gebhart/patrepeval huggingface dataset:
Treatment of complex periorbital venolymphatic malformation in a neonate with a combination therapy of sirolimus and prednisolone (2015)

Venolymphatic malformations (VLMs) are vascular anomalies consisting of both veins and lymph vessels. A 2-week-old newborn presented with large VLMs on the left forehead, temple, preauricular area, and orbit. Patient was at imminent risk for permanent vision loss due to a localized mass effect. Surgical excision or debulking was contraindicated due to its complexity and proximity to the left eye, and the patient failed to respond to the sildenafil treatment and sclerotherapy. Patient was subsequently started on oral sirolimus 0.8 mg/m(2) twice daily in combination with prednisolone 2 mg/kg daily. The patient had an excellent therapeutic outcome for 7 months with complete preservation of vision before treatment was discontinued. However, 2 months after the medical treatments were discontinued, her VLM rebounded. She responded to the combination therapy again after a failed treatment with the mTOR inhibitor alone. This case demonstrates that the sirolimus and prednisolone combination therapy could be beneficial for treatment of complex VLM intractable to other treatments.
Sources of variability of human plasma apolipoprotein A‐IV levels and relationships with lipid metabolism (1994)

Plasma apolipoprotein (apo) A-IV concentration was determined by immunoelectrophoretic assay (EIA) in 119 nuclear families. No significant effect of concomitants such as age, weight, height, body mass index, tobacco, and alcohol consumption was observed on apo A-IV levels in men and in boys. In women, contraceptive use and hormonal status affected apo A-IV levels. In girls, only age influenced the quantitative phenotype. After adjusting by specific concomitants significant correlations were observed between apo A-IV levels and triglycerides, apolipoprotein A-I and apo B levels, suggesting a role of apolipoprotein A-IV in the hepatic lipid metabolism. Intrafamilial correlations were estimated to investigate the plausibility of a common family factor. The results obtained in this study showed a significant correlation between family members with the exception of mother-daughter pairs. Using a variance components model, the contribution of genetic and environmental factors was then investigated. Different statistical models were used and two major hypotheses were statistically acceptable: the first hypothesis supports that shared and specific environmental factors explain 35 and 65%, respectively, of the total adjusted plasma apo A-IV variation. The fraction of apo A-IV variability attributable to genetic factors was null. The second hypothesis supports that the fraction of variability attributable to apo A-IV genetic variation is 67% and the common spouse environmental factors are responsible for 33% of the total variability and no specific environmental effect was found. Among the two hypotheses, taking account of the metabolism function, we support the first one without excluding gene-environment interactions which could mask the genetic influence.
Biochemical and biophysical analyses of hypoxia sensing prolyl hydroxylases from Dictyostelium discoideum and Toxoplasma gondii (2020)

In animals, the response to chronic hypoxia is mediated by prolyl hydroxylases (PHDs) that regulate the levels of hypoxia-inducible transcription factor α (HIFα). PHD homologues exist in other types of eukaryotes and prokaryotes where they act on non HIF substrates. To gain insight into the factors underlying different PHD substrates and properties, we carried out biochemical and biophysical studies on PHD homologues from the cellular slime mold, <i>Dictyostelium discoideum,</i> and the protozoan parasite, <i>Toxoplasma gondii</i>, both lacking HIF. The respective prolyl-hydroxylases (DdPhyA and TgPhyA) catalyze prolyl-hydroxylation of S-phase kinase-associated protein 1 (Skp1), a reaction enabling adaptation to different dioxygen availability. Assays with full-length Skp1 substrates reveal substantial differences in the kinetic properties of DdPhyA and TgPhyA, both with respect to each other and compared with human PHD2; consistent with cellular studies, TgPhyA is more active at low dioxygen concentrations than DdPhyA. TgSkp1 is a DdPhyA substrate and DdSkp1 is a TgPhyA substrate. No cross-reactivity was detected between DdPhyA/TgPhyA substrates and human PHD2. The human Skp1 E147P variant is a DdPhyA and TgPhyA substrate, suggesting some retention of ancestral interactions. Crystallographic analysis of DdPhyA enables comparisons with homologues from humans, <i>Trichoplax adhaerens</i>, and prokaryotes, informing on differences in mobile elements involved in substrate binding and catalysis. In DdPhyA, two mobile loops that enclose substrates in the PHDs are conserved, but the C-terminal helix of the PHDs is strikingly absent. The combined results support the proposal that PHD homologues have evolved kinetic and structural features suited to their specific sensing roles.
Nuclear magnetic resonance of laser-polarized noble gases in molecules, materials and organisms (1999)

Conventional nuclear magnetic resonance (NMR) spectroscopy and magnetic resonance imaging (MRI) are fundamentally challenged by the insensitivity that stems from the ordinarily low spin polarization achievable in even the strongest NMR magnets. However, by transferring angular momentum from laser light to electronic and nuclear spins, optical pumping methods can increase the nuclear spin polarization of noble gases by several orders of magnitude, thereby greatly enhancing their NMR sensitivity. This dissertation is primarily concerned with the principles and practice of optically pumped nuclear magnetic resonance (OPNMR). The enormous sensitivity enhancement afforded by optical pumping noble gases can be exploited to permit a variety of novel NMR experiments across many disciplines. Many such experiments are reviewed, including the void-space imaging of organisms and materials, NMR and MRI of living tissues, probing structure and dynamics of molecules in solution and on surfaces, and zero-field NMR and MRI.
Hierarchical Design for Fabricating Cost‐Effective High Performance Supercapacitors (2014)

The salient feature of a supercapacitor is its ability to deliver much higher power density than a battery. A hierarchical design and a cost‐effective approach to fabricate high performance supercapacitors using functional carbon nano‐particles is reported. A special arc synthesis method is used to produce amorphous/crystalline composite with nitrogen and boron co‐doped high charge density carbon nanoparticles. Upon etch removal of the amorphous phase in the composite nanoparticle, a crystalline carbon framework emerges, consisting of a mixture of nano‐graphitic sheets mostly in the middle and single nanohorns distributed around the surface of the nanoparticle. These nanoparticles have large internal/external surfaces with subnano channels and sharp nano‐tips for high speed charge transport and local charge accumulation. To deliver high power density, the internal resistance of the device is reduced by assembling the nanoparticles via electro‐spraying and compacting them into dense films (without any binder) under 700 MPa of pressure before supercapacitor assembly. Taken together, the hierarchical processed supercapacitor has a very high (compared to literature values) power density of nearly 4.5 kW cm −3 and a respectable energy density of 2.45 mWh cm −3 . Combining these carbon nanoparticles with large area spraying coating, it can lead to a cost‐effective production of high performance supercapacitors.
Construction of a dairy microbial genome catalog opens new perspectives for the metagenomic analysis of dairy fermented products (2014)

Our study provides data, which combined with publicly available genome references, represents the most expansive catalog to date of cheese-associated bacteria. Using this extended dairy catalog, we revealed the presence in traditional cheese of dominant microorganisms not deliberately inoculated, mainly Gram-negative genera such as Pseudoalteromonas haloplanktis or Psychrobacter immobilis, that may contribute to the characteristics of cheese produced through traditional methods.
Functional and profiling studies prove that prostate cancer upregulated neuroblastoma thymosin β is the true human homologue of rat thymosin β15 (2007)

A peptide with a sequence identical to rat thymosin beta(Tb)15 was reported to be upregulated in human prostate cancer. However, in this report we provide evidence that TbNB, initially identified in human neuroblastoma, is the only Tb isoform upregulated in human prostate cancer and that the Tb15 sequence is not present herein. In addition, we demonstrate that human TbNB has a higher affinity for actin in comparison to Tb4 and promotes cell migration. In combination, this experimentally validates TbNB as functional homologue of rat Tb15 in the human organism and clarifies the current composition of the human Tb family.
Complexation of upper rim phosphorylated calix[4]arenes with uracil derivatives in water-containing solution (2005)

The host–guest complexation of the upper rim diisopropoxyphosphoryl derivatives of dipropoxy- or tetrapropoxycalix[4]arenes and the upper rim unsubstituted parent calixarenes with uracil and 5-amino-, 5-chloro-, 5-nitro-, 6-methyl and 6-amino-1,3-dimethyluracil in methanol–acetonitrile–tetrahydrofuran–water (15:10:5:70, v/v( solution was investigated by reversed-phase high-performance liquid chromatography. The association constants of the 1:1 host–guest complexes of the uracils with the calixarenes within the range 1200–54 300 M−1 were calculated from the relationship between the capacity factor of the uracil solutes and concentration of the calixarenes in the mobile phase. The association constants were dependent on the nature of uracil guests, the manner of the lower rim substitution of the calixarene skeleton and the number of the phosphoryl groups at the upper rim. Molecular dynamics (MD( simulations of host–guest interactions were performed. Based on the MD trajectories, the atomic partition to the net molecular solvent-exposed surface was analysed for the separate host and guest molecules and for the complexes. Copyright © 2005 John Wiley & Sons, Ltd.
Structure−Activity Relationships in the Acceleration of a Hetero Diels−Alder Reaction by Metalloporphyrin Hosts (2000)

At 0.33 mM in dichloromethane at 25 degrees C the cyclic metalloporphyrin hosts 5, 7, 8, and 10 accelerate 12-fold, 260-fold, 1130-fold, and 250-fold, respectively, the reaction of 1 and 2 and also bind the product 3 very strongly. These observations combined with previously measured results with hosts 6, 9, and 11 allowed us to explore the influence of host geometry changes on acceleration rates and product binding over a wide range of host molecules of different size, ranging from extremely tightly strapped to very relaxed. To estimate the Zn-Zn distance in the transition-state complex, we carried out quantum mechanical calculations (at the HF/6-31G level) for the transition state to form 3. The structure-activity relationships found for hosts 5-11, along with the structural features calculated for the transition-state structure between 1 and 2 and previously crystallographically observed for product-free hosts and for a host.product complex,(4) suggest that both host preorganization as well as host flexibility are key features leading to high acceleration rates and product binding and that it is the delicate balance between the two structural features that leads to maximum efficiency.
Mimicking the Photosynthetic Process in a Macromolecule (2006)

A wheel-shaped macromolecule, 1, comprised of five bis(phenylethynyl) anthracene antenna chromophores and a porphyrin-fullerene electron donor-acceptor moiety was synthesized and shown to demonstrate efficient light harvesting in the 430-480 nm spectral region, where solar irradiance is maximal. Singlet energy transfer from the five anthracene antennas of 1, which absorb strongly in the 430-475 nm region, to the porphyrin moiety occurs rapidly and with a quantum yield of ˜100%. Subsequently, photoinduced electron transfer creates a P 〈 +-C60 〈 - charge-separated state, thus mimicking the process used by photosynthetic organisms to convert sunlight into electrochemical potential. The details of the synthesis of the macromolecule are reported in a separate account: J. Porphyrins Phthalocyanines 2005, in press.
ChemInform Abstract: SYNTHESIS AND EVALUATION OF DOPED YTTRIUM OXIDE‐STABILIZED ZIRCONIUM OXIDE FOR THE PRODUCTION OF HYDROGEN (1977)

Abstract Einphasige keramische Materialien auf der Basis von Ygüystabilisiertem ZrO 2 mit ZnO, TiO, MnzO3, C503, C602 und UO2/Fe3O4 als dritter Komponente werden durch Sintern der vorher calcinierten, gemahlenen und gepreßten Oxidgemische bei 1500‐1900°C in H 2 ‐Atmosphäre synthetisiert.
In <i>Trans</i> T Cell Tolerance Diminishes Autoantibody Responses and Exacerbates Experimental Allergic Encephalomyelitis (2008)

A number of Ag-specific approaches have been developed that ameliorate experimental allergic encephalomyelitis (EAE), an animal model for the human autoimmune disease multiple sclerosis. Translation to humans, however, remains a consideration, justifying the search for more insight into the mechanism underlying restoration of self-tolerance. Ig-proteolipid protein (PLP) 1 and Ig-myelin oligodendrocyte glycoprotein (MOG) are Ig chimeras carrying the encephalitogenic PLP 139-151 and MOG 35-55 amino acid sequence, respectively. Ig-PLP1 ameliorates EAE in SJL/J (H-2(s)) mice while Ig-MOG modulates the disease in C57BL/6 (H-2(b)) animals. In this study, we asked whether the chimeras would suppress EAE in F(1) mice expressing both parental MHC alleles and representing a polymorphism with more relevance to human circumstances. The results show that Ig-MOG modulates both PLP1 and MOG peptide-induced EAE in the F(1) mice, whereas Ig-PLP1 counters PLP1 EAE but exacerbates MOG-induced disease. This in trans aggravation of MOG EAE by Ig-PLP1 operates through induction of PLP1-specific T cells producing IL-5 that sustained inhibition of MOG-specific Abs leading to exacerbation of EAE. Thus, in trans T cell tolerance, which should be operative in polymorphic systems, can aggravate rather than ameliorate autoimmunity. This phenomenon possibly takes place through interference with protective humoral immunity.
Safety of Celecoxib in patients with cutaneous reactions due to ASA-NSAIDs intolerance (2007)

Our study proves therefore Celecoxib safety on a 72-hour observation period.
Effects of Ethanol on NMDA Receptors in Brain: Possibilities for Mg<sup>2+</sup> ‐Ethanol Interactions (1994)

The major excitatory neurotransmitter in the CNS is L-glutamate, and one of the subtypes of L-glutamate receptors, the N-methyl-D-aspartate (NMDA) subtype, has been found to be quite sensitive to inhibition by low concentrations of ethanol (5-50 mM). The NMDA receptor-ion channels are unique in that they exhibit a voltage-dependent blockade by physiological concentrations of Mg2+, a blockade that is relieved as the cell membrane is depolarized. Several lines of evidence also suggest that the activity of this receptor-channel complex may be regulated through a high-affinity Mg2+ site, which is distinct from the channel-blocking site and could even be located on the extracellular domain of the protein. This high-affinity Mg2+ site has been shown to increase the binding of N-[1-(2-thienyl) cyclohexyl]piperidine within the ion channel, as well as the binding of competitive antagonist such as 3-(+/-)-carboxypiperazine-4-yl)-[1,2]-propyl-1-phosphonic acid and the receptor coactivator glycine. The relationship between the acute effects of ethanol on receptor activation and the regulatory properties of Mg2+ is not yet known, although the hypomagnesemia that occurs in chronic alcoholism could certainly have implications for receptor function. A significant amount of molecular characterization of the multiple isoforms of the NMDA receptor-ion channel will be required before the role of Mg2+ can be clarified and any relationship between Mg2+ regulation and ethanol inhibition established.
An analytical study of a tradeoff between transmission power and FEC for TCP optimization in wireless networks (2004)

It is well known that TCP has performance problems when wireless links are involved in the end-to-end connection. This is due to the high bit error rate characterizing wireless links. Appropriate power management and error correction can improve the link reliability observed by TCP and increase the throughput performance accordingly. In the literature, the effects of transmission power and error correction capability on TCP performance have been considered separately, so far. We study the tradeoff between power management and error correction. To this end, an analytical framework to maximize a user satisfaction function, defined as the ratio between the TCP throughput and a cost function, is introduced. The proposed analytical framework does not depend on the specific wireless system and does not rely on any TCP throughput approximation formula. The benefits of joint power management and error control are demonstrated in several relevant case studies.
MICROSTRUCTURE AND PROPERTIES OF Al-Li-Cu-Mg-Zr (8090) HEAVY SECTION FORGINGS (1987)

The microstructure and properties of heavy section forgings of the 8090 Al-Li alloy were investigated including the as-cast, homogenized, forged, and heat-treated conditions. The ingots, 305x965x2000-3600 mm in size, were cast by Alcan. Homogenization involved 24 to 48 h soaks at 545°C. Ingots were hand-forged by HDAF Ltd. to sizes up to 356x356x1524 mm, then solution-treated at 530°C for 6 h and water quenched. The material was aged at various times at temperatures of 150, 170, and 190°C. Microstructures were examined by TEM, CBED, SEM, AES, and optical microscopy. Mechanical properties were characterized by tensile, fracture toughness, and stress corrosion tests. A strong correlation was observed between grain boundary precipitation of a icosohedral (I) phase and certain mechanical properties. The I-phase has been tentatively identified as Al6CuLi3, historically called "T2". When the I-phase was predominant, the fracture toughness, SCC, and tensile ductility were invariably low. Factors identified as promoting the formation of I-phase were cooling rates from the solution treatment temperature slower than -10°C s-1, increased aging time, and increased aging temperatures in the range 150 to 190°C. Aging conditions which minimized the formation of the grain boundary I-phase and, consequently, improved the mechanical properties were determined. Three distinct constituent phases were found in cast ingots having only slightly different chemistries. Remnants of these constituent phases were present in every subsequent stage of thermal processing. One, AlLiSi, was discovered to promote surface pitting and to substantially lower the stress corrosion cracking resistance. This phase's reactivity with seawater appears to promote dissolution of the adjacent matrix. Material heat-treated to suppress the formation of the I-phase, but high in silicon, revealed low SCC resistance. In summary, many factors including composition, casting practice, metal-working, and heat-treatment, determine the mechanical properties of 8090 Al-Li in heavy section forgings, and which range from unacceptable to acceptable for high performance aerospace structures.
Human and Pneumococcal Cell Surface Glyceraldehyde-3-phosphate Dehydrogenase (GAPDH) Proteins Are Both Ligands of Human C1q Protein (2012)

C1q, a key component of the classical complement pathway, is a major player in the response to microbial infection and has been shown to detect noxious altered-self substances such as apoptotic cells. In this work, using complementary experimental approaches, we identified the glyceraldehyde-3-phosphate dehydrogenase (GAPDH) as a C1q partner when exposed at the surface of human pathogenic bacteria Streptococcus pneumoniae and human apoptotic cells. The membrane-associated GAPDH on HeLa cells bound the globular regions of C1q as demonstrated by pulldown and cell surface co-localization experiments. Pneumococcal strains deficient in surface-exposed GAPDH harbored a decreased level of C1q recognition when compared with the wild-type strains. Both recombinant human and pneumococcal GAPDHs interacted avidly with C1q as measured by surface plasmon resonance experiments (K(D) = 0.34-2.17 nm). In addition, GAPDH-C1q complexes were observed by transmission electron microscopy after cross-linking. The purified pneumococcal GAPDH protein activated C1 in an in vitro assay unlike the human form. Deposition of C1q, C3b, and C4b from human serum at the surface of pneumococcal cells was dependent on the presence of surface-exposed GAPDH. This ability of C1q to sense both human and bacterial GAPDHs sheds new insights on the role of this important defense collagen molecule in modulating the immune response.
Abstract 4969: Neuropilin-2 is downregulated by Snail during EMT in lung cancer (2010)

Abstract Neuropilins (NRP1 and NRP2) are receptors for class-3 semaphorins that are guidance molecules involved in nerve growth patterning, tissue development, immune response, angiogenesis, and cancer development. Upon semaphorin binding, neuropilins transmit signals to the co-receptor, the plexins. Interestingly, neuropilins are also receptors for VEGF. Semaphorins control cell protrusion, spreading and adhesion and can trigger migratory responses often in a repulsive manner but also attractive depending on the cellular context. We previously cloned SEMA3F, coding for a class-3 semaphorin, in the chromosome 3p21.3 region which undergoes frequent loss of heterozygosity (LOH) in lung cancer. We further reported that levels of SEMA3F inversely correlated with tumor aggressiveness in human lung cancer and we demonstrated the tumor suppressor activity of SEMA3F in experimental xenograft models. In addition, SEMA3F is directly downregulated by ZEB1, a transcription factor involved in the epithelial to mesenchymal transition (EMT). Recently, we found an inverse correlation between the transcription factor Snail and NRP2 expression in a panel of 19 lung cancer cell lines. Interestingly, Snail is induced during EMT and NRP2 is the best affinity receptor for SEMA3F. Data will be presented with the H358 NSCLC cell line model where Snail induction decreases NRP2 expression both at the RNA and protein levels. Chromatin immunoprecipation (ChIP) experiment suggests Snail direct binding to the NRP2 promoter. In addition, in lung cancer tissue microarrays, Snail and NRP2 stainings are frequently mutually exclusive. Our results suggest that loss of SEMA3F and NRP2 would trigger EMT and promote metastasis. Therefore, targeting the semaphorin/neuropilin pathway would be an interesting therapeutic approach in lung cancer. Citation Format: {Authors}. {Abstract title} [abstract]. In: Proceedings of the 101st Annual Meeting of the American Association for Cancer Research; 2010 Apr 17-21; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2010;70(8 Suppl):Abstract nr 4969.