gebhart/patrepeval huggingface dataset:
Bifunctional polyacrylamide based polymers for the specific binding of hexahistidine tagged proteins on gold surfaces (2009)

We describe a modified bifunctional analogue of polyacrylamide that spontaneously forms self-assembled polymeric thin films on Au surfaces. The film is engineered to specifically bind histidine tagged proteins (6His), while simultaneously remaining inherently resistant to the non-specific adsorption of proteins in solution. The backbone of a polyacrylamide-co-n-acryloxysuccinimide copolymer is functionalized via tandem active ester (NHS) couplings with 3-(methylthio)propylamine (MTP) and nitrilotriacetic acid (NTA). The resulting functionalized polymers form stable and exceptionally hydrophilic thin films that are approximately 2-5 nm thick, a mass coverage that varies with the MTP graft density. These films are characterized using a variety of techniques (X-ray photoelectron spectroscopy (XPS), reflection absorption infrared spectroscopy (RAIRS), ellipsometry, surface plasmon resonance (SPR), and matrix assisted laser desorption ionization (MALDI)) to establish their structure and function. The protein resistance of the films, as demonstrated by their exposure to solutions of bovine serum albumin (BSA), can be modulated by the amount of MTP grafted to the polymer, which in turn, affects their mass coverage. We show that it is possible to specifically capture hexahistidine tagged proteins with low incidences of nonspecific adsorption using these materials, a discrimination quantified using surface plasmon resonance (SPR) at concentrations down to approximately 20 nM. These polymers also bind strongly to the surfaces of Au nanoparticles, stabilizing them against aggregation, providing them with a similar capacity to selectively bind 6His tagged proteins that can then be speciated using MALDI.
Hardware-efficient Polarization Demultiplexing for QAM Signals Based on Dual Stage Decision-Directed Algorithm (2012)

We propose a hardware-efficient polarization demultiplexing algorithm suitable for QAM signals, which is based on dual decision-directed algorithm. Our algorithm requires only half size hardware of a conventional double stage algorithm based on CMA.
Figure S4 from Modulation of Endoplasmic Reticulum Stress Controls CD4<sup>+</sup> T-cell Activation and Antitumor Function (2023)

&lt;p&gt;Transfer of CD4+ T cells from CD4creHsp90b1flox/flox mice to immuno-deficient hosts indicates activation defect&lt;/p&gt;
Direct physical exfoliation and transfer of graphene grown via ethanol chemical vapor deposition (2011)

A standard exfoliation process of graphene involves several problems associated with damage of graphene and long-time consumption. Here we demonstrate a direct physical exfoliation and transfer processes of graphene grown via ethanol-chemical vapor deposition (CVD). Our exfoliation process exploits a polydimethylsiloxane (PDMS) stamp for conformal contact with graphene. Moreover, it rapidly exfoliates a few-layer graphene (FLG) film with high quality from entire graphene layers on Ni within 5 min. Indeed, the process time is significantly faster than few hours for a standard process. Even after exfoliation, our graphene shows high quality which is verified by the high intensity ratio of G band to D band (I <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</inf> / I <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">D</inf> > 20) in Raman spectra. I <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</inf> / I <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">D</inf> of our graphene is approximately five times higher than that of standard graphene (I <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">G</inf> / I <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">D</inf> &#60; 4) that implies low defects in our graphene. The technology for exfoliating a FLG film can be used for highly desired layer-by-layer manipulation of graphene because it is still difficult to synthesize appropriate layers of graphene on an arbitrary substrate. Through the graphene transfer process, we integrate the exfoliated graphene film to a silicon dioxide (SiO <inf xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">2</inf> ) surface with low damage for various N/MEMS applications. Also, by employing ethanol vapor (i.e., cheap and stable) as a source of carbon for graphene synthesis, we improve a conventional synthesis process of graphene using methane gas (i.e., expensive and explosive).
Searchable Encryption with Optimal Locality: Achieving Sublogarithmic Read Efficiency. (2017)

We propose the first linear-space searchable encryption scheme with constant locality and sublogarithmic read efficiency, strictly improving the previously best known read efficiency bound (Asharov et al., STOC 2016) from \(\varTheta (\log N \log \log N)\) to \(O(\log ^{\gamma } N)\) where \(\gamma =\frac{2}{3}+\delta \) for any fixed \(\delta >0\) and where N is the number of keyword-document pairs. Our scheme employs four different allocation algorithms for storing the keyword lists, depending on the size of the list considered each time. For our construction we develop (i) new probability bounds for the offline two-choice allocation problem; (ii) and a new I/O-efficient oblivious RAM with \(\tilde{O}(n^{1/3})\) bandwidth overhead and zero failure probability, both of which can be of independent interest.
Pharmacokinetics of an indium-111-labeled monoclonal antibody in cancer patients. (1985)

We have evaluated the pharmacokinetics in patients of a monoclonal antibody (19-9) F(ab')2 fragment coupled with DTPA and labeled with 111In. In addition to imaging and organ uptake determinations, serum and urine samples were analyzed to help determine the in vivo behavior of the label. Using a competitive binding assay, the immunoreactivity of the coupled fragment was found to be indistinguishable from that of the unmodified fragment. The absence of radiocolloids in the injectate was confirmed as was the in vivo stability of the attached DTPA groups. By a variety of techniques, we show that the only significant source of label instability was transcomplexation to circulating transferrin. About 9% per day of label exposed to transferrin (about 1-2% of the injected dose) dissociated with slight bone marrow accumulation. Following i.v. administration, serum activity levels fell rapidly (T 1/2 alpha 2 hr, T 1/2 beta 19 hr). Whole-body clearance of the label was slow (T 1/2 160 hr) and may be attributed entirely to urinary excretion (0.26% of the injected dose per hour). Organ accumulation was greatest in the liver and persisted after rapidly attaining high values (20% of the injected dose). A total of 14 cancer patients were studied, nine with identifiable sites of metastatic disease from colorectal [8], pancreatic [2], ovarian [3], or small cell lung [1] primaries. Eight of the 12 sites of documented tumor were visualized by external imaging (67%) most distinctly at 48-72 hr postadministration.
Resolution enhancement in the recovery of underdrawings via style transfer by generative adversarial deep neural networks (2021)

We apply generative adversarial convolutional neural networks to the problem of style transfer to underdrawings and ghost-images in x-rays of fine art paintings with a special focus on enhancing their spatial resolution. We build upon a neural architecture developed for the related problem of synthesizing high-resolution photo-realistic image from semantic label maps. Our neural architecture achieves high resolution through a hierarchy of generators and discriminator sub-networks, working throughout a range of spatial resolutions. This coarse-to-fine generator architecture can increase the effective resolution by a factor of eight in each spatial direction, or an overall increase in number of pixels by a factor of 64. We also show that even just a few examples of human-generated image segmentations can greatly improve -- qualitatively and quantitatively -- the generated images. We demonstrate our method on works such as Leonardo's Madonna of the carnation and the underdrawing in his Virgin of the rocks, which pose several special problems in style transfer, including the paucity of representative works from which to learn and transfer style information.
Special Session: Noninvasive Sensor-Spoofing Attacks on Embedded and Cyber-Physical Systems (2020)

Recent decades have observed the proliferation of sensors in embedded and cyber-physical systems (ECPSs). Sensors are an essential part of embedded and CPSs and serve as a bridge between physical quantities and connected systems. The tight coupling between sensors and systems enables many critical applications where decisions are taken by using the information from various sensors at different time-scales. This tight coupling opens the “Pandora's Box” of unknown threats that could come from very unconventional ways. An unconventional attack model could be to noninvasively attack sensors using forged spoofing signals and trigger unwanted behavior in connected systems. This paper introduces this type of new, strong, and unorthodox attack model and elaborates how important this will be in the near future when sensors will pervade our lives. Moreover, this paper presents a motivational example of a sensor-spoofing attack on Hall sensors in the context of smart grids to demonstrate the harmful consequences of this type of attack in ECPSs.
β-Glucocerebrosidase Modulators Promote Dimerization of β-Glucocerebrosidase and Reveal an Allosteric Binding Site (2018)

β-Glucocerebrosidase (GCase) mutations cause Gaucher's disease and are a high risk factor in Parkinson's disease. The implementation of a small molecule modulator is a strategy to restore proper folding and lysosome delivery of degradation-prone mutant GCase. Here, we present a potent quinazoline modulator, JZ-4109, which stabilizes wild-type and N370S mutant GCase and increases GCase abundance in patient-derived fibroblast cells. We then developed a covalent modification strategy using a lysine targeted inactivator (JZ-5029) for in vitro mechanistic studies. By using native top-down mass spectrometry, we located two potentially covalently modified lysines. We obtained the first crystal structure, at 2.2 Å resolution, of a GCase with a noniminosugar modulator covalently bound, and were able to identify the exact lysine residue modified (Lys346) and reveal an allosteric binding site. GCase dimerization was induced by our modulator binding, which was observed by native mass spectrometry, its crystal structure, and size exclusion chromatography with a multiangle light scattering detector. Finally, the dimer form was confirmed by negative staining transmission electron microscopy studies. Our newly discovered allosteric site and observed GCase dimerization provide a new mechanistic insight into GCase and its noniminosugar modulators and facilitate the rational design of novel GCase modulators for Gaucher's disease and Parkinson's disease.
20 and 30 m telescope designs with potential for subsequent incorporation into a track-mounted pair (20/20 or 30/30). (2003)

Any future giant ground-based telescope must, at a minimum, provide foci for seeing-limited imaging over a wide field and for diffraction-limited imaging over ~1 arcminute fields corrected by adaptive optics (AO). While this is possible with a number of design concepts, our choices are constrained if we anticipate wanting to later add a second telescope for imaging with still higher resolution, and very high contrast imaging for exoplanet studies. This paper explores designs that allow for such future development. Higher resolution imaging by interferometric combination of the AO-corrected fields of two telescopes is possible without loss of point-source sensitivity or field of view, as long as the baseline can be held perpendicular to the source and can be varied in length. This requirement is made practical even for very large telescopes, provided both can move continuously on a circular track. The 20/20 telescope illustrates this concept. Telescopes so mounted can additionally be operated as Bracewell nulling interferometers with low thermal background, making possible the thermal detection of planets that would have been unresolvable by a single 20 m aperture. In practice, limits set by funding and engineering experience will likely require a single 20 or 30 m telescope be built first. This would be on a conventional alt-az mount, but it should be at a site with enough room for later addition of a companion and track. In anticipation of future motion it should be compact and stiff, with a fast primary focal ratio. We envisage the use of large, highly aspheric, off-axis segments, manufactured using the figuring methods for strong aspherics already proven for 8 m class primaries. A compact giant telescope built under these guidelines should be able to perform well on its own for a broad range of astronomical observations, with good resistance to wind buffeting and simple alignment and control of its few, large segments. We compare here configurations with adjacent hexagonal segments and close-packed circular segments. For given segment parent size and number, the largest effective aperture is achieved if the segments are left as circles, when also the sensitivity and resolution for diffraction-limited operation with AO is higher. Large round segments can also be individually apodized for high-contrast imaging of exoplanets with the entire telescope-for example 8.4 m segments will yield 10<sup>-6</sup> suppression 0.05 arcsec from a star at 1 &#956;m wavelength, and at 0.25 arcsec at 5 &#956;m.
Synchronization Methods for Three Phase Distributed Power Generation Systems. An Overview and Evaluation (2006)

Nowadays, it is a general trend to increase the electricity production using distributed power generation systems (DPGS) based on renewable energy resources such as wind, sun or hydrogen. Jf these systems are not properly controlled, their connection to the utility network can generate problems on the grid side. Therefore, considerations about power generation, safe running and grid synchronization must be done before connecting these systems to the utility network. This paper is mainly dealing with the grid synchronization issues of distributed systems. An overview of the synchronization methods as well as their major characteristics is given. New solutions to optimize the synchronization methods when running on distorted grid conditions are discussed. Simulation and experimental results are used to evaluate the behavior of the synchronization methods under different kind of grid disturbances such as voltage dips, harmonics and notches.
Comparison between pre‐ and postovulatory distributions of oestradiol and progesterone in the brain of the PMSG‐treated rat (1986)

The pre- and postovulatory levels of oestradiol and progesterone were measured in seven brain areas, peripheral fat, muscle tissue and blood plasma in 49 immature female rats which had been given an injection of 4 IU PMSG (Pregnant Mare Serum Gonadotropin) on the 25th day of life. We observed a uniform decline in oestradiol concentration in all the areas of the postovulatory rat. The highest mean concentrations of oestradiol pre- and postovulatory were found in the hypothalamus and the striatum (260 +/- 26, 110 +/- 11, 200 +/- 39 and 75 +/- 13 pg g-1, respectively). The levels of progesterone showed variable increases in all the areas postovulatory. The highest postovulatory concentration was found in the cerebral cortex (29 +/- 2.0 ng g-1) where the increase was six-fold greater than the increases in any of the other areas compared to preovulatory values. The hypothalamus contained high progesterone levels at both times (3.5 +/- 0.68 ng g-1 and 27 +/- 5.2 ng g-1) compared to other areas. We conclude that the female rat brain exhibits differences in the distribution of oestradiol and progesterone both pre- and postovulatory. Since the levels in different brain areas to a large extent varied independently we suggest different uptake mechanisms and/or different binding capacities in various regions of the rat brain.
Salience Network Disruption in US Army Soldiers with PTSD (2018)

BACKGROUND: Better understanding of the neurobiology of posttraumatic stress disorder (PTSD) may be critical to developing novel, effective therapeutics. Here, we conducted a data-driven investigation using a well-established, graph- based topological measure of nodal strength to determine the extent of functional dysconnectivity in a cohort of active duty US Army soldiers with PTSD compared to controls. METHODS: 102 participants with (n=50) or without PTSD (n=52) completed functional magnetic resonance imaging (fMRI) at rest and during symptom provocation using subject-specific script imagery. Vertex/voxel global brain connectivity with global signal regression (GBCr), a measure of nodal strength, was calculated as the average of its functional connectivity with all other vertices/voxels in the brain gray matter. RESULTS: In contrast to during resting-state, where there were no group differences, we found a significantly higher GBCr, in PTSD participants compared to controls, in areas within the right hemisphere, including anterior insula, caudal- ventrolateral prefrontal, and rostral-ventrolateral parietal cortices. Overall, these clusters overlapped with the ventral and dorsal salience networks. Post hoc analysis showed increased GBCr in these salience clusters during symptom provocation compared to resting-state. In addition, resting-state GBCr in the salience clusters predicted GBCr during symptom provocation in PTSD participants but not in controls. CONCLUSION: In PTSD, increased connectivity within the salience network has been previously hypothesized, based primarily on seed-based connectivity findings. The current results strongly support this hypothesis using whole-brain network measure in a fully data-driven approach. It remains to be seen in future studies whether these identified salience disturbances would normalize following treatment.
Size-selective pH-operated megagates on mesoporous silica materials (2012)

pH-responsive megagates have been fabricated around mesoporous silica material SBA-15 in order to mechanize the mesopores. These megagates remain closed in neutral conditions, but open at pH 5. The capping components of the megagates were designed to be capable of controlling pores up to 6.5 nm in diameter. Selectivity of payloads with different sizes can be achieved through the use of different capping components. The operation of the megagates was demonstrated by time-resolved fluorescence spectroscopy which is capable of monitoring the release of both the payload and the cap. This study opens up new possibilities in the field of controllable release.
Two E-selectin ligands, BST-2 and LGALS3BP, predict metastasis and poor survival of ER-negative breast cancer (2016)

Distant metastases account for the majority of cancer-related deaths in breast cancer. The rate and site of metastasis differ between estrogen receptor (ER)-negative and ER-positive tumours, and metastatic fate can be very diverse even within the ER-negative group. Characterisation of new pro-metastatic markers may help to identify patients with higher risk and improve their care accordingly. Selectin ligands aberrantly expressed by cancer cells promote metastasis by enabling interaction between circulating tumour cells and endothelial cells in distant organs. These ligands consist in carbohydrate molecules, such as sialyl-Lewis x antigen (sLex), borne by glycoproteins or glycolipids on the cancer cell surface. We have previously demonstrated that the molecular scaffold presenting sLex to selectins (e.g. glycolipid vs. glycoproteins) was crucial for these interactions to occur. Moreover, we reported that detection of sLex alone in breast carcinomas was only of limited prognostic value. However, since sLex was found to be carried by several glycoproteins in cancer cells, we hypothesized that the combination of the carbohydrate with its carriers could be more relevant than each marker independently. In this study, we addressed this question by analysing sLex expression together with two glycoproteins (BST-2 and LGALS3BP), shown to interact with E-selectin in a carbohydrate-dependent manner, in a cohort of 249 invasive breast cancers. We found both glycoproteins to be associated with distant metastasis risk and poorer survival. Importantly, concomitant high expression of BST-2 with sLex defined a sub-group of patients with ER-negative tumours displaying higher risks of liver and brain metastasis and a 3-fold decreased survival rate.
One-dimensional photonic crystal slot waveguide for silicon-organic hybrid electro-optic modulators (2016)

In an on-chip silicon-organic hybrid electro-optic (EO) modulator, the mode overlap with EO materials, in-device effective r<sub>33</sub>, and propagation loss are among the most critical factors that determine the performance of the modulator. Various waveguide structures have been proposed to optimize these factors, yet there is a lack of comprehensive consideration on all of them. In this Letter, a one-dimensional (1D) photonic crystal (PC) slot waveguide structure is proposed that takes all these factors into consideration. The proposed structure takes advantage of the strong mode confinement within a low-index region in a conventional slot waveguide and the slow-light enhancement from the 1D PC structure. Its simple geometry makes it robust to resist fabrication imperfections and helps reduce the propagation loss. Using it as a phase shifter in a Mach-Zehnder interferometer structure, an integrated silicon-organic hybrid EO modulator was experimentally demonstrated. The observed effective EO coefficient is as high as 490 pm/V. The measured half-wave voltage and length product is less than 1 V·cm and can be further improved. A potential bandwidth of 61 GHz can be achieved and further improved by tailoring the doping profile. The proposed structure offers a competitive novel phase-shifter design, which is simple, highly efficient, and with low optical loss, for on-chip silicon-organic hybrid EO modulators.