy‐efficient task allocation with quality of service provisioning for concurrent applications in multi‐functional wireless sensor network systems (2013)

SUMMARY Multi‐functional wireless sensor network (WSN) system is a new design trend of WSNs, which are evolving from dedicated application‐specific systems to an integrated infrastructure that supports the execution of multiple concurrent applications. Such system offers inherent advantages in terms of cost and flexibility because it allows the effective utilization of available sensors and resource sharing among multiple applications. However, sensor nodes are very constrained in resources, mainly regarding their energy. Therefore, the usage of such resources needs to be carefully managed, and the sharing with several applications imposes new challenges in achieving energy efficiency in these networks. In order to exploit the full potential of multi‐functional WSN systems, it is crucial to design mechanisms that effectively allocate tasks onto sensors so that the entire system lifetime is maximized while meeting various application requirements. However, it is likely that the requirements of different applications cannot be simultaneously met. In this paper, we present the Multi‐Application Requirements Aware and Energy Efficiency algorithm as a new resource allocation heuristic for multi‐functional WSN system to maximize system lifetime subject to various application requirements. The heuristic effectively deals with different quality of service parameters (possibly conflicting) trading those parameters and exploiting heterogeneity of multiple WSNs. Copyright © 2013 John Wiley &amp; Sons, Ltd.
518: A Comparison of Renal Function Following Hand Assisted Laparoscopic Nephrectomy and open Nephrectomy in Patients with a Normal Contralateral Kidney (2005)

gold standard test to confirm the final results. The purpose of this study is to describe a new, simplified method to determine the ARF with 99 mTc-DMSA, using the radioactive counts of nephrectomy specimens as gold standard.
Magnetic Resonance Imaging of Amyloid Plaques in Transgenic Mice (2005)

Transgenic mice are used increasingly to model brain amyloidosis, mimicking the pathogenic processes involved in Alzheimer's disease (AD). In this chapter, a strategy is described that has been successfully used to map amyloid deposits in transgenic mouse models of AD with magnetic resonance imaging (MRI), utilizing molecular targeting vectors labeled with MRI contrast agents to enhance selectively the signal from amyloid plaques. To obtain sufficient spatial resolution for effective and sensitive mouse brain imaging, magnetic fields of 7-Tesla (T) or more are required. These are higher than the 1.5-T field strength routinely used for human brain imaging. The higher magnetic fields affect contrast agent efficiency, and determine the choice of pulse sequence parameters for in vivo MRI, all addressed in this chapter. Ex vivo imaging is also described as an important step to test and optimize protocols prior to in vivo studies. The experimental setup required for mouse brain imaging is explained in detail, including anesthesia, immobilization of the mouse head to reduce motion artifacts, and anatomical landmarks to use for the slice alignment procedure to improve image co-registration during longitudinal studies, and for subsequent matching of MRI with histology.
Maximum entropy bridgelets for trajectory completion (2022)

Location measurements from people and vehicles often have long temporal gaps between them. However, we would still like to reason about location behavior during these gaps. This paper presents a new method for filling these gaps that is both principled and data-driven. Unlike the most common method, linear interpolation, our method explicitly represents the location uncertainty in the gaps with probability. It also learns from actual mobility data. We introduce bridgelets, which are small, spatio-temporal, maximum entropy clouds that model spatial uncertainty over small gaps. Using actual trajectories, we combine bridgelets into probabilistic bridges that are specific to absolute start and end locations on the map. The resulting bridges give the probability of visiting certain in-between locations given only the start and end points. Using real trajectory data, we compare our maximum entropy bridges to a popular baseline to show how our approach is much more accurate.
[Current status of genetic study on affective disorder]. (2001)

A series of studies have indicated the existence of genetic predisposition and the polygenic-multifactorial mode of transmission for bipolar disorder(BPD). Linkage studies have defined several BPD susceptibility loci. The findings to date suggested the candidate regions on 4p16, 12q23-24, 18p11, 18q22, 21q22, Xq24-27 for BPD, although no genes has yet been definitively identified. There are also many reports on the analyses of candidate genes, using association studies. But none of gene polymorphisms have been established as firm disease alleles with sufficient replications. Novel statistical methods and development of new strategies are necessary to approach the goal of isolating susceptibility genes.
Synthesis and Morphology of Semifluorinated Polymeric Ionic Liquids (2018)

Polymeric ionic liquids (POILs) are important materials in the field of ionic liquid gating, requiring the precise synthesis of new POILs with tailored structural variability and defined nanoscaled structure. In the current contribution, using reversible addition–fragmentation chain-transfer polymerization (RAFT) technique, the homopolymerization of three imidazolium-based acrylates with different counterions is reported, namely 1-[2-acryloylethyl]-3-methylimidazolium bis(trifluoromethane)sulfonamide (APMIN(Tf)2), 1-[2-acryloylethyl]-3-methylimidazolium hexafluorophosphate (APMIPF6), and 1-[2-acryloylethyl]-3-methylimidazolium tetrafluoroborate (APMIBF4), to afford the respective poly(ionic liquid)s (POILs). All polymerizations display pseudo-first-order kinetics and a rapid growth of P(APMIN(Tf)2), P(APMIPF6), and P(APMIBF4), yielding homopolymers with controlled molar mass, revealing a strong influence of the counterions on the polymerization rate, increasing in the order of BF4Θ < PF6Θ < N(Tf)2Θ. As a direct determination of molecular weights via size exclusion chromatography (SEC) of the POIL homopolymers from RI and UV detectors was not successful, we developed an alternative strategy to generate accurate, “normal” SEC peaks of POILs using RAFT copolymerization technique: APMIN(Tf)2 was copolymerized with a semifluorinated monomer 2,2,2-trifluoroethyl acrylate (TFEA), allowing to study the influence of the comonomer feeding ratio on the resulting SEC signals of P(APMIN(Tf)2-co-TFEA) copolymers. We found that when the feeding molar ratio of TFEA is adjusted to 0.77, symmetric SEC peaks from the resulting P(APMIN(Tf)2-co-TFEA) copolymers are obtained. Furthermore, copolymerizations of TFEA with the other two IL monomers, APMIPF6 and APMIBF4, are also performed to afford P(APMIPF6-co-TFEA) and P(APMIBF4-co-TFEA) copolymers. Moreover, the propensity of the so-obtained POIL random copolymers P(APMIN(Tf)2-co-TFEA), P(APMIPF6-co-TFEA), and P(APMIBF4-co-TFEA) to grow a new block (polypentafluorostyrene, PPFS) is explored, intending to generate the fluorinated POIL triblock copolymers P(APMIN(Tf)2-co-TFEA)-b-PPFS-b-P(APMIN(Tf)2-co-TFEA), P(APMIPF6-co-TFEA)-b-PPFS-b-P(APMIPF6-co-TFEA), and P(APMIBF4-co-TFEA)-b-PPFS-b-P(APMIBF4-co-TFEA), respectively. The morphology and size of such semifluorinated POILs are investigated using transition electron microscopy (TEM), atomic force microscopy (AFM), and dynamic light scattering (DLS), revealing the aggregated nanoparticles from P(APMIN(Tf)2-co-TFEA) due to the mesoscale organization of the ionic “multiplets”. Significantly larger and crowded globular objects/aggregates are formed from the chain-extended POIL triblock P(APMIN(Tf)2-co-TFEA)-b-PPFS-b-P(APMIN(Tf)2-co-TFEA) copolymers under the same conditions.
Supplementary Fig. S8 from Quantitative live imaging of cancer and normal cells treated with Kinesin-5 inhibitors indicates significant differences in phenotypic responses and cell fate (2023)

Supplementary Fig. S8 from Quantitative live imaging of cancer and normal cells treated with Kinesin-5 inhibitors indicates significant differences in phenotypic responses and cell fate
Modeling of Electrochemical Cells Including Diffusion, Migration, and Unsteady‐State Effects (1987)

presented in this paper, but a quantitative substantiation cannot be made at present due to the unknown magnitudes of the current density gradients.
Virtual Crossmatching in Kidney Transplantation: The Wait Is Over (2020)

Kidney transplantation can be safely performed with virtual crossmatching, without a prospective physical crossmatch with improved CIT and potentially reduced DGF rate without increased risk of rejection.
Infrared Fingerprint Engineering: A Molecular‐Design Approach to Long‐Wave Infrared Transparency with Polymeric Materials (2019)

Optical technologies in the long-wave infrared (LWIR) spectrum (7-14 μm) offer important advantages for high-resolution thermal imaging in near or complete darkness. The use of polymeric transmissive materials for IR imaging offers numerous cost and processing advantages but suffers from inferior optical properties in the LWIR spectrum. A major challenge in the design of LWIR-transparent organic materials is that nearly all organic molecules absorb in this spectral window which lies within the so-called IR-fingerprint region. We report on a new molecular-design approach to prepare high refractive index polymers with enhanced LWIR transparency. Computational methods were used to accelerate the design of novel molecules and polymers. Using this approach, we have prepared chalcogenide hybrid inorganic/organic polymers (CHIPs) with enhanced LWIR transparency and thermomechanical properties via inverse vulcanization of elemental sulfur with new organic co-monomers.
Towards the Latent Transcriptome (2018)

In this work we propose a method to compute continuous embeddings for kmers from raw RNA-seq data, without the need for alignment to a reference genome. The approach uses an RNN to transform kmers of the RNA-seq reads into a 2 dimensional representation that is used to predict abundance of each kmer. We report that our model captures information of both DNA sequence similarity as well as DNA sequence abundance in the embedding latent space, that we call the Latent Transcriptome. We confirm the quality of these vectors by comparing them to known gene sub-structures and report that the latent space recovers exon information from raw RNA-Seq data from acute myeloid leukemia patients. Furthermore we show that this latent space allows the detection of genomic abnormalities such as translocations as well as patient-specific mutations, making this representation space both useful for visualization as well as analysis.
Decomposition of transcriptional responses provides insights into differential antibiotic susceptibility (2020)

Abstract Responses of bacteria to antibiotic treatments depend on their environments. Differences between in vitro testing conditions and the physiological environments inside patients have resulted in poor antibiotic susceptibility predictions, contributing to treatment failures in the clinic. Here, we investigate how media composition affects antibiotic susceptibility in the laboratory strain E. coli K-12 MG1655, and contextualize these changes through machine learning of transcriptomics data. We show that complex transcriptional changes induced by different media or antibiotic treatment can be traced back to a few key regulators. Integration of results from machine learning with biochemical knowledge reveals fundamental shifts in respiration and iron availability that may explain media-dependent differential susceptibility to antibiotics. The data generation and analytical workflow used here can interrogate the regulatory state of a pathogen under any condition, and can be extended to additional strains and organisms for which data is available.
Unifying on-chip and inter-node switching within the Anton 2 network (2014)

The design of network architectures has become increasingly complex as the chips connected by inter-node networkshave emerged as distributed systems in their own right, complete with their own on-chip networks. In Anton 2, a massively parallel special-purpose supercomputer for molecular dynamics simulations, we managed this complexity by reusing the on-chip network as a switch for inter-node traffic. This unified network approach introduces several design challenges. Maintaining fairness within the inter-node network is difficult, as each hop becomes a sequence of many on-chip routing decisions. We addressed this problem with an inverse-weighted arbiter that ensures fairness with low implementation costs. Balancing the load of inter-node traffic across the on-chip network is also critical, and we adopted an optimization approach to design an appropriate routing algorithm. Finally, the on-chip routers carry inter-node traffic, so they must implement inter-node virtual channels to avoid deadlock. In order to keep the routers small and fast, we developed a deadlock-free routing algorithm that reduces the number of virtual channels by one-third relative to previous approaches. The resulting Anton 2 network implementation efficiently utilizes its inter-node channels and provides low messaging latency, while occupying a modest amount of silicon area
The WebShop E-Commerce Framework (2014)

This paper presents an e-commerce framework called WebShop, which was developed by the authors for the purpose of demonstrating the use of UML and the UML-F in the domain of Web applications. Thus, the WebShop is not regarded as a full-fledged system out of which real Web stores can be derived. For example, the framework in the presented version does not encounter security features. However, it presents the most important variation points related to online catalogs. The UML-F Web site http://www.UML-F.net provides the Java source files and some sample adaptations of WebShop.
Dietary Management for Faecal Microbiota Transplant: An International Survey of Clinical and Research Practice, Knowledge and Attitudes (2021)

Faecal microbiota transplantation (FMT) involves homogenisation and infusion of stool from a healthy, highly screened individual into the bowel of an unwell recipient. Dietary intake is an important modulator of the gut microbiota. Currently there are no clinical practice recommendations available to provide patients or stool donors with dietary advice for FMT. This study aimed to conduct an international survey to examine health professionals and researchers' attitudes, knowledge and current practice recommendations for diet in patients undergoing FMT. An online, cross-sectional, international survey comprising of health professionals and researchers managing patients undergoing treatment with FMT was conducted between July-October 2020. Purposeful and snowball sampling techniques were employed to identify eligible participants who were sent an email invitation and two email reminders with a link to participate in the electronic survey. The survey comprised 21 questions covering demographics, current practice, beliefs and future directions regarding FMT and diet. Closed responses were calculated as proportions of total responses. Open-ended responses were systematically categorised. Common themes were identified from recurring categories. Fifty-eight (M 60%) participants from 14 countries completed the survey. Participants were gastroenterologists (55%), with 1-5 years' experience working in FMT (48%) and treating up to ten patients with FMT per month (74%). Participants agreed that diet was an important consideration for FMT recipients and stool donors (both 71%), and that it would affect the outcomes of FMT. However, they did not feel confident in providing dietary advice to patients, nor that there was sufficient evidence to provide dietary advice and this was reflected in their practice. Future research must collect information on the dietary intake of patients and donors to better understand the relationship between diet and FMT outcomes. In clinical practice, promotion of healthy eating guidelines aligns with current practice and literature.
Surface-Enhanced Femtosecond Stimulated Raman Spectroscopy (2011)

Surface-enhanced Raman spectroscopy (SERS) and femtosecond stimulated Raman spectroscopy (FSRS) have revolutionized the Raman spectroscopy field. SERS provides spectroscopic detection of single molecules, and FSRS enables the acquisition of Raman spectra on the ultrafast time scale of molecular motion. Here, we present the first successful combination of these two techniques, demonstrating surface-enhanced femtosecond stimulated Raman spectroscopy (SE-FSRS) using gold nanoantennas with embedded reporter molecules. Using a picosecond Raman and femtosecond probe pulse, the time- and ensemble-averaged enhancement factor is estimated to be in the range of 10(4)-10(6). We report the line shapes, power dependence, and magnitude of the SE-FSRS signal and discuss contributions to sample degradation on the minute time scale. With these first successful proof-of-principle experiments, time-resolved SE-FSRS techniques can now be rationally attempted with the goals of investigating the dynamics of plasmonic materials as well as examining the contributions of environmental heterogeneities by probing more homogeneous molecular subsets.