gebhart/patrepeval huggingface dataset:
A dual-function MIMO radar-communications system using PSK modulation (2016)

In this paper, we develop a new technique for information embedding into the emission of multiple-input multiple-output (MIMO) radar using dual-functionality platforms. A set of orthogonal waveforms occupying the same band is used to implement the primary MIMO radar operation. The secondary communication function is implemented by embedding one phase-shift keying (PSK) communication symbol in each orthogonal waveform, i.e., the number of embedded communication symbols during each radar pulse equals the number of transmit antennas. We show that the communication operation is transparent to the MIMO radar operation. The communication receiver detects the embedded PSK symbols using standard ratio testing. The achievable data rate is proportional to the pulse repetition frequency, the number of transmit elements, and the size of the PSK constellation. The performance of the proposed technique is investigated in terms of the symbol error rate. Simulations examples demonstrate that data rates in the range of several Mbps can be embedded and reliably detected.
A Secure Social Networking Site based on OAuth Implementation (2016)

With the advancement in the area of cloud storage services as well as a tremendous growth of social networking sites, permission for one web service to act on the behalf of another has become increasingly vital as social Internet services such as blogs, photo sharing, and social networks. With this increased cross-site media sharing, there is a upscale of security implications and hence the need to formulate security protocols and considerations. Recently, OAuth, a new protocol for establishing identity management standards across services, is provided as an alternative way to share the user names and passwords, and expose personal information to attacks against on-line data and identities. Moreover, OwnCloud provides an enterprise file synchronizing and sharing that is hosted on user’s data center, on user’s servers, using user’s storage. We propose a secure Social Networking Site (SSN) access based on OAuth implementation by combining two novel concepts of OAuth and OwnCloud. Security analysis and performance evaluation are given to validate the proposed scheme.
Phenolphthalein-Conjugated Hydrogel Formation under Visible-Light Irradiation for Reducing Variability of Colorimetric Biodetection (2018)

Polymerization-based signal amplification (PBA) is a colorimetric biodetection method for use in resource-limited settings. It uses phenolphthalein as a colorimetric reagent, but leaching of the dye from a resultant hydrogel can lead to variability in PBA results. In this work, we use polymerizable phenolphthalein in PBA to produce a phenolphthalein-conjugated hydrogel. Considering the photoinitiation mechanism of eosin Y and triethanolamine in air with an aqueous monomer solution, we determine reaction conditions for modified PBA that maintain a rapid polymerization response. Using the optimized conditions, we demonstrate that modified PBA can detect malaria antigen, <i>Pf</i>HRP2, with reduced variability.
Host Range and Interference Studies of Three Classes of Pig Endogenous Retrovirus (1998)

Recent interest in the use of porcine organs, tissues, and cells for xenotransplantation to humans has highlighted the need to characterize the properties of pig endogenous retroviruses (PERVs). Analysis of a variety of pig cells allowed us to isolate and identify three classes of infectious type C endogenous retrovirus (PERV-A, PERV-B, and PERV-C) which have distinct env genes but have highly homologous sequences in the rest of the genome. To study the properties of these env genes, expression plasmids for the three env genes were constructed and used to generate retrovirus vectors bearing corresponding Env proteins. Host range analyses by the vector transduction assay showed that PERV-A and PERV-B Envs have wider host ranges, including several human cell lines, compared with PERV-C Env, which infected only two pig cell lines and one human cell line. All PERVs could infect pig cells, indicating that the PERVs have a potential to replicate in pig transplants in immunosuppressed patients. Receptors for PERV-A and PERV-B were present on cells of some other species, including mink, rat, mouse, and dog, suggesting that such species may provide useful model systems to study infection and pathogenicity of PERV. In contrast, no vector transduction was observed on nonhuman primate cell lines, casting doubt on the utility of nonhuman primates as models for PERV zoonosis. Interference studies showed that the three PERV strains use receptors distinct from each other and from a number of other type C mammalian retroviruses.
In vitro study of the anticancer activity of various doxorubicin-containing dispersions (2018)

<b><i>Introduction:</i></b> The aim of this research was to study the impact of various doxorubicin (Dox)-containing nanofluids, e.g. singlewalled carbon nanotube (SWCNT)+Dox, graphene oxide (GO)+Dox and DextranPNIPAM (copolymer)+Dox mixtures on HeLa cells (human transformed cervix epithelial cells, as a model for cancer cells) depending on their concentration. <b><i>Methods:</i></b> Structural analysis of GO+Dox complex was accomplished using Hartree-Fock level of theory in 6-31G** basis set in Gaussian. Dynamic light scattering (DLS), zeta-potential, scanning electron microscopy and confocal laser scanning microscopy were used. The cell viability was analyzed by the MTT assay. <b><i>Results:</i></b> The viability of HeLa cells was studied with the MTT assay after the incubation with various Dox-containing dispersions depending on their concentration. The size of the particles was determined by DLS. The morphology of the nanoparticles (NPs) was studied by scanning electron microscopy and their uptake into cells was visualized by confocal laser scanning microscopy. It was found that the Dextran-PNIPAM+Dox nanofluid in contrast to Dox alone showed higher toxicity towards HeLa cells up to 80% after 24 hours of incubation, whereas the SWCNT+Dox and GO+Dox nanofluids at the same concentrations protected cells from Dox. <b><i>Conclusion:</i></b> The importance of Dextran-PNIPAM copolymer as a universal platform for drug delivery was established, and the huge potential of Dextran-PNIPAM+Dox NPs as novel anticancer agents was noted. Based on the in vitro study of the SWCNT+Dox and GO+Dox nanofluids, it was concluded that SWCNT and GO NPs can be effective cytoprotectors against the highly toxic drugs.
On the Sizing Accuracy of Laser Optical Particle Counters (1986)

Abstract The performance of a narrow‐angle and a wide‐angle, forward scattering laser aerosol spectrometer has been studied as a function of particle size and refractive index. The results have been compared with theoretical calculations based on light scattering theory. The results indicate that for the narrow‐angle instrument, the scattered‐light intensity is not a monotonic function of particle size for transparent particles (a monotonic relationship is required for unambiguous particle size measurement) above 0.7 μm. The instrument is therefore limited in its useful range to size distribution measurement between 0.2 μm – its lower particle size limit – and 0.7 μm for transparent particles. In the case of the wide‐angle instrument, the instrument output is a monotonic function of particle size for transparent particles, but the output is severely attenuated for light absorbing particles above 0.3 μm. The instrument, therefore, cannot be used for accurate size measurements above 0.3 μm for light absorbing particles.
[Ni(Et2PCH2NMeCH2PEt2)2]2+ as a Functional Model for Hydrogenases (2002)

The reaction of Et(2)PCH(2)N(Me)CH(2)PEt(2) (PNP) with [Ni(CH(3)CN)(6)](BF(4))(2) results in the formation of [Ni(PNP)(2)](BF(4))(2), which possesses both hydride- and proton-acceptor sites. This complex is an electrocatalyst for the oxidation of hydrogen to protons, and stoichiometric reaction with hydrogen forms [HNi(PNP)(PNHP)](BF(4))(2), in which a hydride ligand is bound to Ni and a proton is bound to a pendant N atom of one PNP ligand. The free energy associated with this reaction has been calculated to be -5 kcal/mol using a thermodynamic cycle. The hydride ligand and the NH proton undergo rapid intramolecular exchange with each other and intermolecular exchange with protons in solution. [HNi(PNP)(PNHP)](BF(4))(2) undergoes reversible deprotonation to form [HNi(PNP)(2)](BF(4)) in acetonitrile solutions (pK(a) = 10.6). A convenient synthetic route to the PF(6)(-) salt of this hydride involves the reaction of PNP with Ni(COD)(2) to form Ni(PNP)(2), followed by protonation with NH(4)PF(6). A pK(a) of value of 22.2 was measured for this hydride. This value, together with the half-wave potentials of [Ni(PNP)(2)](BF(4))(2), was used to calculate homolytic and heterolytic Ni-H bond dissociation free energies of 55 and 66 kcal/mol, respectively, for [HNi(PNP)(2)](PF(6)). Oxidation of [HNi(PNP)(2)](PF(6)) has been studied by cyclic voltammetry, and the results are consistent with a rapid migration of the proton from the Ni atom of the resulting [HNi(PNP)(2)](2+) cation to the N atom to form [Ni(PNP)(PNHP)](2+). Estimates of the pK(a) values of the NiH and NH protons of these two isomers indicate that proton migration from Ni to N should be favorable by 1-2 pK(a) units. Cyclic voltammetry and proton exchange studies of [HNi(depp)(2)](PF(6)) (where depp is Et(2)PCH(2)CH(2)CH(2)PEt(2)) are also presented as control experiments that support the important role of the bridging N atom of the PNP ligand in the proton exchange reactions observed for the various Ni complexes containing the PNP ligand. Similarly, structural studies of [Ni(PNBuP)(2)](BF(4))(2) and [Ni(PNP)(dmpm)](BF(4))(2) (where PNBuP is Et(2)PCH(2)N(Bu)CH(2)PEt(2) and dmpm is Me(2)PCH(2)PMe(2)) illustrate the importance of tetrahedral distortions about Ni in determining the hydride acceptor ability of Ni(II) complexes.
Disease mechanisms of X‐linked cone dystrophy caused by missense mutations in the red and green cone opsins (2021)

Cone photoreceptors are responsible for the visual acuity and color vision of the human eye. Red/green cone opsin missense mutations N94K, W177R, P307L, R330Q, and G338E have been identified in subjects with congenital blue cone monochromacy or color-vision deficiency. Studies on disease mechanisms due to these cone opsin mutations have been previously carried out exclusively in vitro, and the reported impairments were not always consistent. Here we expressed these mutants via AAV specifically in vivo in M-opsin knockout mouse cones to investigate their subcellular localization, the pathogenic effects on cone structure, function, and cone viability. We show that these mutations alter the M-opsin structure, function, and localization. N94K and W177R mutants appeared to be misfolded since they localized exclusively in cone inner segments and endoplasmic reticulum. In contrast, P307L, R330Q, and G338E mutants were detected predominately in cone outer segments. Expression of R330Q and G338E, but not P307L opsins, also partially restored expression and correct localization of cone PDE6α' and cone transducin γ and resulted in partial rescue of M-cone-mediated light responses. Expression of W177R and P307L mutants significantly reduced cone viability, whereas N94K, R330Q, and G338E were only modestly toxic. We propose that although the underlying biochemical and cellular defects caused by these mutants are distinct, they all seem to exhibit a dominant phenotype, resembling autosomal dominant retinitis pigmentosa associated with the majority of rhodopsin missense mutations. The understanding of the molecular mechanisms associated with these cone opsin mutants is fundamental to developing targeted therapies for cone dystrophy/dysfunction.
Heterogeneous Catalysis to Drive the Waste-to-Pharma Concept: From Furanics to Active Pharmaceutical Ingredients (2021)

A perspective on the use of heterogeneous catalysis to drive the waste-to-pharma concept is provided in this contribution based on the conversion of furanics to active pharmaceutical ingredients (APIs). The provided overview of the concept in this perspective article has been exemplified for two key molecule examples: Ancarolol and Furosemide.
Studies on the Interaction Between Electromagnetic Fields and Living Matter Neoplastic Cellular Culture (1998)

The study of the interactions between electromagnetic fields and living matter has become a fertile field for research in the last century, even though these phenomena have been empirically observed by various civilisations since ancient times (1, 2). Considerable experimental evidence today points to the possibility of modulating biological functions and structures in a controlled way by applying electromagnetic fields and, vice versa, the possibility of detecting and measuring endogenous electrical currents in living organisms and their components (3, 4). There are two types of electromagnetic effects on living matter: thermal effects and non-thermal effects (5, 6, and 7). Thermal effects induce an increase of entropic disorder in the target, until at adequate frequencies and power levels, the effects of ionisation develop. The non-thermal effects are not the result of the transfer of erratic movement by means of an increase of kinetic energy, but rather, in line with the theories of the coherence of condensed matter, they can transmit information that would produce order in the bio-structures involved. The information content of the electromagnetic waves would depend strictly and specifically on the waveform, the string of waves, and the time sequence of their modulation. In fact, specific variations in the configuration and temporal exposure patterns of extremely weak electromagnetic fields can produce highly specific biological responses, similar to pharmaceutical products (8, 9). These effects are attracting considerable scientific interest mainly because an electromagnetic wave is easily modulated and thus is an excellent means for the transmission of information. (10) Studies carried out by various writers suggest the possibility of non-
Imaging quasi-layered conductive structures by simple processing of transient electromagnetic data (1987)

Abstract An 'imaged' conductivity section of a layered earth can be obtained by simple transformation of step-response electromagnetic data measured in the quasi-static zone. This method of data transformation is presented as an alternative to conventional apparent conductivity transformations. At each delay time, the variation of the step response as a function of geometry (transmitter and receiver location) is transformed to an equivalent reference depth h, which can be related to the depth of electromagnetic field diffusion. The behavior of h as a function of delay time is nearly independent of the source-receiver geometry. The slowness dt/dh divided by the magnetic permeability is almost exactly proportional to the cumulative conductance measured from the surface down to a depth h. Thus we can estimate an apparent conductivity, which we call the 'imaged conductivity,' at depth to be d 2 t/mu 0 dh 2 .The cost of this transformation is a fraction of the cost of conventional data inversion, and it does not require an a priori constraint on the number of parameters used in the inversion. The empirically developed technique was used successfully to process UTEM field data measured over a quasi-layered earth.
Sigma- z random forest, classification and confidence (2018)

Abstract Machine learning is a promising research topic that has recently achieved remarkable results, leading to the substitution of more traditional methods with automatically learned solutions. Some recent works have begun to highlight how a machine-learned model can be tricked by just applying small variations to the data, resulting in completely erroneous outcomes. Such behaviour can be traced to two elements: the lack of any metrological characterization of the inputs passed to the model, such as the uncertainty of the data, and the lack of an assessment of the reliability of the results. This paper tackles both these elements, considering the case of random forest model and proposing a method for assessing a confidence probability as an estimator for classification reliability. This considers the original classification structure, leaving it untouched, and the distribution of the training datasets. An overlaying structure statistically combines the two, and also includes in the process the propagation of feature uncertainties as a further element deriving from input measurements. The new classification outcome is a vector of probabilities that define how reliably a feature entry can be assigned, or not, to each of the considered classes, independently of others. In this new structure, an additional classification result naturally becomes available: the unclassifiable feature entry.
A KNOWLEDGE REPRESENTATION LANGUAGE FOR NATURAL LANGUAGE PROCESSING, SIMULATION AND REASONING (2012)

OntoAgent is an environment that supports the cognitive modeling of societies of intelligent agents that emulate human beings. Like traditional intelligent agents, OntoAgent agents execute the core functionalities of perception, reasoning and action. Unlike most traditional agents, they engage in extensive "translation" functions in order to render perceived inputs into the unambiguous, ontologically-grounded knowledge representation language (KRL) that is used to model their knowledge, memory and reasoning. This paper describes the KRL of OntoAgent with a special focus on the many runtime functions used to translate between perceived inputs and the KRL, as well as to manipulate KRL structures for reasoning and simulation.
Hiding in plain sight: immune evasion by the staphylococcal protein SdrE (2017)

The human immune system is responsible for identification and destruction of invader cells, such as the bacterial pathogen <i>Staphylococcus aureus</i> In response, <i>S. aureus</i> brings to the fight a large number of virulence factors, including several that allow it to evade the host immune response. The staphylococcal surface protein SdrE was recently reported to bind to complement Factor H, an important regulator of complement activation. Factor H attaches to the surface of host cells to inhibit complement activation and amplification, preventing the destruction of the host cell. SdrE binding to Factor H allows <i>S. aureus</i> to mimic a host cell and reduces bacterial killing by granulocytes. In a new study published in <i>Biochemical Journal</i>, Zhang et al. describe crystal structures of SdrE and its complex with the C-terminal portion of Factor H. The structure of SdrE and its interaction with the Factor H peptide closely resemble a family of surface proteins that recognize extracellular matrix components such as fibrinogen. However, unbound SdrE forms a novel 'Closed' conformation with an occluded peptide-binding groove. These structures reveal a fascinating mechanism for immune evasion and provide a potential avenue for the development of novel antimicrobial agents to target SdrE.
Molecular Genetic Analysis of Appendiceal Mucinous Adenomas in Identical Twins, Including One With Pseudomyxoma Peritonei (2001)

Pseudomyxoma peritonei (PMP) is a clinical syndrome characterized by mucinous ascites and peritoneal lesions composed of histologically bland to low-grade adenomatous mucinous epithelium within pools of extracellular mucin, often with an associated mucinous adenoma of the appendix. There is evidence that the peritoneal lesions in PMP are clonally derived from the associated appendiceal adenoma. Little is known about the molecular genetic alterations or hereditary factors involved in the development of appendiceal mucinous tumors and PMP. We report the only known example of appendiceal mucinous adenomas in identical twin brothers, one of whom developed PMP. We analyzed the status of the K-RAS and APC genes in these tumors using digital polymerase chain reaction and digital single nucleotide polymorphism (SNP) assay. Identical K-RAS mutations were detected in the appendiceal adenoma and peritoneal tumor from the twin with PMP, whereas the adenoma from the other twin harbored a different mutation. Digital SNP analysis demonstrated loss of heterozygosity of APC only in the adenoma from the twin without PMP but not from the appendiceal or peritoneal tumors of the twin with PMP. The adjacent normal tissue in each case retained both APC alleles. The K-RAS mutational analysis supports the view that PMP is clonally derived from the associated appendiceal mucinous adenoma. The lack of loss of heterozygosity of APC in the adenoma and peritoneal tumor from the twin with PMP suggests that loss of heterozygosity of APC is not necessarily involved in the development of all appendiceal adenomas or PMP. The different types of mutations in K-RAS and the different allelic status of the APC locus in the tumors from both twins suggest that mutation in K-RAS and loss of heterozygosity of APC occurs somatically in adenomas and is independent of the identical genetic background of the twins.
Supplementary Information from β-Catenin–Driven Differentiation Is a Tissue-Specific Epigenetic Vulnerability in Adrenal Cancer (2023)

&lt;p&gt;Supplementary Information:Supplementary Figures 1-6 with Figure Legends, Supplementary Table 1 (reference only), Supplementary Table 2, Supplementary Methods, Supplementary References&lt;/p&gt;
Simulating HHC/AFCS Interaction and Optimized Controllers using Piloted Maneuvers (2015)

Higher harmonic control (HHC) has been shown to be capable of reducing vibration and noise in rotorcraft. The majority of the previous work has concentrated on the HHC itself, and not the interaction between the automatic flight control system (AFCS) and HHC. Limited studies have been done on HHC/AFCS interaction using a linear time invariant (LTI) model and offline inputs including the use of dynamic crossfeeds to improve HHC performance while maneuvering. Most recently, results on HHC/AFCS interaction using nonlinear piloted simulations have been obtained. It has been observed that the nominal T-matrix controller approach, while effective in steady state, does not reduce vibration during a maneuver. Increasing the feedback gain can slightly improve RMS and settling time but magnifies peak response. The aim of the current work is to optimize HHC controller performance in a realistic piloted maneuver, and validate the design on a nonlinear simulation model. Achieving this objective required the following accomplishments: 1) Extraction, reduction, and validation of a linear time invariant model from a nonlinear model. 2) Baseline higher harmonic controller design and validation based on the linear model applied to the nonlinear model. 3) Optimization of the higher harmonic controller design to improve performance during a maneuver while maintaining stability. 4) Fitting ideal crossfeeds with a low-order approximation. 5) Implementation of crossfeeds to further improve vibration controller performance during a maneuver.