gebhart/patrepeval huggingface dataset:
Identification and characterization of N-glycosylation and structural genes involved in flagellation of methanogenic archaea from the genus Methanococcus (2007)

The archaeal flagellum is a unique motility structure.Although functionally similar to the bacterial flagellum, the archaeal flagellum shares more similarities to the bacterial type IV pilus.Using the methanogenic archaea Methanococcus voltae and Methanococcus maripaludis as model organisms, the structural and post-translational requirements for flagellation have been investigated.Known to contain glycosylated flagellin proteins, the N-glycosylation pathway was studied in M. voltae.A number of possible glycosylation component genes, including glycosyl transferases, flippases and an oligosaccharyl transferase were inactivated or deleted in M. voltae and their resulting phenotypes were characterized.Four glycosyl transferases were identified as involved in the assembly of the M. voltae glycan structure, with three of these enzymes, AglA, AglC1 and AglC2, experimentally verified.As well, the oligosaccharyl transferase, AglB, has also been experimentally confirmed and was found to be the homolog of the bacterial and eukaryotic equivalents, PglB and Stt3p, respectively.Disruption of glycan synthesis or attachment resulted in very poorly or non-flagellated cells, implicating for the first time that the glycan structure on archaeal flagellins is necessary for proper flagella assembly and/or stability.These findings also represent the first proven N-glycosylation genes within the domain Archaea.New markerless, in-frame deletion methodology has allowed for advanced studies of a demonstrated and putative set of flagella-related genes in M. maripaludis.This collection of 11 co-transcribed genes, consisting of three flagellin genes (flaB1-flaB3), six genes of unknown function (flaC-flaH) and two away before I started graduate school in the hopes that she would be proud of what her daughter had become.I dedicate this PhD thesis to my father,
Mars Acoustics: What We Can Learn from a Microphone on the Mars 2020 Rover Mast (2019)

International audience
Information Assurance Cyber Ecology (2003)

Abstract : Cyber Ecology is a systems-level discipline addressing the emergent properties of computer networks and their responses to perturbations, such as attacks. It is a cross-disciplinary synthesis incorporating elements of biology, epidemiology, ecology, computer science, and system engineering. In this work, methodologies from epidemiology and ecology were applied to information assurance. The goals of the Cyber Ecology project were to: (1) enable and demonstrate the discovery of noel IA technologies for the detection and mitigation of damage due to cyber attack through the application of ecological models, (2) design, develop, document, evaluate and deliver methodologies to assess the behavior of computer networks from attacks by infectious agents and direct attacks, and (3) develop and demonstrate methods to make system-level assessments about network health. The work in this report spans four major areas: (1) definition and scope of Cyber Ecology, (2) application of ecological concepts to the classification of malicious code, in which insider threat is briefly discussed, (3) epidemiological applications of Cyber Ecology, and 94) system health expressed as emergent properties that can be assessed through evaluation of network (community) structure.
Automated Renal Stone Volume Measurement by Noncontrast Computerized Tomography is More Reproducible Than Manual Linear Size Measurement (2011)

Automated noncontrast computerized tomography renal stone volume is more reproducible than manual linear size measurement and it avoids the often large interobserver variability seen with manual assessment. Since small linear differences correspond to much larger volume changes, greater absolute volume errors are acceptable. Automated volume measurement may be an improved clinical parameter to use for following the renal stone burden.
Diimide as a reagent for the hydrogenation of unsaturated polymers (1973)

Abstract The hydrogenation of various butadiene polymers and of polyisoprene with diimide generated in situ from p ‐toluenesulfonylhydrazide was investigated. The best results were obtained when concentrated polymer solutions were heated with a five‐fold excess of p ‐toluenesulfonylhydrazide. Complete hydrogenation of all polymers was obtained under such conditions, but some 1,2‐butadienyl units were found to contain fragments derived from p ‐toluenesulfonylhydrazide. Diimide seems to be a good reagent for hydrogenating unsaturated units in polymers, but mild conditions for generating it are needed if side reactions are to be avoided.
Differential 28-Days Cyclic Modulation of Affective Intensity in Female and Male Participants via Social Media (2019)

The menstrual cycle affects many aspects of female physiology, from the immune system to behavioral and emotional regulation. It is unclear however if these physiological changes are reflected in everyday, naturalistic language production, and moreover whether these putative effects can be consistently quantified. Using a novel approach based on social networks, we characterized linguistic expression differences in female and male volunteers over the course of several months, while having no physiological or reported information of the female participants' menstrual cycles. We used a simple algorithm to quantify the linguistic affect intensity of 418 (184 females and 234 males) subjects using their social networks production and found a 7-day modulatory cycle of affect intensity that corresponds to labor-week fluctuations, with no significant difference by biological sex, and a 28-day cycle over which females are significantly different than males. Our results are consistent with the hypothesis that the menstrual cycle modulates affective features of naturalistic linguistic production.
Long-term follow-up observations of extreme coronal line emitting galaxies (2023)

We present new spectroscopic and photometric follow-up observations of the known sample of extreme coronal line emitting galaxies (ECLEs) identified in the Sloan Digital Sky Survey (SDSS). With these new data, observations of the ECLE sample now span a period of two decades following their initial SDSS detections. We confirm the nonrecurrence of the iron coronal line signatures in five of the seven objects, further supporting their identification as the transient light echoes of tidal disruption events (TDEs). Photometric observations of these objects in optical bands show little overall evolution. In contrast, mid-infrared (MIR) observations show ongoing long-term declines. The remaining two objects had been classified as active galactic nuclei (AGN) with unusually strong coronal lines rather than being TDE related, given the persistence of the coronal lines in earlier follow-up spectra. We confirm this classification, with our spectra continuing to show the presence of strong, unchanged coronal-line features and AGN-like MIR colours and behaviour. We have constructed spectral templates of both subtypes of ECLE to aid in distinguishing the likely origin of newly discovered ECLEs. We highlight the need for higher cadence, and more rapid, follow-up observations of such objects to better constrain their properties and evolution. We also discuss the relationships between ECLEs, TDEs, and other identified transients having significant MIR variability.
Long-term neuropsychological and behavioral outcome of mild and moderate hypoxic ischemic encephalopathy (2022)

We found evidence that both mild and moderate survivors of HIE experience neuropsychological, school and peer relationship problems in adolescence.
Characterisation of copper films processed by evaporation (2013)

Surface functionalisation and processing of films and coatings are more and more important for advanced engineering applications. The present study reports the specific microstructure of copper films processed by evaporation. This process consists in the condensation of a metallic vapour that could be accelerated through a sonic ejector. Characterisation by scanning electron microscopy (SEM), electron-backscattering diffraction (EBSD) and X-ray diffraction (XRD) highlighted the relationship between the operating conditions (temperature, pressure, …) and the grain morphology and crystallography. Particularly, a large density of twins was found for specific evaporation temperatures. These twins are also related to the texture that forms from the first growth phenomena. The morphology of the films is also evolving through its thickness. Finally, nano-indentation revealed large levels of hardness for these films. Symp
Current Status of Metals as Therapeutic Targets in Alzheimer's Disease (2003)

There is accumulating evidence that interactions between beta-amyloid and copper, iron, and zinc are associated with the pathophysiology of Alzheimer's disease (AD). A significant dyshomeostasis of copper, iron, and zinc has been detected, and the mismanagement of these metals induces beta-amyloid precipitation and neurotoxicity. Chelating agents offer a potential therapeutic solution to the neurotoxicity induced by copper and iron dyshomeostasis. Currently, the copper and zinc chelating agent clioquinol represents a potential therapeutic route that may not only inhibit beta-amyloid neurotoxicity, but may also reverse the accumulation of neocortical beta-amyloid. A Phase II double-blind clinical trial of clioquinol with B12 supplementation will be published soon, and the results are promising. This article summarizes the role of transition metals in amyloidgenesis and reviews the potential promise of chelation therapy as a treatment for AD.
INTERFACIAL MICROSTRUCTURE AND FRACTURE CHARACTERIZATION OF Al18B4O33/Al ALLOY COMPOSITES (1999)

In order to investigate the relationship between the mechanical properties and the microstructure of aluminum borate (Al18B4O33) whisker reinforced Al-1%Mg alloy composites fabricated by the squeeze casting process, the microstructure and fractured structure were observed by scanning and transmission electron microscopy (SEM and TEM). The interface between the matrix and whisker in an as-cast composite is smooth. By heat treatment at 550°C for 2h, the MgAl2O4 reaction layer with a spinel structure is produced at the whisker/matrix interface and appears trapezoidal. The interface between Al18B4O33 and MgAl2O4 has a certain preferred orientation with very little mismatch. Cracks tend to propagate along the whisker/matrix and reaction product/matrix interfaces. The interface between the whisker and reaction product seems to have good bonding strength. There are many microcracks in the whiskers in fractured composites, which propagate along the (001) plane in the whisker. Many dislocations and strain fields were observed in the matrix around the reaction products. The bending strength decreases with increasing amount of reaction product. The degradation of the composite strength by heat treatment is caused by weakening of the strength of the interface between the reaction product and matrix or strain concentration at the convexity formed by the interfacial reaction.
Reprint of “Imaging of diamond defect sites by electron-beam-induced current” (2016)

Abstract The method of electron-beam-induced current (EBIC) was used to visualize the defect sites on a p-type (boron-doped) diamond (001) film. For this purpose, an Ag-Schottky layer (~ 2 mm × ~ 2 mm × ~ 50 nm) was deposited on the oxygen-terminated p-type diamond (001) film and used as a source of EBIC signal. The signal current of EBIC image appeared to be as large as ~ 1200 times that of the incident electron-beam current and the difference range in image intensity was also large (1–1200). The observed EBIC images showed many kinds of signatures that are possible ‘killer’ defects for Schottky devices. In order to identify ‘killer’ defects in the EBIC image, an array of Ag-dots (~ 40 × ~ 50 μm 2 ) was deposited on an oxygen-terminated p-type diamond (001) film and I–V characteristics were measured on 53 Ag-dots. The resulting I–V characteristics showed that 21 Ag-dots reside on ‘killer’ defects. Comparison between the EBIC image and the positions of Ag-dots residing on ‘killer’ defects showed that large dark dots in EBIC image correspond to the position of ‘killer’ defects. The number density of the large dark dots (i.e., ‘killer’ defects) was ~ 10 4 /cm 2 in the present sample. It is suggested that a high yield Schottky-junction device may be fabricated by avoiding these ‘killer’ defects by the use of EBIC.
Mechanical Comparison of Short Models of Nb3 Sn Low-β Quadrupole for the Hi-Lumi LHC (2021)

MQXF is the Nb 3 Sn Low-β quadrupole magnet that the HL-LHC project is planning to install in the LHC interaction regions in 2026 to increase the LHC integrated luminosity. The magnet will be fabricated in two different lengths: 4.2 m for MQXFA, built in the US by the Accelerator Upgrade Project (AUP), and 7.15 m for MQXFB, fabricated by CERN. In order to qualify the magnet design and characterize its performance with different conductors, cable geometries and pre-load configurations, five short model magnets, called MQXFS, were fabricated, assembled and tested. We compare the mechanical behavior of short model magnets using experimental data and new numerical models that take into account the measured coil sizes as a function of position.
1A1-S-038 A New Definition of Map based on Local Geometric Information and Recursive Sceme for Reliability Improvement(Vision-Based Mobile Robot 1,Mega-Integration in Robotics and Mechatronics to Assist Our Daily Lives) (2005)

The visual device can track the floor image of natural texture ． ・ The vehicle is controlled according to information of the device ． ・ This method is robust for the robot with slippery wheels ，
Specific Ki‐ras codon 61 mutations may determine the development of urethan‐induced mouse lung adenomas or adenocarcinomas (1990)

In A/J strain mice, the carcinogen urethan induces lung adenomas and adenocarcinomas that contain Ki-ras-activating mutations primarily in codon 61. These mutations affect the middle adenine in codon 61 resulting in the substitution of either arginine (AT----GC transition) or leucine (AT----TA transversion) for the wild-type glutamine. To analyze the expression of the wild-type and mutant Ki-ras mRNAs in primary mouse lung tumors and transformed mouse lung cell lines, we utilized reverse transcription of total mRNA and DNA amplification by the polymerase chain reaction. The wild-type allele of codon 61 was expressed in all normal lung and primary tumor samples and in all transformed cell lines, except one. Significantly, the leucine-substituted allele was expressed primarily in very small lung adenomas, whereas the arginine-substituted allele was expressed in large lung adenocarcinomas and transformed lung cell lines. The relative amounts of expression of the mutant versus wild-type Ki-ras alleles and the total Ki-ras mRNA expression was similar in both lung adenomas and adenocarcinomas. Further, the arginine mutant allele was present in adenocarcinomas having either alveolar or papillary tumor morphologies. These results suggest that the specific activating Ki-ras mutation is more critical to either lung adenoma or adenocarcinoma development than is the tumor's cell of origin or the extent to which the mutant alleles are expressed. A distinct role of the specific activating Ki-ras mutations in affecting lung tumor growth or malignant potential is indicated.
Paradoxical Elevation of High–Molecular Weight Adiponectin in Acquired Extreme Insulin Resistance Due to Insulin Receptor Antibodies (2007)

Total plasma adiponectin and high-molecular weight (HMW) polymeric adiponectin are strongly positively correlated with insulin sensitivity. However, we have recently reported paradoxical hyperadiponectinemia in patients with severe insulin resistance due to genetically defective insulin receptors. This implies either that the insulin receptor has a critical physiological role in controlling adiponectin production and/or clearance or that constitutive insulin receptor dysfunction influences adiponectin levels through developmental effects. The aim of the current study was to distinguish between these possibilities using a human model of reversible antibody-mediated insulin receptor dysfunction and to refine the previous observations by determining adiponectin complex distribution. Cross-sectional and longitudinal determination of fasting plasma adiponectin and adiponectin complex distribution was undertaken in patients with extreme insulin resistance due to insulin receptor mutations, anti-insulin receptor antibodies (type B insulin resistance), or an undefined cause. Despite extreme insulin resistance, patients with type B insulin resistance (all women; mean age 42 years [range 12-54]) had dramatically elevated total plasma adiponectin compared with the general population (mean 43.0 mg/l [range 31.3-54.2] vs. 8.9 mg/l [1.5-28.5 for BMI <25 kg/m(2)]), which was accounted for largely by HMW polymers. Hyperadiponectinemia resolved in parallel with reduction of insulin receptor antibodies and clinical resolution of insulin resistance. Although the well-established inverse relationship between plasma insulin and adiponectin levels may, in part, reflect positive effects of adiponectin on insulin sensitivity, these data suggest that the magnitude of the effect of insulin action on adiponectin levels may have been underestimated.
RBFNN-Based Adaptive Sliding Mode Control Design for Nonlinear Bilateral Teleoperation System Under Time-Varying Delays (2019)

The bilateral teleoperation technique has drawn much attention with its attractive superiority to implement the tasks in hazardous environments. Transmission delays and uncertainties are the two main challenges in the nonlinear bilateral teleoperation system to guarantee stability and achieve good transparency performance (including position tracking and force feedback) simultaneously. In this paper, a radial basis function neural network (RBFNN)-based adaptive sliding mode control design is developed for the nonlinear bilateral teleoperation system with transmission delays and uncertainties. For details, the reference trajectory producer is designed in both the master and slave sides to produce the passive reference trajectories for the tracking of master/slave manipulators. The RBFNN-based adaptive sliding mode controller is designed separately for the master and slave to achieve the good tracking performance under system uncertainties. To mitigate the negative effect of transmission delays on the system's stability, a projection mapping by saturation function is applied in the master side to guarantee the boundedness of the delayed environmental torque. Thus, the global stability and the good transparency performance with both position tracking and force feedback can be simultaneously achieved for our proposed method. The comparative experiment is carried out, and the results show the significant performance improvement with our proposed control design.
The smart thermostat (2010)

Heating, ventilation and cooling (HVAC) is the largest source of residential energy consumption. In this paper, we demonstrate how to use cheap and simple sensing technology to automatically sense occupancy and sleep patterns in a home, and how to use these patterns to save energy by automatically turning off the home's HVAC system. We call this approach the smart thermostat. We evaluate this approach by deploying sensors in 8 homes and comparing the expected energy usage of our algorithm against existing approaches. We demonstrate that our approach will achieve a 28% energy saving on average, at a cost of approximately $25 in sensors. In comparison, a commercially-available baseline approach that uses similar sensors saves only 6.8% energy on average, and actually increases energy consumption in 4 of the 8 households.
Aerial Interactions with Wireless Sensors (2018)

Sensing systems incorporating unmanned aerial vehicles have the potential to enable a host of hitherto impractical monitoring applications using wireless sensors in remote and extreme environments. Their use as data collection and power delivery agents can overcome challenges such as poor communications reliability in difficult RF environments and maintenance in areas dangerous for human operatives. Aerial interaction with wireless sensors presents some interesting new challenges, including selecting or designing appropriate communications protocols that must account for unique practicalities like the effects of velocity and altitude. This poster presents a practical evaluation of the effects of altitude when collecting sensor data using an unmanned aerial vehicle. We show that for an otherwise disconnected link over a long distance (70m), by increasing altitude (5m) the link is created and its signal strength continues to improve over tens of metres. This has interesting implications for protocol design and optimal aerial route planning.
Demo Abstract: Pixel Similarity-Based Content Reuse in Edge-Assisted Virtual Reality (2022)

Offloading the computation-intensive virtual reality (VR) frame rendering to the edge server is a promising approach to providing immersive VR experiences in mobile VR devices with limited computational capability and battery lifetime. However, edge-assisted VR systems require the data delivery at a high data rate, which poses challenges to the wireless communication between the edge and the device. In this demo, to reduce the communication resource consumption, we present PixSimVR, a pixel similarity-based content reuse framework for edge-assisted VR. PixSimVR analyzes the similarity of the pixels across different VR frames that correspond to different viewport poses, i.e., users’ points of view in the virtual world. Based on the pixel similarity level, PixSimVR adaptively splits the VR content into the foreground and the background, reusing the background that has a higher similarity level across frames. Our demo showcases how PixSimVR reduces bandwidth requirements by adaptive VR content reuse. Demo participants will develop an intuition for the potential of exploiting the correlation between VR frames corresponding to similar viewport poses specifically, and for the promises and the challenges of edge-assisted VR as a whole. This demonstration accompanies [1].
A new model for the supercritical fractionation of fish oil FAEE (2017)

In this work, the supercritical fractionation of fatty acid ethyl esters derived from fish oil was carried out with carbon dioxide at 333 K and 14.5 MPa. The feed mixture is very complex, with over 80 different compounds detected by GC. Among them, the EicosaPentaenoic Acid (EPA) and DodecaHexaenoic Acid (DHA) ethyl esters are of major industrial interest since the consumption of these ω-3 acids has been linked to a reduced risk of cardiovascular diseases. The influence of the process parameters on the separation efficiency is an important point for an economic analysis of the overall purification process. First, the partition of the feed mixture was determined for different solvent-to-feed ratios varying between 21.8 and 143; the extract yield (i.e. the mass fraction of feed recovered as extract) has been calculated for each condition. Then, a new simplified equilibrium-stage model was developed and applied to the mixture. Supposing a constant distribution ratio, this model is able to correlate the influence of the solvent-to-feed ratio (through a calculated extract yield) on the concentration of the major 24 compounds present either in the feed or in the extract and raffinate, including components with low, medium and high distribution ratios.