gebhart/patrepeval huggingface dataset:
Genetic determinants of ammonia-induced acute lung injury in mice (2020)

In this study, a genetically diverse panel of 43 mouse strains was exposed to ammonia, and genome-wide association mapping was performed employing a single-nucleotide polymorphism (SNP) assembly. Transcriptomic analysis was used to help resolve the genetic determinants of ammonia-induced acute lung injury. The encoded proteins were prioritized based on molecular function, nonsynonymous SNP within a functional domain or SNP within the promoter region that altered expression. This integrative functional approach revealed 14 candidate genes that included <i>Aatf, Avil, Cep162</i>, <i>Hrh4</i>, <i>Lama3, Plcb4</i>, and <i>Ube2cbp</i>, which had significant SNP associations, and <i>Aff1</i>, <i>Bcar3</i>, <i>Cntn4</i>, <i>Kcnq5</i>, <i>Prdm10</i>, <i>Ptcd3</i>, and <i>Snx19</i>, which had suggestive SNP associations. Of these genes, <i>Bcar3</i>, <i>Cep162</i>, <i>Hrh4</i>, <i>Kcnq5</i>, and <i>Lama3</i> are particularly noteworthy and had pathophysiological roles that could be associated with acute lung injury in several ways.
Modeling and testing of a new kind of an axial HTS motor which includes a superconducting magnetic coupling for naval propulsion (2014)

International audience
Cutting Edge: Mutation of Francisella tularensis mviN Leads to Increased Macrophage Absent in Melanoma 2 Inflammasome Activation and a Loss of Virulence (2010)

The mechanisms by which the intracellular pathogen Francisella tularensis evades innate immunity are not well defined. We have identified a gene with homology to Escherichia coli mviN, a putative lipid II flippase, which F. tularensis uses to evade activation of innate immune pathways. Infection of mice with a F. tularensis mviN mutant resulted in improved survival and decreased bacterial burdens compared to infection with wild-type F. tularensis. The mviN mutant also induced increased absent in melanoma 2 inflammasome-dependent IL-1beta secretion and cytotoxicity in macrophages. The compromised in vivo virulence of the mviN mutant depended upon inflammasome activation, as caspase 1- and apoptosis-associated speck-like protein containing a caspase recruitment domain-deficient mice did not exhibit preferential survival following infection. This study demonstrates that mviN limits F. tularensis-induced absent in melanoma 2 inflammasome activation, which is critical for its virulence in vivo.
The State of the Art in Distributed Mobile Robotics (2001)

Distributed Mobile Robotics (DMR) is a multidisciplinary research area with many open research questions. This is a survey of the state of the art in Distributed Mobile Robotics research. DMR is sometimes referred to as cooperative robotics or multi-robotic systems. DMR is about how multiple robots can cooperate to achieve goals and complete tasks better than single robot systems. It covers architectures, communication, learning, exploration and many other areas presented in this master thesis.
Measurements of the inclusive and differential production cross sections of a top-quark–antiquark pair in association with a Z boson at $$\sqrt{s} = 13$$ TeV with the ATLAS detector (2021)

Abstract Measurements of both the inclusive and differential production cross sections of a top-quark–antiquark pair in association with a Z boson ( $$t{\bar{t}}Z$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>t</mml:mi> <mml:mover> <mml:mrow> <mml:mi>t</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>¯</mml:mo> </mml:mrow> </mml:mover> <mml:mi>Z</mml:mi> </mml:mrow> </mml:math> ) are presented. The measurements are performed by targeting final states with three or four isolated leptons (electrons or muons) and are based on $$\sqrt{s} = 13$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:msqrt> <mml:mi>s</mml:mi> </mml:msqrt> <mml:mo>=</mml:mo> <mml:mn>13</mml:mn> </mml:mrow> </mml:math> TeV proton–proton collision data with an integrated luminosity of 139 $$\hbox {fb}^{-1}$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:msup> <mml:mtext>fb</mml:mtext> <mml:mrow> <mml:mo>-</mml:mo> <mml:mn>1</mml:mn> </mml:mrow> </mml:msup> </mml:math> , recorded from 2015 to 2018 with the ATLAS detector at the CERN Large Hadron Collider. The inclusive cross section is measured to be $$\sigma _{t{\bar{t}}Z} = 0.99 \pm 0.05$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:msub> <mml:mi>σ</mml:mi> <mml:mrow> <mml:mi>t</mml:mi> <mml:mover> <mml:mrow> <mml:mi>t</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>¯</mml:mo> </mml:mrow> </mml:mover> <mml:mi>Z</mml:mi> </mml:mrow> </mml:msub> <mml:mo>=</mml:mo> <mml:mn>0.99</mml:mn> <mml:mo>±</mml:mo> <mml:mn>0.05</mml:mn> </mml:mrow> </mml:math> (stat.) $$\pm \, 0.08$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mo>±</mml:mo> <mml:mspace/> <mml:mn>0.08</mml:mn> </mml:mrow> </mml:math> (syst.) pb, in agreement with the most precise theoretical predictions. The differential measurements are presented as a function of a number of kinematic variables which probe the kinematics of the $$t{\bar{t}}Z$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:mi>t</mml:mi> <mml:mover> <mml:mrow> <mml:mi>t</mml:mi> </mml:mrow> <mml:mrow> <mml:mo>¯</mml:mo> </mml:mrow> </mml:mover> <mml:mi>Z</mml:mi> </mml:mrow> </mml:math> system. Both absolute and normalised differential cross-section measurements are performed at particle and parton levels for specific fiducial volumes and are compared with theoretical predictions at different levels of precision, based on a $$\chi ^{2}/$$ <mml:math xmlns:mml="http://www.w3.org/1998/Math/MathML"> <mml:mrow> <mml:msup> <mml:mi>χ</mml:mi> <mml:mn>2</mml:mn> </mml:msup> <mml:mo>/</mml:mo> </mml:mrow> </mml:math> ndf and p value computation. Overall, good agreement is observed between the unfolded data and the predictions.
CNR–Fincantieri Joint Projects: A Successful Example of Collaboration between Research and Industry Based on the Open Innovation Approach (2020)

This paper contributes to the open innovation literature by presenting a successful application of the open innovation approach in the maritime sector between Fincantieri (FC), one of the world&rsquo;s largest shipbuilding groups, and the National Research Council of Italy (CNR, Consiglio Nazionale delle Ricerche), the largest research entity in Italy. By using external sources of scientific innovation, specifically 10 different groups of researchers from CNR research institutes and three universities, and by integrating these groups with a team of expert Fincantieri&rsquo;s designers, the company obtained significant advances in terms of technological content and competitiveness. This collaboration is an evident example of successful implementation of the open innovation paradigm, where a big company (Fincantieri) uses external sources of innovation (the CNR researchers) to advance its technology by carrying out six different projects simultaneously. The paper presents the adopted open innovation model, the governance approach specifically implemented by the company and the major scientific contents and outcomes of the constellation of the six connected projects.
p130Cas mediates the transforming properties of the anaplastic lymphoma kinase (2005)

Translocations of the anaplastic lymphoma kinase (ALK) gene have been described in anaplastic large-cell lymphomas (ALCLs) and in stromal tumors. The most frequent translocation, t(2;5), generates the fusion protein nucleophosmin (NPM)-ALK with intrinsic tyrosine kinase activity. Along with transformation, NPM-ALK induces morphologic changes in fibroblasts and lymphoid cells, suggesting a direct role of ALK in cell shaping. In this study, we used a mass-spectrometry-based proteomic approach to search for proteins involved in cytoskeleton remodeling and identified p130Cas (p130 Crk-associated substrate) as a novel interactor of NPM-ALK. In 293 cells and in fibroblasts as well as in human ALK-positive lymphoma cell lines, NPM-ALK was able to bind p130Cas and to induce its phosphorylation. Both of the effects were dependent on ALK kinase activity and on the adaptor protein growth factor receptor-bound protein 2 (Grb2), since no binding or phosphorylation was found with the kinase-dead mutant NPM-ALK(K210R) or in the presence of a Grb2 dominant-negative protein. Phosphorylation of p130Cas by NPM-ALK was partially independent from Src (tyrosine kinase pp60c-src) kinase activity, as it was still detectable in Syf-/- cells. Finally, p130Cas-/- (also known as Bcar1-/-) fibroblasts expressing NPM-ALK showed impaired actin filament depolymerization and were no longer transformed compared with wild-type cells, indicating an essential role of p130Cas activation in ALK-mediated transformation.
GCOOS and the oil and gas industry an opportunity for an IOOS-industry partnership (2009)

At the IOOS Industry Day, in March 2005, at the U.S. Chamber of Commerce, Admiral James Watkins made the following statement: "The role of industry in the building, operation and maintenance of the IOOS should be clearly defined. Industry should not be viewed solely as a provider of technology or a user of the system, but as a full partner in the planning, implementation and operation of the system. This will require developing joint strategies with industry, for things as diverse as long-term sensor and platform technology, protection of intellectual property rights, and identification of possible ventures to create value-added products." In the Gulf of Mexico, an excellent opportunity for such a partnership to develop exists between the oil and gas industry and the Gulf of Mexico Coastal Observing System (GCOOS) Regional Association. This paper discusses the needs of the oil and gas industry for observing systems, the opportunities for technological collaboration and for development of value-added products. Examples of the oil and gas industry and GCOOS working as a partnership are presented, and future strategies that will be pursued are discussed.
Vibrational Energies for Isotopically Substituted Water: Application to Laser Isotope Separation (1976)

Band origins of tritiated water, HTO, DTO, T 2 O, many of which have not been observed, are calculated with variational vibrational methods using an experimental potential function. The results are quite accurate and should aid in developing laser isotope separation procedures to remove tritium from water. The effect of dimer formation on these band origins is also investigated using the Wilson FG method with a theoretical harmonic force field and found to be important.
High Speed Silicon on Insulator Phase Modulator. (2009)

Over the past 15 years, much progress has been made in the development of active optical devices in silicon on insulator. It is now, widely accepted that the free carrier effect is one of the most efficient modulation and switching mechanism in silicon, and also facilitates the potential advantages of combining optical and electronic devices onto a single substrate rather than using discrete components. Moreover, the providence of using existing silicon CMOS microelectronics fabrication technology and silicon's wide abundance has proved to be attractive. The aim of this thesis is to report the results of an investigation into the design and fabrication of high speed silicon on insulator phase modulators using a pn junction inserted in a rib waveguide. An in depth analysis of the performance of several modulators operating using this principle is given. We propose a micrometer sized polarisation independent rib waveguide modulator based on this principle. The device is predicted to require a pi phase shift of voltage of 10 volts for a length of 2.5mm, with an operating bandwidth of over 15 GHz. Another key result is the development of an improved modulator based on the same principle of operation but inserted in a submicrometer size rib waveguide. This specific device is also predicted to require a pi phase shift of voltage of 10 volts for a length of 2.5mm, but shows a much improved operating bandwidth of over 40 GHz. In order to simplify the fabrication of a depletion type modulator, a third modulator design is proposed and fabricated. The junction is positioned laterally in order to avoid the need for a top contact and is formed using ion implantation. The device is based on a nano-wire rib waveguide and is inserted into a ring resonator. The reported bandwidth is 19 GHz in a ring with a diameter of 40 microns.
Identification of bridgin, an unconventional linker, connects the outer kinetochore to centromeric chromatin (2019)

ABSTRACT The microtubule-binding outer kinetochore is linked to centromeric chromatin through the inner kinetochore CENP-C Mif2 , CENP-T Cnn1 , and CENP-U Ame1 pathways. These are the only known kinetochore linker proteins across eukaryotes. Linker proteins are structurally less conserved than their outer kinetochore counterparts. Here, we demonstrate the recurrent loss of most inner kinetochore CCAN, including certain linker proteins during evolution in the fungal phylum of Basidiomycota. By studying the kinetochore interactome, a previously undescribed linker protein, bridgin was identified in the basidiomycete Cryptococcus neoformans , a human fungal pathogen . In vivo and in vitro functional analyses of bridgin reveal that it binds to the outer kinetochore and centromere chromatin simultaneously to ensure accurate kinetochore-microtubule attachments. Unlike known linker proteins, bridgin is recruited by the outer kinetochore. Homologs of bridgin were identified outside fungi. These results showcase a divergent strategy, with a more ancient origin than fungi, to link the outer kinetochore to centromeric chromatin.
Acid-durable electride with layered ruthenium for ammonia synthesis: boosting the activity via selective etching (2019)

Ruthenium (Ru) loaded catalysts are of significant interest for ammonia synthesis under mild reaction conditions. The B<sub>5</sub> sites have been reported as the active sites for ammonia formation, <i>i.e.</i>, Ru with other coordinations were inactive, which has limited the utilization efficiency of Ru metal. The implantation of Ru into intermetallic compounds is considered to be a promising approach to tune the catalytic activity and utilization efficiency of Ru. Here we report an acid-durable electride, LnRuSi (Ln = La, Ce, Pr and Nd), as a B<sub>5</sub>-site-free Ru catalyst. The active Ru plane with a negative charge is selectively exposed by chemical etching using disodium dihydrogen ethylenediaminetetraacetate (EDTA-2Na) acid, which leads to 2-4-fold enhancement in the ammonia formation rate compared with that of the original catalyst. The turnover frequency (TOF) of LnRuSi is estimated to be approximately 0.06 s<sup>-1</sup>, which is 600 times higher than that of pure Ru powder. Density functional theory (DFT) calculations revealed that the dissociation of N<sub>2</sub> occurs easily on the exposed Ru plane of LaRuSi. This systematic study provides firm evidence that layered Ru with a negative charge in LnRuSi is a new type of active site that differs significantly from B<sub>5</sub> sites.
Anti-CEA Pretargeted Immuno-PET Shows Higher Sensitivity Than DOPA PET/CT in Detecting Relapsing Metastatic Medullary Thyroid Carcinoma: Post Hoc Analysis of the iPET-MTC Study (2021)

Pretargeting parameters for the use of anti-carcinoembryonic antigen (CEA) bispecific monoclonal antibody TF2 and the <sup>68</sup>Ga-labeled IMP288 peptide for immuno-PET have been optimized in a first-in-humans study performed on medullary thyroid carcinoma (MTC) patients (the iPET-MTC study). The aim of this post hoc analysis was to determine the sensitivity of immuno-PET in relapsing MTC patients, in comparison with conventional imaging and <sup>18</sup>F-l-dihydroxyphenylalanine (<sup>18</sup>F-DOPA) PET/CT. <b>Methods:</b> Twenty-five studies were analyzed in 22 patients. All patients underwent immuno-PET 1 and 2 h after <sup>68</sup>Ga-IMP288 injection pretargeted by TF2, in addition to neck, thoracic, abdominal, and pelvic CT; bone and liver MRI; and <sup>18</sup>F-DOPA PET/CT. The gold standard was histology or confirmation by one other imaging method or by imaging follow-up. <b>Results:</b> In total, 190 lesions were confirmed by the gold standard: 89 in lymph nodes, 14 in lungs, 46 in liver, 37 in bone, and 4 in other sites (subcutaneous tissue, heart, brain, and pancreas). The number of abnormal foci detected by immuno-PET was 210. Among these, 174 (83%) were confirmed as true-positive by the gold standard. Immuno-PET showed a higher overall sensitivity (92%) than <sup>18</sup>F-DOPA PET/CT (65%). Regarding metastatic sites, immuno-PET had a higher sensitivity than CT, <sup>18</sup>F-DOPA PET/CT, or MRI for lymph nodes (98% vs. 83% for CT and 70% for <sup>18</sup>F-DOPA PET/CT), liver (98% vs. 87% for CT, 65% for <sup>18</sup>F-DOPA PET/CT, and 89% for MRI), and bone (92% vs. 64% for <sup>18</sup>F-DOPA PET/CT and 86% for MRI), whereas sensitivity was lower for lung metastases (29% vs. 100% for CT and 14% for <sup>18</sup>F-DOPA PET/CT). Tumor SUV<sub>max</sub> at 60 min ranged from 1.2 to 59.0, with intra- and interpatient variability. <b>Conclusion:</b> This post hoc study demonstrates that anti-carcinoembryonic antigen immuno-PET is an effective procedure for detecting metastatic MTC lesions. Immuno-PET showed a higher overall sensitivity than <sup>18</sup>F-DOPA PET/CT for disclosing metastases, except for the lung, where CT remains the most effective examination.
Wide-bandwidth unidirectional ring cavity wavelength-swept laser with polygonal scanning wavelength filter (2022)

We propose and demonstrate a wide-bandwidth unidirectional ring cavity wavelength-swept laser using a polygonal scanning wavelength filter and two semiconductor optical amplifiers (SOAs). The center wavelengths of the gain media of the two SOAs are 1020 nm and 1140 nm, respectively. At a scanning speed of 1.8 kHz of the WSL, a wide scanning band of about 223 nm with a 10-dB bandwidth from 959 nm to 1182 nm and an average optical power of 58.28 mW were obtained. It can be used as a broadband optical source for dynamic optical fiber sensor or optical coherence tomography.
Update in Diffuse Parenchymal Lung Disease 2013 (2015)

The period covered by this update can be considered as the most exciting period in idiopathic pulmonary fibrosis (IPF) research. It started with the identification of genetic variants that are associated with IPF in the majority of patients and continued with discovery of molecular and genetic biomarkers that predict distinct clinical presentations of patients with IPF and potential new biological mechanisms. More importantly, the period ends with the publication of two groundbreaking studies that confirmed that two drugs, pirfenidone and nintedanib, slowed disease progression, leading to a historic approval by the FDA. In this update, we describe these key advances, their scientific and significant clinical implications, and future directions.
<title>Processes on annealed and quenched power-law small-world networks</title> (2005)

We considered diffusion driven processes on power-law small-world networks: random walk on randomly folded polymers and surface growth related to synchronization problems. We found a rich phase diagram, with different transient and recurrent phases. The calculations were done in two limiting cases: the annealed case, when the rearrangement of the random links is fast (the configuration of the polymer changes fast) and the quenched case, when the link rearrangement is slow (the polymer configuration is static) compared to the motion of the random walker. In the quenched case, the random links introduced in small-world networks often lead to mean-filed coupling (i.e., the random links can be treated in an annealed fashion) but in some systems mean-field predictions break down, such as for diffusion in one dimension. This break-down can be understood treating the random links perturbatively where the mean field prediction appears as the lowest order term of a naive perturbation expansion. Our results were obtained using self-consisten perturbation theory. Numerical results will also be shown as a confirmation of the theory.
Inter-AS Option B between NVO3 and BGP/MPLS IP VPN network through centralized architecture (2015)

This draft describes the solution of vanilla inter-as option-B
connection between NVO3 network and MPLS/IP VPN network through
centralized NVE-NVA architecture. The ASBR located in NVO3 network is
called ASBR-d, NVO3 tunnel and MPLS tunnel stitching should be
performed on the ASBR-d. No distributed BGP VPN protocol (RFC4364) is
running between NVEs and ASBR-d in NVO3 network, NVEs and ASBR-d are
controlled by centralized NVA.
ChemInform Abstract: Stereoselective Hetero Diels—Alder Reactions of Chiral Tricarbonyl (η6‐Benzaldehyde)chromium Complexes. (2002)

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.
Role of distributed Bragg reflection in photonic-crystal optical waveguides (2001)

We show that the properties of the confined modes of a photonic band-gap (PBG) waveguide can be calculated with good accuracy by replacing it with an effective corrugated waveguide that represents only the structure in the vicinity of the middle slab. Such a replacement is helpful in the design of the PBG waveguides as well as in the understanding and analysis of the coupling of different waveguides.
Seismic detection of fractures from injection illustrated through a field example (2013)

Detection of fractures using geophysical methods has proven elusive. A significant amount of theory has been developed over the years; however, convincing applications of the theory to field data have been scarce. In this article, we show a clear example of seismic amplitude changes resulting from controlled fracturing from injection at the Alpine Field in Alaska. We use the ability of time-lapse seismic (4D) data to remove the background geology so that the seismic amplitude changes caused by the creation of fracture systems are clearly exposed around injectors.
Selective K-means Tree Search (2015)

In object recognition and image retrieval, an inverted indexing method is used to solve the approximate nearest neighbor search problem. In these tasks, inverted indexing provides a nonexhaustive solution to large-scale search. However, a problem of previous inverted indexing methods is that a large-scale inverted index is required to achieve a high search recall rate. In this study, we address the problem of reducing the time required to build an inverted index without degrading the search accuracy and speed. Thus, we propose a selective k-means tree search method that combines the power of both hierarchical k-means tree and selective nonexhaustive search. Experiments based on approximate nearest neighbor search using a large dataset comprising one billion SIFT features showed that the hierarchical inverted file based on the selective k-means tree method could be built six times faster, while obtaining almost the same recall and search speed as the state-of-the-art inverted indexing methods.