gebhart/patrepeval huggingface dataset:
Genetic analysis of a breast-ovarian cancer family, with 7 cases of colorectal cancer linked toBRCA1, fails to support a role forBRCA1 in colorectal tumorigenesis (2000)

Mutations in the BRCA1 gene cause strongly elevated risks of breast and ovarian cancers but may also confer a 3-fold increased risk for colorectal cancer. To address the relationship between BRCA1 carriership and colorectal tumorigenesis, we studied the genetics of a breast-ovarian cancer family with 7 cases of colorectal cancer. A germline 3938insG mutation in BRCA1 was found in 5 breast-cancer patients, 1 with ductal carcinoma in situ, ovarian cancer and an adenoma of the colon, and in 4/5 colorectal-cancer patients investigated. However, the youngest patient, diagnosed at age 23, was a non-carrier. Loss of the wild-type BRCA1 allele was observed in 3/3 breast tissues (2 breast carcinomas and 1 ductal carcinoma in situ) but in 0/6 colorectal tissues (5 carcinomas and 1 adenoma), suggesting that BRCA1 loss is not critical for colorectal tumorigenesis. To examine the possibility that an as yet unknown gene linked to BRCA1 was involved in the colorectal cancers, chromosome 17 segregation was studied with 7 polymorphic markers encompassing a 20 cM region including BRCA1. None of these markers showed complete allele sharing among all 5 colorectal-cancer patients studied. Clinical history, mutation analysis and microsatellite instability analysis excluded a role for any of the known colorectal-cancer susceptibility genes. In 4 other Dutch families carrying the same BRCA1 mutation, only 1 colorectal-cancer case was reported, of which the carrier status is unknown.
Predominance of a bacteriocin-producing Lactobacillus salivarius component of a five-strain probiotic in the porcine ileum and effects on host immune phenotype (2008)

Relative predominance of each of five probiotic strains was investigated in the ileum of weaned pigs, compared with that in feces, when administered in combination at c. 5 x 10(9) CFU day(-1) for 28 days. Probiotic was excreted at 10(6)-10(9) CFU g(-1) feces, while ileal survival ranged from 10(2) to 10(6) CFU g(-1) digesta. In contrast to the feces, where Lactobacillus murinus DPC6002 predominated, the bacteriocin-producing Lactobacillus salivarus DPC6005 dominated over coadministered strains both in the ileum digesta and in mucosa. Probiotic administration did not alter counts of culturable fecal Lactobacillus or Enterobacteriaceae but higher ileal Enterobacteriaceae were observed in the ileal digesta of probiotic-fed pigs (P<0.05). We observed decreased CD25 induction on T cells and monocytes (P<0.01) and decreased CTLA-4 induction (P<0.05) by the mitogen phytohemagglutinin on CD4 T cells from the probiotic group. Probiotic treatment also increased the proportion of CD4+ CD8+ T cells within the peripheral T-cell population and increased ileal IL-8 mRNA expression (P<0.05). In conclusion, superior ileal survival of L. salivarius compared with the other coadministered probiotics may be due to a competitive advantage conferred by its bacteriocin. The findings also suggest that the five-strain combination may function as a probiotic, at least in part, via immunomodulation.
Flexible modulation of agonist efficacy at the human A3 adenosine receptor by the imidazoquinoline allosteric enhancer LUF6000 (2008)

LUF6000 was found to be an allosteric enhancer of Emax of structurally diverse agonists at the A3 AR, being more effective for low-Emax agonists than for high-Emax agonists. LUF6000 was demonstrated to convert an antagonist into an agonist, which represents the first example in G protein-coupled receptors. The observations from the present study are consistent with that predicted by mathematical modeling.
High-Speed Antenna-Coupled Terahertz Thermocouple Detectors and Mixers (2015)

An antenna-coupled nanothermocouple (ACNTC) is an integrated structure consisting of a dipole nanoantenna and a nanothermocouple (NTC). ACNTCs are excellently suited as polarization-sensitive detectors and mixers for the long-wavelength far-infrared range around 30 THz. Radiation collected by the integrated nanoantenna and fed into the hot junction creates a temperature difference between the hot and cold junctions of the thermocouple, which results in open-circuit voltage due to the Seebeck effect. Due to the geometry-dependence of the Seebeck coefficient in nanowires, we realize single-metal ACNTCs. The fundamentals of single-metal NTCs are discussed. The thermal dynamics of NTCs is investigated showing that NTCs could exhibit mixer and detector intermediate frequency and low frequency cutoffs beyond 100 GHz. We provide experimental evidence of ACNTCs.
A Novel Design for Vehicle Rollover Warning System Based Advanced Image Processing (2012)

This paper investigates a novel type of intelligent rollover warning system. Particularly, this study focuses on the speed based rollover warning messages for vehicles in a potential rollover situation on sharp curves or exit ramps. The vehicle rollover warning system (VRWS) estimates the maximum rollover threshold speed in real time according to the curvature detection of road and the vehicle dynamic sensing parameters such as slip angle, vehicle speed, vehicle acceleration, roll angle, tire model, height of gravity center. Consequently, there are two key techniques. First, the author use image recognition technology to calculate the radius of the curve. It had the advantage of real-time detection with road environment than the Global Positioning System (GPS) method which is according fixed digital map. Finally, the authors provide the maximum rollover threshold speed by the rollover index prediction model. Compared with Electronic Stability Program (ESP), this technique may provide 2 or 3 seconds early warning before the vehicle rollover occurs. It can reduce the risk of vehicle rollover on curved ramp. The effectiveness of VRWS is presented in the test results.
Solubility Modeling with a Nonrandom Two-Liquid Segment Activity Coefficient Model (2004)

A segment contribution activity coefficient model, derived from the polymer nonrandom two-liquid model, is proposed for fast, qualitative estimation of the solubilities of organic nonelectrolytes in common solvents. Conceptually, the approach suggests that one account for the liquid nonideality of mixtures of complex pharmaceutical molecules and small solvent molecules in terms of interactions between three pairwise interacting conceptual segments: hydrophobic segment, hydrophilic segment, and polar segment. In practice, these conceptual segments become the molecular descriptors used to represent the molecular surface characteristics of each solute and solvent molecule. The treatment results in component-specific molecular parameters: hydrophobicity X, polarity Y, and hydrophilicity Z. Once the molecular parameters are identified from experimental data for common solvents and solute molecules, the model offers a simple and practical thermodynamic framework to estimate solubilities and to perform other phase equilibrium calculations in support of pharmaceutical process design.
Asymmetric regulation of quorum-sensing receptors drives autoinducer-specific gene expression programs in Vibrio cholerae (2017)

Quorum sensing (QS) is a mechanism of chemical communication that bacteria use to monitor cell-population density and coordinate group behaviors. QS relies on the production, detection, and group-wide response to extracellular signal molecules called autoinducers. Vibrio cholerae employs parallel QS circuits that converge into a shared signaling pathway. At high cell density, the CqsS and LuxPQ QS receptors detect the intra-genus and inter-species autoinducers CAI-1 and AI-2, respectively, to repress virulence factor production and biofilm formation. We show that positive feedback, mediated by the QS pathway, increases CqsS but not LuxQ levels during the transition into QS-mode, which amplifies the CAI-1 input into the pathway relative to the AI-2 input. Asymmetric feedback on CqsS enables responses exclusively to the CAI-1 autoinducer. Because CqsS exhibits the dominant QS signaling role in V. cholerae, agonism of CqsS with synthetic compounds could be used to control pathogenicity and host dispersal. We identify nine compounds that share no structural similarity to CAI-1, yet potently agonize CqsS via inhibition of CqsS autokinase activity.
<title>Intracavity and resonant external cavity laser frequency doubling using semiconductor heterostructures</title> (1993)

Optical second-harmonic (SH) generation in nonlinear semiconductors can be used to convert infrared radiation from semiconductor laser sources to visible light. The high incident light intensities and spatial modulation of the linear and nonlinear optical properties occurring in Al<SUB>x</SUB>Ga<SUB>1-x</SUB>As vertical cavity heterostructures can lead to SH generation efficiencies many orders of magnitude larger than possible homogeneous GaAs. SH generation in vertical cavity heterostructures is analyzed using a model incorporating multilayer reflections and spatially varying nonlinear sources.
A body-powered functional upper limb orthosis. (2001)

This paper describes the development and preliminary testing of a functional upper-limb orthosis for people that have limited strength in their arms. This is symptomatic of conditions such as muscular dystrophy (MD), spinal muscular atrophy (SMA), and partial spinal cord injury. The exoskeletal orthosis is wheelchair mounted, has two links and four degrees of freedom. It uses linear elastic elements to balance out the effects of gravity in three dimensions. Preliminary results on testing with ten subjects will be presented.
Are gadolinium contrast agents suitable for gadolinium neutron capture therapy? (2005)

Objective: Gadolinium neutron capture therapy (GdNCT) is a potential treatment for malignant tumors based on two steps: (1) injection of a tumor-specific 157Gd compound; (2) tumor irradiation with thermal neutrons. The GdNC reaction can induce cell death provided that Gd is proximate to DNA. Here, we studied the nuclear uptake of Gd by glioblastoma (GBM) tumor cells after treatment with two Gd compounds commonly used for magnetic resonance imaging, to evaluate their potential as GdNCT agents. Methods: Using synchrotron X-ray spectromicroscopy, we analyzed the Gd distribution at the subcellular level in: (1) human cultured GBM cells exposed to Gd-DTPA or Gd-DOTA for 0–72hours; (2) intracerebrally implanted C6 glioma tumors in rats injected with one or two doses of Gd-DOTA, and (3) tumor samples from GBM patients injected with Gd-DTPA. Results: In cell cultures, Gd-DTPA and Gd-DOTA were found in 84% and 56% of the cell nuclei, respectively. In rat tumors, Gd penetrated the nuclei of 47% and 85% of the tumor cells, after single and double injection of Gd-DOTA, respectively. In contrast, in human GBM tumors 6.1% of the cell nuclei contained Gd-DTPA. Discussion: Efficacy of Gd-DTPA and Gd-DOTA as GdNCT agents is predicted to be low, due to the insufficient number of tumor cell nuclei incorporating Gd. Although multiple administration schedules in vivo might induce Gd penetration into more tumor cell nuclei, a search for new Gd compounds with higher nuclear affinity is warranted before planning GdNCT in animal models or clinical trials.
Active optics: deformation systems compensating for optical aberrations with a minimum number of actuators (2012)

In this paper, we present two original concepts of deformable mirrors to compensate for first orders optical aberrations with a minimum number of actuators: one optical mode is generated with one actuator. The Variable O_-Axis parabola (VOALA) concept is a 3-actuators, 3-modes system able to generate independently Focus, Astigmatism3 and Coma3. The Correcting Optimized Mirror with a Single Actuator (COMSA) is a 1-actuator system able to generate a given combination of optical aberrations. The limited number of degrees of freedom of such systems makes them easy to set up and monitor, which is a significant advantage, notably for space use.
Alzheimer's Disease‐like Cerebrovascular Pathology in Transforming Growth Factor‐β1 Transgenic Mice and Functional Metabolic Correlates (2000)

Alzheimer's disease (AD) is frequently associated with cerebrovascular changes, including perivascular astrocytosis, amyloid deposition, and microvascular degeneration, but it is not known whether these pathological changes contribute to functional deficits in AD. To characterize the temporal relationship between amyloid deposition, cerebrovascular abnormalities, and potential functional changes, we studied transgenic mice that express transforming growth factor-beta 1 (TGF-beta 1) at low levels in astrocytes. TGF-beta 1 induced a prominent perivascular astrocytosis, followed by the accumulation of basement membrane proteins in microvessels, thickening of capillary basement membranes, and later, around 6 months of age, deposition of amyloid in cerebral blood vessels. At 9 months of age, various AD-like degenerative alterations were observed in endothelial cells and pericytes. Associated with these morphological changes were changes in regional cerebral glucose utilization. Preliminary results showed that TGF-beta 1 mice had significantly decreased glucose utilization in the mammillary bodies, structures involved in mnemonic and learning processes. Glucose utilization tended to be decreased in several other brain regions as well; however, in the inferior colliculus, it was markedly higher in TGF-beta 1 mice than in controls. We conclude that chronic overproduction of TGF-beta 1 triggers a pathogenic cascade leading to AD-like cerebrovascular amyloidosis, microvascular degeneration, and local alterations in brain metabolic activity. Similar mechanisms may be involved in AD pathogenesis.
Beneficial Effects of Hematopoietic Growth Factor Therapy in Chronic Ischemic Stroke in Rats (2007)

These data provide first evidence that functional restoration in chronic brain ischemia can be attained using hematopoietic growth factors.
Abrasive-Free Polishing for Extreme Ultraviolet Lithography Mask Substrates (2013)

In the development of photo-masks for extreme ultraviolet (EUV) lithography, it is a formidable task to achieve the stringent requirements of angstrom-scale surface roughness, sub-30 nm peak-valley flatness and defectivity in single digits. The majority of the defects present on the substrate arise from the polishing/cleaning processes. Here we describe the effectiveness of depositing an amorphous silicon (a-silicon) thin film to cover the existing defects (e.g. pits, scratches, bumps, embedded and adhered particles) on the surface of EUV substrates followed by polishing the a-silicon film using abrasive-free liquids to help meet the EUV substrate requirements of surface roughness and defectivity (ideally zero pits or bumps greater than 1 nm in depth or height). Chemical mechanical planarization (CMP) using an abrasive-free poly (ethyleneimine) solution showed that both the final surface roughness and removal rate are strongly dependent on polishing pressure. We developed a hybrid two-step CMP process consisting of polishing first at 1 psi to remove sufficient material to eliminate the underlying defects, followed by polishing at 0.5 psi to achieve low surface roughness. Under these polishing conditions, CMP of a-silicon films deposited on EUV mask substrates resulted in a root mean square (RMS) surface roughness of ∼0.09 nm.
Lectins in diagnostic microbiology: use of wheat germ agglutinin for laboratory identification of Neisseria gonorrhoeae (1979)

A lectin slide agglutination test has been developed for the confirmatory identification of Neisseria gonorrhoeae. With wheat germ lectin as an agglutinin, 164 of 165 clinical isolates of N. gonorrhoeae gave a 3 to 4+ reaction within 6 to 8 min. Four gonococcal isolates, even though negative by the fluoresecent-antibody method, gave strong positive reactions with the wheat germ lectin. Among 23 isolates of Neisseria meningitidis tested, which included representatives of sero-groups A, B, C,D, X, Y, and Z, only one strain in group X gave a false-positive reaction. The nonpathogenic species of Neisseria, as well as Branhamella catarrhalis, all showed negative reactions with the wheat germ agglutinin. The novel method provides a simple, rapid, and inexpensive means for the laboratory diagnosis of gonorrhea and obviates the need for performing second-stage sugar fermentation studies or utilizing the more expensive fluorescent-antibody techniques.
Matrix cracking repair and filling using active and passive modes for smart timed release of chemicals from fibers into cement matrices (1994)

Concrete and cement permeability (due to cracking and porosity) and brittleness can be addressed by the incorporation of chemicals in fibers, which are later released. This changes the material matrix properties just in time to prevent and repair damage. The conventional method to reduce cracking is fiber reinforcing and permeability is reduced by sealants and waterproofers or creation of a tighter microstructure of fewer, smaller pores. Our research combines the fibers and sealants together for internal timed release of chemicals from hollow fibers. This research specifically concerns the repair or healing of cracks and filling of voids in cementitious matrices by the internal release of repair chemicals from inside fibers into the hardened matrix. Two active and one passive mode of activation are studied.
Engineering a highly elastic human protein–based sealant for surgical applications (2017)

Surgical sealants have been used for sealing or reconnecting ruptured tissues but often have low adhesion, inappropriate mechanical strength, cytotoxicity concerns, and poor performance in biological environments. To address these challenges, we engineered a biocompatible and highly elastic hydrogel sealant with tunable adhesion properties by photocrosslinking the recombinant human protein tropoelastin. The subcutaneous implantation of the methacryloyl-substituted tropoelastin (MeTro) sealant in rodents demonstrated low toxicity and controlled degradation. All animals survived surgical procedures with adequate blood circulation by using MeTro in an incisional model of artery sealing in rats, and animals showed normal breathing and lung function in a model of surgically induced rat lung leakage. In vivo experiments in a porcine model demonstrated complete sealing of severely leaking lung tissue in the absence of sutures or staples, with no clinical or sonographic signs of pneumothorax during 14 days of follow-up. The engineered MeTro sealant has high potential for clinical applications because of superior adhesion and mechanical properties compared to commercially available sealants, as well as opportunity for further optimization of the degradation rate to fit desired surgical applications on different tissues.
<title>Adding static printing capabilities to the EUV phase-shifting point diffraction interferometer</title> (2001)

While interferometry is routinely used for the characterization and alignment of lithographic optics, the ultimate performance metric for these optics is printing in photoresist. Direct comparison of imaging and wavefront performance is also useful for verifying and improving the predictive power of wavefront metrology under actual printing conditions. To address these issues, static, small-field printing capabilities are being added to the extreme ultraviolet (EUV) phase-shifting point diffraction interferometer (PS/PDI) implemented at the Advanced Light Source at Lawrence Berkeley National Laboratory. This Sub- field Exposure Station (SES) will enable the earliest possible imaging characterization of the upcoming Engineering Test Stand (ETS) Set-2 projection optics. Relevant printing studies with the ETS projection optics require illumination partial coherence with (sigma) of approximately 0.7. This (sigma) value is very different from the coherent illumination requirements of the EUV PS/PDI and the coherence properties naturally provided by synchrotron undulator beamline illumination. Adding printing capabilities to the PS/PDI experimental system thus necessitates the development of an alternative illumination system capable of destroying the inherent coherence of the beamline. The SES is being implemented with two independent illuminators: the first is based on a novel EUV diffuser currently under development and the second is based on a scanning mirror design. Here we describe the design and implementation of the new SES, including a discussion of the illuminators and the fabrication of the EUV diffuser.
Functional Significance of the Alternative Transcript Processing of the Arabidopsis Floral Promoter <i>FCA</i> (2002)

The Arabidopsis gene FCA encodes an RNA binding protein that functions to promote the floral transition. The FCA transcript is alternatively processed to yield four transcripts, the most abundant of which is polyadenylated within intron 3. We have analyzed the role of the alternative processing on the floral transition. The introduction of FCA intronless transgenes resulted in increased FCA protein levels and accelerated flowering, but no role in flowering was found for products of the shorter transcripts. The consequences of the alternative processing on the FCA expression pattern were determined using a series of translational FCA-beta-glucuronidase fusions. The inclusion of FCA genomic sequence containing the alternatively processed intron 3 restricted the expression of the transgene predominantly to shoot and root apices and young flower buds. Expression of this fusion also was delayed developmentally. Therefore, the alternative processing of the FCA transcript limits, both spatially and temporally, the amount of functional FCA protein. Expression in roots prompted an analysis of root development, which indicated that FCA functions more generally than in the control of the floral transition.
Alternating Ring-Opening Metathesis Polymerization Copolymers Containing Charge-Transfer Units (2013)

Alternating copolymers derived from the ring-opening metathesis polymerization (ROMP) of functionalized cyclobutene esters (CBE) and cyclohexenes (CH) are described. The copolymer poly(CBE-<i>alt</i>-CH)<sub>n</sub> contains alternating side-chains based on dialcoxynaphthalene (DAN) and pyromellitc dianhydride (PDI). Characterization by UV-Vis spectroscopy showed that the copolymers exhibit an increase in charge-transfer intensity in comparison to previously reported alternating copolymers. The bulky side-chains inhibit backbiting during the polymerization and allow for enhanced control over the polymerization in comparison to copolymers functionalized with linear alkyl groups.