gebhart/patrepeval huggingface dataset:
Alterations in Vibrio cholerae motility phenotypes correlate with changes in virulence factor expression (1996)

Motility is thought to contribute to the virulence of Vibrio cholerae, but the role it plays in pathogenesis is not completely understood. To investigate the influence of motility on virulence gene expression and intestinal colonization, we have isolated mutants with altered swarming abilities in soft agar medium. Both spontaneous hyperswarmer (exhibiting faster swarm rates) and spontaneous or transposon-induced nonmotile mutants of strain 0395 were obtained. Surprisingly, we found that two of three classes of hyperswarmer mutants were defective in autoagglutination, a phenotype associated with expression of toxin-coregulated pili (TCP), an essential ToxR-regulated colonization factor of V. cholerae. In contrast, nonmotile mutants exhibited autoagglutination under growth conditions that normally repress this phenotype. Further characterization of mutant strains revealed differences in the expression of other virulence determinants. Class I hyperswarmer mutants were defective in production of TCP, cholera toxin, and a cell-associated hemolysin but showed increased levels of protease and fucose-sensitive hemagglutinin. All nonmotile mutants examined, including those with insertions in a sequence homologous to motB, exhibited increased expression of TCP pilin, cholera toxin, and cell-associated hemolysin but dramatically decreased levels of fucose-sensitive hemagglutinin and HEp-2 adhesins. In general, nonmotile mutants displayed few or no defects in intestinal colonization, while class I hypermotile mutants were highly defective in colonization. These results suggest that the motility phenotype of V. cholerae is tightly coupled to the expression of multiple ToxR-regulated and non-ToxR-regulated virulence determinants.
Characterization and Distribution of Binding Sites for the Hypothalamic Peptide, Pituitary Adenylate Cyclase-Activating Polypeptide* (1990)

A novel bioactive peptide was recently isolated from ovine hypothalamus and was named PACAP (pituitary adenylate cyclase-activating polypeptide). PACAP was present in two bioactive, amidated forms, PACAP27 and PACAP38 (27 and 38 amino acids, respectively), and showed a 68% sequence homology with vasoactive intestinal peptide (VIP) in the N-terminal 28 residues. PACAP38 was at least 1000 times more potent than VIP in stimulating adenylate cyclase in pituitary cells, but both peptides exhibited comparable vasodepressor activity. Thus, we sought to determine whether PACAP acts on specific binding sites in the anterior pituitary or other tissues and whether these binding sites are different from those of VIP. Binding of [125I] PACAP27 to freshly prepared rat anterior pituitary membranes in the presence and absence of 212 nM unlabeled PACAP27 was specific, saturable, and more rapid at 22 C than at 4 C. Scatchard analysis of this binding site using increasing doses of unlabeled PACAP27 revealed a single high affinity site with a Kd of 446 +/- 141 pM and a maximum number of sites of 1312 +/- 182 fmol/mg protein. These results do not exclude the possibility of a second pituitary binding site with significantly lower affinity. Unlabeled PACAP38 and PACAP38OH exhibited significantly higher affinity binding (3- to 5-fold) than PACAP27 with a similar number of pituitary sites. A variable distribution of binding sites was observed between PACAP27 and VIP when binding to different tissue membranes was measured with 125I-labeled peptides. Very high specific binding of both PACAP27 and VIP was observed in lung membranes. An almost identical relative magnitude of binding was observed between PACAP27 and VIP in lung, liver, duodenum, ovary, and thymus. However, whereas PACAP27 binding to hypothalamic and pituitary membranes was great, VIP binding to these tissues was almost absent. To determine if VIP and PACAP might share a binding site in peripheral tissues, displacement curves were generated using [125I]PACAP27 binding to lung membranes and VIP, PACAP27, and PACAP38 as unlabeled ligands. VIP was highly potent in displacing [125I] PACAP27 binding in lung membrane, and the IC50 values for all three of these peptides were between 1-10 nM. These results suggest that 1) a saturable, high affinity binding site for PACAP is present on anterior pituitary membranes; 2) PACAP27 and PACAP38, but not VIP, share this binding site in the anterior pituitary and possibly the hypothalamus; and 3) PACAP27, PACAP38, and VIP share a similar or identical binding site on lung membranes and possibly other peripheral tissues.
ChemInform Abstract: STEREOCONTROLLED SYNTHESIS OF STEROIDAL SIDE CHAINS (1981)

Abstract Durch Umsetzung von A17,"‐ Steroiden wie (I) bzw. (VI) mit dem Propiolat (II) kann in stereospezifischer Reaktion eine Seitenkette unter Bildung von Derivaten wie (III) bzw. (VII) eingeführt werden.
Super-Resolution of Dynamic Scenes Using Sampling Rate Diversity (2016)

In earlier work, we proposed a super-resolution (SR) method that required the availability of two low resolution (LR) sequences corresponding to two different sampling rates, where images from one sequence were used as a basis to represent the polyphase components (PPCs) of the high resolution (HR) image, while the other LR sequences provided the reference LR image (to be super-resolved). The (simple) algorithm implemented by Salem and Yagle is only applicable when the scene is static. In this paper, we recast our approach to SR as a two-stage example-based algorithm to process dynamic scenes. We employ feature selection to create, from the LR frames, local LR dictionaries to represent PPCs of HR patches. To enforce sparsity, we implement Gaussian generative models as an efficient alternative to L1-norm minimization. Estimation errors are further reduced using what we refer to as the anchors, which are based on the relationship between PPCs corresponding to different sampling rates. In the second stage, we revert to simple single frame SR (applied to each frame), using HR dictionaries extracted from the super-resolved sequence of the previous stage. The second stage is thus a reiteration of the sparsity coding scheme, using only one LR sequence, and without involving PPCs. The ability of the modified algorithm to super-resolve challenging LR sequences reintroduces sampling rate diversity as a prerequisite of robust multiframe SR.
Mechanical design of thin-film diamond crystal mounting apparatus for coherence preservation hard x-ray optics (2016)

A new thin-film diamond crystal mounting apparatus has been designed at the Advanced Photon Source (APS) for coherence preservation hard x-ray optics with optimized thermal contact and minimized crystal strain. This novel mechanical design can be applied to new development in the field of: x-ray optics cavities for hard x-ray free-electron laser oscillators (XFELOs), self-seeding monochromators for hard x-ray free-electron laser (XFEL) with high average thermal loading, high heat load diamond crystal monochromators and beam-sharing/beam-split-and-delay devices for XFEL facilities and future upgraded high-brightness coherent x-ray source in the MBA lattice configuration at the APS.
Low loss polarization maintaining anti-resonant hollow core fiber (2022)

An anti-resonant hollow-core fiber (AR-HCF) with loss of 5.6 dB/km at 1550 nm, phase birefringence of 1.8× 10 -5 , polarization extinction ratio of ~20 dB and bandwidth of 154 nm is reported, representing the first low loss polarization-maintaining ARF.
Wastewater as a resource: a unique approach to achieving energy sustainability (2011)

A wastewater-treatment flowsheet was developed to integrate uniquely designed biological processes with physical-chemical unit processes, allowing conversion of the organic carbon in the wastewater to methane, the removal and recovery of phosphorus and nitrogen from the wastewater, and the production of water suitable for reuse. In the flowsheet, energy is derived from the wastewater by first shunting a large fraction of the organic carbon in the wastewater to a solids slurry which is treated via anaerobic digestion. The anaerobic digestion system consists of focused pulsed (FP) pretreatment coupled to anaerobic membrane bioreactors (MBRs). Computer modelling and simulation results are used to optimize design of the system. Energy generation from the system is maximized and costs are reduced by using modest levels of recycle flow from the anaerobic MBRS to the FP pretreatment step.
Structure‐Activity Relationships of Oxygenated Morphinans. I. 4‐Mono‐ and 3,4‐dimethoxy‐<i>N</i>‐methylmorphinans and ‐<i>N</i>‐methyl‐morphinan‐6‐ones with unusually high antinociceptive potency. Preliminary communication (1981)

Abstract The antinociceptive potency and receptor affinity of several optically active aromatic mono‐ and di‐oxygenated N ‐methylmorphinans and N ‐methylmorphinan‐6‐ones, prepared from natural morphine, were determined. Thus, in order of antinociceptive potency, 4‐methoxy‐ N ‐methylmorphinan‐6‐one ≈ 3,4‐dimethoxy‐ N ‐methylmorphinan‐6‐one ≈ 3,4‐dimethoxy‐ N ‐methylmorphinan > 4‐methoxy‐ N ‐methylmorphinan ≈ 4‐acetoxy‐ N ‐methylmorphinan‐6‐one > 4‐acetoxy‐ N ‐methylmorphinan ≈ 4‐hydroxy‐ N ‐methylmorphinan‐6‐one ≈ 4‐hydroxy‐ N ‐methylmorphinan. The 4‐hydroxy compounds were slightly less potent than morphine, and the 4‐methoxy and 3,4‐dimethoxy compounds were found to have three times the potency of morphine. 4‐Methoxy‐ N ‐methylmorphinan‐6‐one showed an opiate receptor affinity one‐third that of morphine; this is a remarkably high affinity for a non‐phenolic compound.
Differential role of CSF alpha-synuclein species, tau, and AÎ²42 in Parkinson's Disease (2014)

There is a great interest in developing cerebrospinal fluid (CSF) biomarkers for diagnosis and prognosis of Parkinson's disease (PD). CSF alpha synuclein (α-syn) species, namely total and oligomeric α-syn (t-α-syn and o-α-syn), have shown to be of help for PD diagnosis. Preliminary evidences show that the combination of CSF t-α-syn and classical Alzheimer's disease (AD) biomarkers-β-amyloid 1-42 (Aβ42), total tau (t-tau), phosphorylated tau (p-tau)-differentiate PD patients from controls, and that reduced levels of Aβ42 represent a predictive factor for development of cognitive deterioration in PD. In this prospective study carried out in 44 PD patients and 25 neurological controls we wanted to verify whether the combination of CSF α-synuclein species-t-α-syn and o-α-syn-and classical AD biomarkers may help in differentiating PD from neurological controls, and if these biomarkers may predict cognitive decline. The median of follow-up duration was 3 years (range: 2-6 years). Mini Mental State Examination (MMSE) and Montreal Cognitive Assessment (MoCA) were used for monitoring cognitive changes along time, being administered once a year. Oligo/total α-syn ratio (o/t-α-syn ratio) confirmed its diagnostic value, significantly contributing to the discrimination of PD from neurological controls. A greater diagnostic accuracy was reached when combining o/t-α-syn and Aβ42/tau ratios (Sens = 0.70, Spec = 0.84, AUC = 0.82; PPV = 0.89, NPV = 0.62, LR+ = 4.40, DOR = 12.52). Low CSF Aβ42 level was associated with a higher rate of MMSE and MoCA decline, confirming its role as independent predictive factor for cognitive decline in PD. None of the other biomarkers assessed (t-tau, p-tau, t-α-syn and o-α-syn) showed to have prognostic value. We conclude that combination of CSF o/t-α-syn and Aβ42/tau ratios improve the diagnostic accuracy of PD. PD patients showing low CSF Aβ42 levels at baseline are more prone to develop cognitive decline.
Mathematical modeling and optimization scheme for omnidirectional tuned liquid column dampers (2021)

As a well-known and reliable control device, tuned liquid column dampers (TLCDs) have been investigated numerically and experimentally and implemented in a number of structures over the last three decades. However, TLCDs basically suffer from the lack of multidirectionality, which is the critical need for real structures, in particular under random vibrations such as wind and earthquake excitations. This aspect has garnered the attention of the structural control community to modify this promising damper to achieve more efficiency and to extend its application range to multidirectional vibrations. This paper proposes a mathematical modeling and optimization approach for omnidirectional tuned liquid column dampers (O-TLCDs). As an improved and reformed TLCD, O-TLCDs are formed by circularly distributed of n ≥ 3 L-arms about a common joint point at the center, through which all L-arms are connected to each other. Thanks to this layout, O-TLCDs can control structures with full counteracting force capacity in all transversal directions regardless of the excitation angle of incidence. This paper, in the first step, proposes the governing equation of motion of O-TLCDs, for which Lagrange’s principle is employed, and the equation of motion of the coupled O-TLCD-structure system. In doing so, a formal solution to determine the degree of freedom (DoF) of the O-TLCD is introduced, which proves independence of the O-TLCD response from the number of L-arms as well as from the angle of excitations. Second, for designing O-TLCDs, a set of design criteria and a general optimization scheme, which accommodate the online simulation of coupled O-TLCD-structure system under arbitrary excitations, are proposed. Consequently, without adding extra complication coming from extra DoFs to the motion equation of the damper, the O-TLCD functions as an enhanced liquid damper for multidirectional vibration attenuation. Next, using the O-TLCDs designed with different mass ratios, numerical simulations of O-TLCD-structure systems are conducted under seismic loads, free vibration, harmonic excitation and white noise and the controlled and uncontrolled responses of the systems are assessed in the time and the frequency domain. Here, the role of important parameters such as the mass ratio, the head loss coefficient, the liquid deflection and the excitation amplitude are evaluated and the influence of varying conditions on the efficiency of the O-TLCD are discussed. Results demonstrate that the proposed O-TLCD can be well tuned to the structure and markedly control the peak and the RMS of responses of the structure. In the end, an experimental study on a prototype O-TLCD is performed using a shaking table, which verifies the proposed mathematical modeling approach.
Performance Studies of Miniaturized Cylindrical and Annular Hall Thrusters (2002)

Conventional annular Hall thrusters do not scale efficiently to low power. An alternative approach, a 2.6 cm miniaturized cylindrical Hall thruster with a cusptype magnetic field distribution, was developed and studied. Its performance was compared to that of a conventional annular thruster of the same dimensions. The cylindrical thruster exhibits discharge characteristics similar to those of the annular thruster but has much higher propellant ionization efficiency. Significantly, a large fraction of multicharged xenon ions might be present in the outgoing ion flux generated by the cylindrical thruster. The operation of the cylindrical thruster is quieter than that of the annular thruster. The characteristic peak in the discharge current fluctuation spectrum at 50-60 kHz appears to be due to ionization instabilities. In the power range 50-300 W, the cylindrical and annular thrusters have comparable efficiencies ( η=15-32% ) and thrusts ( T=2.5-12 mN ). For the annular configuration, the voltage less than 200 V was not sufficient to sustain the discharge at low propellant flow rates. The cylindrical thruster can operate at voltages lower than 200V, which suggests that a cylindrical thruster might be designed to operate at even smaller power.
A Method of Coronary MR Angiography (1991)

Procedures for the in vivo detection of coronary (and pulmonary) vessels using MR angiographic techniques were investigated. The most successful technique used gradient-recalled thin slice acquisitions that were gated to the cardiac cycle. The resulting data sets consist of three spatial dimensions and one time dimension. Acquisition of four dimensions of data proved necessary to obtain useful images of small vessels located on the moving myocardium.
Privacy and Scalability Analysis of Vehicular Combinatorial Certificate Schemes (2009)

Vehicular networks require secure communication, especially for safety applications. A public key infrastructure using a Combinatorial Certificate Scheme was implemented in the US Vehicle Infrastructure Integration (VII) Proof-of- Concept (PoC) trial to secure V2V communication and preserve vehicle privacy. This paper analyzes the privacy and scalability of the Combinatorial Certificate approach for a nationwide network of 200 million vehicles. It examines the tradeoffs between privacy, the ability to efficiently detect and remove bad actors, and the need to minimize the impact on innocent vehicles due to revocation and replacement of compromised shared certificates. Key findings include the level of vehicle anonymity that exists in situations of low vehicular density and the impact that certificate revocations have on innocent vehicles. A refinement to the Combinatorial Certificate Scheme is described that improves the innocent vehicle re-key quota lifetime by an order of magnitude.
Modulation of therapeutic antibody effector functions by glycosylation engineering: Influence of Golgi enzyme localization domain and co‐expression of heterologous β1, 4‐<i>N</i>‐acetylglucosaminyltransferase III and Golgi α‐mannosidase II (2006)

The effector functions elicited by IgG antibodies strongly depend on the carbohydrate moiety linked to the Fc region of the protein. Therefore several approaches have been developed to rationally manipulate these glycans and improve the biological functions of the antibody. Overexpression of recombinant beta1,4-N-acetylglucosaminyltransferase III (GnT-III) in production cell lines leads to antibodies enriched in bisected oligosaccharides. Moreover, GnT-III overexpression leads to increases in non-fucosylated and hybrid oligosaccharides. Such antibody glycovariants have increased antibody-dependent cellular cytotoxicity (ADCC). To explore a further variable besides overexpression of GnT-III, we exchanged the localization domain of GnT-III with that of other Golgi-resident enzymes. Our results indicate that chimeric GnT-III can compete even more efficiently against the endogenous core alpha1,6-fucosyltransferase (alpha1,6-FucT) and Golgi alpha-mannosidase II (ManII) leading to higher proportions of bisected non-fucosylated hybrid glycans ("Glyco-1" antibody). The co-expression of GnT-III and ManII led to a similar degree of non-fucosylation as that obtained for Glyco-1, but the majority of the oligosaccharides linked to this antibody ("Glyco-2") are of the complex type. These glycovariants feature strongly increased ADCC activity compared to the unmodified antibody, while Glyco-1 (hybrid-rich) features reduced complement-dependent cytotoxicity (CDC) compared to Glyco-2 or unmodified antibody. We show that apart from GnT-III overexpression, engineering of GnT-III localization is a versatile tool to modulate the biological activities of antibodies relevant for their therapeutic application.
A 82Sr-82Rb isotope generator for use in nuclear medicine. (1975)

An improved 82Sr-82Rb generator system, based on the complexing ion-exchange resin Chelex-100, has been developed. Columns of this material can be easily and rapidly milked, and the rubidium-strontium separation factor for a fresh generator under the experimental conditions studied was found to be greater than 10-7. Approximately 80% of the 82Rb present can be delivered in a 15-ml volume of aqueous 0.2 M NH4Cl solution. After more than 6 liters of eluant had passed through the generator, the rubidium-strontium separation factor was still observed to greater than 10-5 and no unusual strontium breakthrough behavior was seen in the system over nearly three 82Sr half-lives.
A Remotely Controlled Bipolar Coagulator Activation System (1997)

Abkes, Bruce BS; Mirsky, Roman BS; Wellman, Bryan MD; Howard, M. A. III, MD; Gillies, C. T. PhD Author Information
Making Solid Aromatic Polyimide Fibers (1991)

Improved wet-spinning process makes aromatic polyamic acid fibers containing no voids, and converts to polyimide fibers also free of voids. Elimination of voids found to improve tensile strength and other tensile properties. Improved polyimide fibers prove useful in protective clothing, sealing materials, filters for harsh chemical and/or thermal environments, and other applications taking advantage of excellent chemical resistance, high thermal stability, and good tensile properties.
Frontispiece: Towards Upcycling Biomass‐Derived Crosslinked Polymers with Light (2022)

Renewable Polymers. In their Communication (e202203353), Mukund P. Sibi, Dean C. Webster, Jayaraman Sivaguru et al. highlight a methodology for the generation of photodegradable and recyclable cross-linked polymers from biomass.
Development and Characterization of a New, Highly Specific Antibody to the Human Chorionic Gonadotropin-β Fragment* (1991)

In addition to high concentrations of hCG, pregnancy urine contains even higher concentrations of a fragment of the hCG beta-subunit. This biologically inactive material complicates immunological measurement of hCG, since it cross-reacts with many polyclonal and monoclonal antibodies to the hCG beta-subunit that are employed for assays of hCG in urine. Although we and others have developed antibodies to this fragment, specific measurement of the fragment in the presence of free hCG beta has remained difficult due to intrinsic cross-reactivity of these antibodies with the intact hCG beta. Rather than attempt to increase specificity by assay optimization, we developed a new, highly specific monoclonal antibody, designated B210, which cross-reacts less than 0.1% with the free hCG beta-subunit in both liquid and solid phase immunoassay formats. We have used this new monoclonal antibody in immunoradiometric assays to measure specifically the hCG beta fragment in urine throughout pregnancy as well as in the sera of two individuals with cancers producing the hCG beta-subunit. We discovered that the hCG beta fragment can bind three monoclonal antibodies simultaneously, indicating that although the epitope for antibody B210 is a new determinant exposed on the hCG beta fragment and not on intact hCG or on free hCG beta-subunit, the hCG beta fragment retains at least two other hCG beta-related epitopes intact, i.e. those that bind monoclonal antibodies B108 and B201.
Micro Flow Sensor for Microreactor (2009)

Recently, a state-of-the-art technology called a microreactor has been drawing a lot of attention in the small-lot production processes for high value added functional materials, such as pharmaceuticals and fine chemical materials. We have been focusing on this technology, and have developed a new micro flow sensor, which is one of the most important components of microreactor systems. Conventional flowmeters made of stainless-steel narrow tubes for micro flow rate applications are not applicable to micro reactor systems where corrosive liquids are used. The key feature of the developed micro flow sensor is its high resistance to corrosive liquids thanks to the use of glass for all wetted surfaces of the sensor, and arranging the sensing elements in non-wetted areas. This paper introduces the developed micro flow sensor and reports its evaluation results.