gebhart/patrepeval huggingface dataset:
Bacteria, Lipopolysaccharides, Amyloid and the Role of Iron Dysregulation in Parkinson’s Disease (2020)

Neuronal lesions in Parkinson&amp;rsquo;s disease (PD) are commonly associated with &amp;alpha;-synuclein (&amp;alpha;-Syn)-induced cell damage that are present both in the central and peripheral nervous systems of patients, with the enteric nervous system also being especially vulnerable. Here we bring together evidence that the development and presence of PD depends on specific sets of interlinking factors that include neuro-inflammation, systemic inflammation, &amp;alpha;-Syn-induced cell damage, vascular dysfunction, iron dysregulation, gut and periodontal dysbiosis. We argue that there is significant evidence that bacterial inflammagens fuel this systemic inflammation, and might be central to the development of PD. We also discuss the processes whereby lipopolysaccharides may be involved in causing nucleation of proteins, including of &amp;alpha;-Syn. Lastly, we review evidence that pre-and probiotics, as well as antibiotics and faecal transplant treatment might be valuable treatments in PD. A most important consideration, however, is that these therapeutic options need to be validated and tested in randomized controlled clinical trials. However, targeting underlying mechanisms of PD, including gut dysbiosis and iron toxicity, have potentially opened up possibilities of a wide variety of novel treatments which may relieve the characteristic non-motor deficits of PD, and may even slow the progression and/or accompanying gut-related conditions of the disease.
Chemotherapy for lung cancer: the state of the art in 2009 (2009)

Lung cancer remains the most common cause of cancer-related death among men and women worldwide. Incremental and significant advances in available systemic treatments, however, have taken place in the last decade to provide improved survival rates and better palliation for patients with non-small-cell and small-cell lung cancer. Superior imaging techniques have enabled the detection of early-stage disease and adjuvant chemotherapy has earned a place for select patients following resection of their tumors. Perhaps the largest growth has been in the area of advanced non-small-cell lung cancer, in which multiple new combination and single-agent systemic therapies have become standard where previously only 'best supportive care' was thought appropriate. In concert with broader applicability of chemotherapy, translational studies have provided the rationale for using molecular markers to identify the patients most likely to benefit from biological and targeted therapies. This review will discuss the current role of chemotherapy in both early and advanced non-small-cell and small-cell lung cancer. Novel targeted systemic therapies and the appropriate selection of treatments for patients based on their tumors' molecular phenotypes and histologies will also be reviewed.
Robust Design for RIS-Assisted Anti-Jamming Communications With Imperfect Angular Information: A Game-Theoretic Perspective (2022)

This paper utilizes a reconfigurable intelligent surface (RIS) to enhance the anti-jamming performance of wireless communications, due to its powerful capability of constructing smart and reconfigurable radio environment. In order to establish the practical interactions between the base station (BS) and the jammer, a Bayesian Stackelberg game is formulated, where the BS is the leader and the jammer acts as the follower. Specifically, with the help of a RIS-assisted transmitter, the BS attempts to reliably convey information to users with maximum utilities, whereas the smart jammer tries to interfere the signal reception of users with desired energy efficiency (EE) threshold. Since the BS and the jammer are not cooperative parties, the practical assumption that neither side can obtain the other's strategies is adopted in the proposed game, and the angular information based imperfect channel state information (CSI) is also considered. After tackling the practical assumption by using Cauchy-Schwarz inequality and the imperfect angular information by using the discretization method, the closed-form solution of both sides can be obtained via the duality optimization theory, which constitutes the unique Stackelberg equilibrium (SE). Numerical results demonstrate the superiority and validity of our proposed robust schemes over the existing approaches.
Remote Physical Device Fingerprinting (2005)

We introduce the area of remote physical device fingerprinting, or fingerprinting a physical device, as opposed to an operating system or class of devices, remotely, and without the fingerprinted device's known cooperation. We accomplish this goal by exploiting small, microscopic deviations in device hardware: clock skews. Our techniques do not require any modification to the fingerprinted devices. Our techniques report consistent measurements when the measurer is thousands of miles, multiple hops, and tens of milliseconds away from the fingerprinted device and when the fingerprinted device is connected to the Internet from different locations and via different access technologies. Further, one can apply our passive and semipassive techniques when the fingerprinted device is behind a NAT or firewall, and. also when the device's system time is maintained via NTP or SNTP. One can use our techniques to obtain information about whether two devices on the Internet, possibly shifted in time or IP addresses, are actually the same physical device. Example applications include: computer forensics; tracking, with some probability, a physical device as it connects to the Internet from different public access points; counting the number of devices behind a NAT even when the devices use constant or random IP IDs; remotely probing a block of addresses to determine if the addresses correspond to virtual hosts, e.g., as part of a virtual honeynet; and unanonymizing anonymized network traces.
Hyperimmunoglobulinemia D and periodic fever syndrome (2011)

Hyperimmunogloblinemia D and periodic fever syndrome (HIDS) is inherited autoinflammatory syndrome caused by deficiency of the mevalonate kinase (MK), which is involved in metabolism of cholesterol. The disease is characterized as periodic fever from early infancy accompanied by elevated serum C-reactive protein. Since clinical symptoms such as abdominal symptom, skin rash, and arthritis are common to other autoinflammatory disease, the diagnosis of HIDS during clinical work is difficult for the physicians without suspicion of HIDS for infants suffering from fever of unknown origin. Moreover, serum IgD levels are not high during infancy conflicting to the name of the disease, which is often misunderstood in the clinicians. Thus, the diagnosis of HIDS in Japan is bothering, depending on the lack of correct recognition of the disease and on the lack of commercially available examination for the disease. It is important for clinicians, especially pediatricians to update current knowledge about HIDS and to learn the appropriate way to the definitive diagnosis of HIDS, because HIDS patients exist also in Japan and the specific therapies for HIDS would be developed in the near future.
Ethnic minority parents and schools: Strategies to improve parental involvement and participation (2003)

The City of Rotterdam, the Netherlands hosts some 150 different nationalities; about 50% of the primary school students are ethnic minorities. The City seeks to set up a high quality education system for all ethnic minorities. To this end the City has developed a policy of community-empowered schools in which the schools’ pedagogical task is supported by other activities in the community. The goal of the present research project is to get a better understanding of the relationships between the parents of ethnic minority children and the schools and supporting institutions in the local community.The study consists of two parts: a theoretical study and an empirical investigation. It seeks to answer two main questions:• What are the different visions on the relations between schools, parents of ethnic minorities and communities?• What are successful policies (structures, capacities, systems) that support schools in creating partnerships with parents of ethnic minorities and communities?
Analysis of Real-World Data to Investigate the Impact of Race and Ethnicity on Response to Programmed Cell Death-1 and Programmed Cell Death-Ligand 1 Inhibitors in Advanced Non-Small Cell Lung Cancers (2021)

There is a significant underrepresentation of minority patients in randomized clinical trials, and this study demonstrates that real-world data can be used to investigate the impact of race and ethnicity on treatment response. In retrospective analysis of patients with advanced non-small cell lung cancer treated with programmed cell death-1 or programmed cell death-ligand 1 inhibitors, African American patients had significantly longer time-to-treatment discontinuation and longer overall survival. Analysis of real-world data can yield clinical insights and establish a more complete picture of medical interventions in routine clinical practice.
Damage–Rupture Process of Concrete Dams Under Strong Earthquakes (2014)

A new concept for establishing the damage model for high concrete dams under earthquakes based on damage mechanics is presented in this paper. Unlike the conventional approach of considering the residual deformation by means of plastic-damage coupling, the proposed approach relates the degraded apparent elastic moduli of loading and unloading directly to the material experimental data. As such, the nonlinear analysis of the seismic response of dam-foundation systems is simplified and more reasonable, with no recourse to plastic-damage coupling. To verify the proposed approach of damage–rupture process for high concrete dams, the seismic behaviors of the Koyna gravity dam in India and the Shapai RCC arch dam in China both subjected to strong earthquakes were examined. It is demonstrated that the proposed approach can be reliably used to study the damage–rupture behavior of concrete dams under strong earthquakes.
Some applications of Zorn's Lemma in algebra (2009)

We indicate some new applications of Zorn's Lemma to a number of algebraic areas. Specifically, we show that a property $P$ holds for all the subobjects of a given object if and only if $P$ supports both the chain condition from Zorn's Lemma and some finitistic conditions on subobjects that have the flavor of mathematical induction. The specific algebraic contexts considered are modules, sets, groups, algebras, and integral domains. Particular emphasis is given to applications involving star operations on integral domains.
Crossed immunoelectrophoretic analysis of anti-Salmonella typhi antibodies in sera of typhoid patients and carriers: demonstration of the presence of typhoid-specific antibodies to a non-O, non-H, non-Vi antigen (1984)

A veronal buffer extract of Salmonella typhi was used as the reference antigen and its corresponding rabbit antiserum as the reference antibody in crossed immunoelectrophoresis to analyze antibodies in sera obtained from typhoid patients and carriers. Four precipitating antibodies were regularly detected. Three were against antigens common to other gram-negative bacteria and one appeared to be typhoid specific. Of the three common antigens, one (antigen no. 7) formed a precipitin resembling in mobility and morphology the lipopolysaccharide antigen seen in crossed immunoelectrophoresis analysis of other gram-negative bacteria. The other (antigen no. 19) was heat labile and antigenically similar to the reported common antigen of Pseudomonas aeruginosa. The third (antigen no. 14), also heat labile, was present in members of the family Enterobacteriaceae but not the family Pseudomonas. The typhoid-specific precipitating antibody present in sera of most typhoid patients and carriers but not patients infected with nontyphoid salmonella was directed to a heat-labile, non-O, non-H, and non-Vi antigen (antigen no. 28), probably protein in nature.
Pharmacist and Physician Interpretation of Abbreviations for Acetaminophen Intended for Use in a Consumer Icon (2015)

Concomitant use of multiple acetaminophen medications is associated with overdose. To help patients identify acetaminophen medications and thus avoid concomitant use, an icon with an abbreviation for "acetaminophen" has been proposed for all acetaminophen medications. This study assessed pharmacists' and physicians' use and interpretation of abbreviations for "acetaminophen", to identify abbreviations with other meanings that might cause confusion. Physicians (n = 150) reported use and interpretation of candidate abbreviations Ac and Acm. Pharmacists (n = 150) interpretations of prescription orders using the candidate abbreviations APAP, Ac, Ace and Acm in typed, handwritten or spoken form, were judged for critical confusions likely to cause patient harm. Critical confusion was rare, except for omission by pharmacists of the acetaminophen dose for Hydrocodone/APAP prescriptions (10%). Ac was in common use to indicate "before meals", and was interpreted as such, but some physicians (8%) said they use Ac to indicate anticoagulant drugs. Most pharmacists (54%) interpreted Ace as acetaminophen, and none interpreted it as referring to ACE-inhibitors. Acm was rarely used in prescriptions, had no common interfering meanings, and was often (63%) interpreted as acetaminophen, especially when prescribed in combination with an opiate (85%). The data validated concerns about abbreviations in prescribing: all abbreviations resulted in some misinterpretations. However, Acm was rarely misinterpreted, was readily associated with "acetaminophen", and seemed appropriate for use in a graphic icon to help consumers/patients identify acetaminophen medications.
Cardiac hypertrophy and antihypertensive therapy (1977)

Biochemical (myocardial DNA, RNA, and hydroxyproline) and humoral (plasma [PRA] and kidney [KRA] renin activity) factors were determined in spontaneously hypertensive rats (SHR) and normotensive Wistar controls (NR) before and following treatment with minoxidil or propranolol. Minoxidil (150 mg.litre-1 drinking water) effectively controlled blood pressure (17.3 kPa vs 24.9 kPa [130 mmHg vs 187 mmHg], P less than 0.001) despite marked and sustained increases in both PRA and KRA ventricular weight which were not reduced and myocardial DNA, RNA, and hyperdroxyproline which were increased by minoxidil (P less than 0.01). In contrast propranolol did not reduce blood pressure in SHR but ventricular weight was reduced somewhat (3.1 +/- 0.4 mg.g-1 vs 3.4 +/- 0.09 mg.g-1, P less than 0.05); in both SHR and NR, KRA, and PRA were lowered by pranolol. Methyldopa which controlled blood pressure and lowered PRA led to a reversal of hypertrophy. Thus, although blood pressure control is obviously important for reversing cardiac hypertrophy, it may not be the sole factor for the development and reversal of cardiac hypertrophy.
Evidence for Involvement of Phosphatidylcholine-Phospholipase C and Protein Kinase C in Transforming Growth Factor-β Signaling (1995)

Transforming growth factor-beta (TGF-beta) is a multifunctional peptide that elicits a wide variety of responses in cells. TGF-beta binds to cell surface receptors that contain cytoplasmic serine/threonine kinase domains. Here we provide evidence that both phospholipase C and protein kinase C (PKC) are involved in the TGF-beta activation of transcription and luciferase expression from the p3TP-Lux plasmid. Down-regulation of PKC prevents TGF-beta 1 induction of luciferase expression. Staurosporin and Calphostin C, inhibitors of PKC, block the ability of TGF-beta 1 to initiate transcription of the luciferase gene. Further, D609, an inhibitor of phosphatidylcholine-phospholipase C (PC-PLC), and secondarily PKC also blocks TGF-beta 1-induced transcription of the transgene in A549 cells while the phosphatidylinositol-PLC pathway inhibitor U73122 is without effect. TGF-beta elevates steady-state mRNA levels for the endogenous PAI-1 and fibronectin genes. Treatment of cells with calphostin C or D609 prevents the TGF-beta-induced increase in these mRNAs. Together, these results suggest that PC-PLC and PKC are in a TGF-beta signaling pathway that results in elevated gene expression.
Genome analysis of Desulfotomaculum kuznetsovii strain 17T reveals a physiological similarity with Pelotomaculum thermopropionicum strain SIT. (2013)

Desulfotomaculum kuznetsovii is a moderately thermophilic member of the polyphyletic spore-forming genus Desulfotomaculum in the family Peptococcaceae. This species is of interest because it originates from deep subsurface thermal mineral water at a depth of about 3,000 m. D. kuznetsovii is a rather versatile bacterium as it can grow with a large variety of organic substrates, including short-chain and long-chain fatty acids, which are degraded completely to carbon dioxide coupled to the reduction of sulfate. It can grow methylotrophically with methanol and sulfate and autotrophically with H2 + CO2 and sulfate. For growth it does not require any vitamins. Here, we describe the features of D. kuznetsovii together with the genome sequence and annotation. The chromosome has 3,601,386 bp organized in one contig. A total of 3,567 candidate protein-encoding genes and 58 RNA genes were identified. Genes of the acetyl-CoA pathway, possibly involved in heterotrophic growth with acetate and methanol, and in CO2 fixation during autotrophic growth are present. Genomic comparison revealed that D. kuznetsovii shows a high similarity with Pelotomaculum thermopropionicum. Genes involved in propionate metabolism of these two strains show a strong similarity. However, main differences are found in genes involved in the electron acceptor metabolism.
Mannose Receptor Is Required for Optimal Induction of Vaccine-Induced T-Helper Type 17 Cells and Resistance toBlastomyces dermatitidisInfection (2016)

We investigated how innate sensing by the mannose receptor (MR) influences the development of antifungal immunity. We demonstrate that MR senses mannan on the surface of attenuated Blastomyces dermatitidis vaccine yeast and that MR(-/-) mice demonstrate impaired vaccine immunity against lethal experimental blastomycosis, compared with wild-type control mice. Using naive Blastomyces-specific transgenic CD4(+) T cells, we found that MR regulates differentiation of naive T cells into T-helper type 17 (Th17) effector cells, which are essential in vaccine immunity against systemic dimorphic fungi. Thus, MR regulates differentiation of Th17 cells and is required to induce vaccine immunity against lethal pulmonary blastomycosis.
Synergy between Genome Mining, Metabolomics, and Bioinformatics Uncovers Antibacterial Chlorinated Carbazole Alkaloids and Their Biosynthetic Gene Cluster fromStreptomyces tubbatahanensissp. nov., a Novel Actinomycete Isolated from Sulu Sea, Philippines (2023)

In this study, a novel actinomycete strain, DSD3025<sup>T</sup>, isolated from the underexplored marine sediments in Tubbataha Reefs Natural Park, Sulu Sea, Philippines, with the proposed name <i>Streptomyces tubbatahanensis</i> sp. nov., was described using polyphasic approaches and characterized using whole-genome sequencing. Its specialized metabolites were profiled using mass spectrometry and nuclear magnetic resonance analyses, followed by antibacterial, anticancer, and toxicity screening. The <i>S. tubbatahanensis</i> DSD3025<sup>T</sup> genome was comprised of 7.76 Mbp with a 72.3% G+C content. The average nucleotide identity and digital DNA-DNA hybridization values were 96.5% and 64.1%, respectively, compared with its closest related species, thus delineating the novelty of <i>Streptomyces</i> species. The genome encoded 29 putative biosynthetic gene clusters (BGCs), including a BGC region containing tryptophan halogenase and its associated flavin reductase, which were not found in its close <i>Streptomyces</i> relatives. The metabolite profiling unfolded six rare halogenated carbazole alkaloids, with chlocarbazomycin A as the major compound. A biosynthetic pathway for chlocarbazomycin A was proposed using genome mining, metabolomics, and bioinformatics platforms. Chlocarbazomycin A produced by <i>S. tubbatahanensis</i> DSD3025<sup>T</sup> has antibacterial activities against <i>Staphylococcus aureus</i> ATCC BAA-44 and <i>Streptococcus pyogenes</i> and showed antiproliferative activity against colon (HCT-116) and ovarian (A2780) human cancer cell lines. Chlocarbazomycin A exhibited no toxicity to liver cells but moderate and high toxicity to kidney and cardiac cell lines, respectively. <b>IMPORTANCE</b> <i>Streptomyces tubbatahanensis</i> DSD3025<sup>T</sup> is a novel actinomycete with antibiotic and anticancer activities from Tubbataha Reefs Natural Park, a United Nations Educational, Scientific and Cultural Organization World Heritage Site in Sulu Sea and considered one of the Philippines' oldest and most-well-protected marine ecosystems. <i>In silico</i> genome mining tools were used to identify putative BGCs that led to the discovery of genes involved in the production of halogenated carbazole alkaloids and new natural products. By integrating bioinformatics-driven genome mining and metabolomics, we unearthed the hidden biosynthetic richness and mined the associated chemical entities from the novel <i>Streptomyces</i> species. The bioprospecting of novel <i>Streptomyces</i> species from marine sediments of underexplored ecological niches serves as an important source of antibiotic and anticancer drug leads with unique chemical scaffolds.
High-Spectral Purity RF Beat Note Generated by a Two-Frequency Solid-State Laser in a Dual Thermooptic and Electrooptic Phase-Locked Loop (2004)

Ultralow noise stabilization of a two-frequency solid-state laser is experimentally demonstrated using a specially designed dual phase-locked loop. Thanks to an intracavity birefringent crystal providing both thermooptic and electrooptic frequency modulation properties, the laser delivers a beat frequency that is controlled by both pump power and voltage from 0 to 1000 MHz. When phase-locked against a radio-frequency synthesizer, the beat note has a 25-mHz full-width at half-maximum. The measured phase noise is -110 dBc/Hz at 10-kHz offset, and lower than -130 dBc/Hz at 1-MHz offset and above. Improvements and applications to local oscillators in microwave-photonic systems are discussed.
A C–H Activation Route to Indoloquinolines and Pyrroloquinoxalines (2012)

Key words C–H activation - indoloquinolines - pyrroloquinoxalines - palladium catalysis