gebhart/patrepeval huggingface dataset:
Pathophysiologic Findings of Irritable Bowel Syndrome in China (2012)

The mechanism of irritable bowel syndrome (IBS) is still incompletely understood in the world although large amount of investigations have been carried out on it. There are many studies on the pathophysiology of IBS in China, which has huge amount of population suffering from IBS with special ethnicity and culture, including Mainland China, Hong Kong and Taiwan. We collected the literatures to show the results and discuss whether there were any differences in the pathophysiologic findings between China and other countries, whether there were any differences among different subtypes and how the pathophysiology correlated with the manifestations of patients. Gene polymorphism, disturbances of gastrointestinal motility, visceral hypersensitivity, intestinal infection and inflammation, psychological disturbances, food hypersensitivity and intolerance, and altered gut microflora were reviewed in this paper. Some conflicting outcomes between China and other countries were noted although most of them were similar.
Apoptosis Signal-Regulating Kinase 1 Plays a Pivotal Role in Angiotensin II–Induced Cardiac Hypertrophy and Remodeling (2003)

Multiple lines of evidence establish that angiotensin II (Ang II) induces not only hypertension but also directly contributes to cardiac diseases. Apoptosis signal-regulating kinase 1 (ASK1), one of mitogen-activated protein kinase kinase kinases, plays a key role in stress-induced cellular responses. However, nothing is known about the role of ASK1 in cardiac hypertrophy and remodeling in vivo. In this study, by using mice deficient in ASK1 (ASK1-/- mice), we investigated the role of ASK1 in cardiac hypertrophy and remodeling induced by Ang II. Left ventricular (LV) ASK1 was activated by Ang II infusion in wild-type mice, which was mediated by angiotensin II type 1 receptor and superoxide. Although Ang II-induced hypertensive effect was comparable to wild-type and ASK1-/- mice, LV ASK1 activation by Ang II was not detectable in ASK1-/- mice, and p38 and c-Jun N-terminal kinase (JNK) activation was lesser in ASK-/- mice than in wild-type mice. Elevation of blood pressure by continuous Ang II infusion was comparable between ASK1-/- and wild-type mice. However, Ang II-induced cardiac hypertrophy and remodeling, including cardiomyocyte hypertrophy, cardiac hypertrophy-related mRNA upregulation, cardiomyocyte apoptosis, interstitial fibrosis, coronary arterial remodeling, and collagen gene upregulation, was significantly attenuated in ASK1-/- mice compared with wild-type mice. These results provided the first in vivo evidence that ASK1 is the critical signaling molecule for Ang II-induced cardiac hypertrophy and remodeling. Thus, ASK1 is proposed to be a potential therapeutic target for cardiac diseases.
Gelatinase B is present in the cerebrospinal fluid during experimental autoimmune encephalomyelitis and cleaves myelin basic protein (1993)

Gelatinases in inflammatory demyelinating diseases of the central nervous system (CNS) were studied using actively induced experimental autoimmune encephalomyelitis (EAE) in mice as a model system. Clinical disease scores correlated in time and in intensity with pathology parameters such as cytosis in the cerebrospinal fluid (CSF), inflammatory infiltrates, and demyelination in the CNS. Zymographic analysis was employed to measure gelatinases A and B in the CSF from individual animals. According to their apparent molecular weight (MW), gelatinases A and B appeared with a MW of 65 and 95 kDa, respectively. The 65 kDa form was present in all samples, even in those derived from non-induced animals, whereas the 95 kDa form was present only in samples from animals developing EAE. The levels of 95 and 65 kDa gelatinase correlated with the CSF cytosis. In vitro digestion of myelin basic protein (MBP) with gelatinase B and analysis of the cleavage products by protein sequence analysis pinpointed two cleavage sites in conserved regions of MBP. Gelatinase production within the CNS may constitute an important pathogenic mechanism for both the disruption of the blood-brain barrier and the destruction of myelin, as observed in several neuroinflammatory disorders.
Outbreak of Klebsiella pneumoniae Producing a New Carbapenem-Hydrolyzing Class A β-Lactamase, KPC-3, in a New York Medical Center (2004)

From April 2000 to April 2001, 24 patients in intensive care units at Tisch Hospital, New York, N.Y., were infected or colonized by carbapenem-resistant Klebsiella pneumoniae. Pulsed-field gel electrophoresis identified a predominant outbreak strain, but other resistant strains were also recovered. Three representatives of the outbreak strain from separate patients were studied in detail. All were resistant or had reduced susceptibility to imipenem, meropenem, ceftazidime, piperacillin-tazobactam, and gentamicin but remained fully susceptible to tetracycline. PCR amplified a blaKPC allele encoding a novel variant, KPC-3, with a His(272)-->Tyr substitution not found in KPC-2; other carbapenemase genes were absent. In the outbreak strain, KPC-3 was encoded by a 75-kb plasmid, which was transferred in vitro by electroporation and conjugation. The isolates lacked the OmpK35 porin but expressed OmpK36, implying reduced permeability as a cofactor in resistance. This is the third KPC carbapenem-hydrolyzing beta-lactamase variant to have been reported in members of the Enterobacteriaceae, with others reported from the East Coast of the United States. Although producers of these enzymes remain rare, the progress of this enzyme group merits monitoring.
Betahistine inhibits food intake in rats. (2002)

Betahistine, administered intraperitoneally, decreased, in a dose-dependent manner and in a statistically significant degree, total food intake in different experimental models in rats.
Liquid chromatography-mass spectrometry utilizing multi-stage fragmentation for the identification of oxysterols (2007)

In humans, the brain accounts for about 20% of the body's free cholesterol, most of which is synthesized de novo in brain. To maintain cholesterol balance throughout life, cholesterol becomes metabolized to 24S-hydroxycholesterol, principally in neurons. In mouse, rat, and probably human, metabolism to 24S-hydroxycholesterol accounts for about 50% of cholesterol turnover; however, the route by which the remainder is turned over has yet to be elucidated. Here, we describe a novel liquid chromatography (LC) multi-stage fragmentation mass spectrometry (MS(n)) methodology for the identification, with high sensitivity (low pg), of cholesterol metabolites in rat brain. The methodology includes derivatization to enhance ionization, exact mass analysis at high resolution to identify potential metabolites, and LC-MS(n) (n=3) to allow their characterization. 24S-hydroxycholesterol was confirmed as a major oxysterol in rat brain, and other oxysterols identified for the first time in brain included 24,25-, 24,27-, 25,27-, 6,24,- 7alpha,25-, and 7alpha,27-dihydroxycholesterols. In addition, 3beta-hydroxy-5-oxo-5,6-secocholestan-6-al and its aldol, two molecules linked to amyloidogenesis of proteins, were characterized in rat brain.
An endogenous processing pathway in vaccinia virus-infected cells for presentation of cytoplasmic antigens to class II-restricted T cells. (1990)

The recognition of virus-infected cells by class I MHC-restricted cytotoxic T cells requires endogenous processing of antigen for presentation. It is still unclear whether endogenous processing of antigen can be utilized by class II MHC molecules for presentation. To test this possibility, a human B cell line expressing HLA-A2 and HLA-DR1 was infected with a recombinant vaccinia virus expressing the Influenza A virus M1 matrix protein (VAC-M1) and was assayed for lysis by different M1-specific cytolytic T cell lines, restricted by either HLA-A2 or by HLA-DR1. Class II-restricted lysis of VAC-M1-infected cells did occur. This lysis required de novo M1 synthesis and was not due to exogenous antigen. Several properties of the endogenous processing pathway for class II-restricted presentation were different from those of the pathway utilized by class I molecules. First, class II-mediated recognition of VAC-M1 infected cells was less efficient, requiring higher doses of virus and longer infection times, than the class I-mediated recognition. Second, chloroquine completely blocked presentation of endogenous M1 to class II-restricted T cells but had no effect on the class I-restricted presentation. Third, the class II-restricted presentation of M1 was only mildly affected by Brefeldin A, a drug that prevents transport from the endoplasmic reticulum to the Golgi, whereas the class I-restricted presentation of M1 was completely abrogated by this drug. These data demonstrate the existence of an endogenous processing pathway for the presentation of cytosolic antigen by class II molecules and show that this pathway is distinct from the one used for presentation by class I molecules.
PPG-based methods for non invasive and continuous blood pressure measurement: an overview and development issues in body sensor networks (2010)

Non invasive and continuous measurement of blood pressure can enable an effective 24/7 monitoring of hypertensive patients to timely prevent cardiovascular problems and precisely regulate anti-hypertension cures. Unfortunately, to date, blood pressure can be only measured through either cuff-based or invasive instruments that cannot be continuously used due to their characteristics. This paper proposes an overview of techniques and approaches based on the photoplethysmographic (PPG) signal for non invasive and continuous measurement of blood pressure. In particular, the PPG signal can be easily acquired from an optical sensor applied on the epidermis and used, alone or integrated with the ECG signal, to estimate the blood pressure. On the basis of such methods new instruments and sensor-based systems can be developed and integrated with computer-based health care systems that aim at supporting continuous and remote monitoring of assisted livings.
In vivo detection of high-risk coronary plaques by radiofrequency intravascular ultrasound and cardiovascular outcome: results of the ATHEROREMO-IVUS study (2013)

In patients undergoing coronary angiography, the presence of IVUS virtual histology-derived TCFA lesions in a non-culprit coronary artery is strongly and independently predictive for the occurrence of MACE within 1 year, particularly of death and ACS. Thin-cap fibroatheroma lesions with a large plaque burden carry higher risk than small TCFA lesions, especially on the short term.
Antibody-modified liposomes for cancer chemotherapy (2008)

Antibody-targeted liposomes loaded with anticancer drugs demonstrate high potential for clinical applications.
Excited State Properties and Energy Transfer within Dipyrrin‐Based Binuclear Iridium/Platinum Dyads: The Effect of ortho‐Methylation on the Spacer (2012)

Luminescent cyclometalated iridium complexes based on pyridyl appended dipyrrin ligands were prepared and characterized both in the solid state and in solution. The functionalization of the peripheral pyridyl moiety causes dramatic changes on the emission properties of both mono- and hetero- binuclear complexes. A detailed photophysical investigation of the two mononuclear derivatives of the [(Ppy)(2)Ir(dpm-py)] family (Ppy=2-phenylpyridine, dpm-py=5-(4-pyridyl)dipyrrin) was carried out. Introduction of methyl groups at the 3 and 5 positions on the pyridyl unit diminishes the non-radiative rate constant by locking the peripheral pyridyl group orthogonally to the dipyrrinato plane. Thus, they limit the rotational degree of freedom, as well as the charge-transfer character of the excited state. The coordination of these two complexes to a cyclometalated [(dppy)Pt] fragment (dppy=2,6-diphenylpyridine) led to the formation of binuclear species in which the iridium and platinum complexes behave as acceptors and donors, respectively. In these heterobinuclear compounds, the methyl groups do not influence the energy transfer efficiency, which is estimated to be above 90 %. However, they do limit the charge-transfer character of the acceptor's excited state, as well as its rotational degree of freedom, thus avoiding the detrimental effect upon the photophysical performance.
Serological Cross-Reactivities between Antibodies to Simian Virus 40, BK Virus, and JC Virus Assessed by Virus-Like-Particle-Based Enzyme Immunoassays (2003)

Enzyme immunoassays (EIAs) for detection of serum antibodies to simian virus 40 (SV40), BK virus (BKV), and JC virus (JCV) were developed by using virus-like-particles (VLPs) produced in insect cells from recombinant baculoviruses expressing the VP1 protein of the respective virus. Rhesus macaque sera with neutralizing antibodies to SV40 showed a high level of reactivity in the SV40 VLP-based EIA, and these sera also showed lower levels of reactivity in the BKV and JCV VLP-based EIAs. Rhesus macaque sera negative for neutralizing antibodies to SV40 were negative in all three EIAs. Competitive binding assays showed that SV40 VLPs inhibited BKV reactivity. In rhesus macaque sera, high optical density (OD) values for antibodies to SV40 VLPs were correlated with high OD values for antibodies to BKV but not with high OD values for antibodies to JCV VLPs. Human sera with neutralizing antibodies to SV40 were more reactive to SV40 VLPs than human sera without neutralizing antibodies to SV40. The greater SV40 reactivities of human sera were correlated with greater reactivities to BKV VLPs but not JCV VLPs. These data suggest that cross-reactivity with BKV antibodies may account for part of the low-level SV40 reactivity seen in human sera. With their greater versatility and their suitability for large-scale testing, the VLP-based EIAs for SV40, BKV, and JCV are likely to contribute to a better understanding of the biology of these viruses.
Philadelphia-Negative Classical Myeloproliferative Neoplasms: Critical Concepts and Management Recommendations From European LeukemiaNet (2011)

We present a review of critical concepts and produce recommendations on the management of Philadelphia-negative classical myeloproliferative neoplasms, including monitoring, response definition, first- and second-line therapy, and therapy for special issues. Key questions were selected according the criterion of clinical relevance. Statements were produced using a Delphi process, and two consensus conferences involving a panel of 21 experts appointed by the European LeukemiaNet (ELN) were convened. Patients with polycythemia vera (PV) and essential thrombocythemia (ET) should be defined as high risk if age is greater than 60 years or there is a history of previous thrombosis. Risk stratification in primary myelofibrosis (PMF) should start with the International Prognostic Scoring System (IPSS) for newly diagnosed patients and dynamic IPSS for patients being seen during their disease course, with the addition of cytogenetics evaluation and transfusion status. High-risk patients with PV should be managed with phlebotomy, low-dose aspirin, and cytoreduction, with either hydroxyurea or interferon at any age. High-risk patients with ET should be managed with cytoreduction, using hydroxyurea at any age. Monitoring response in PV and ET should use the ELN clinicohematologic criteria. Corticosteroids, androgens, erythropoiesis-stimulating agents, and immunomodulators are recommended to treat anemia of PMF, whereas hydroxyurea is the first-line treatment of PMF-associated splenomegaly. Indications for splenectomy include symptomatic portal hypertension, drug-refractory painful splenomegaly, and frequent RBC transfusions. The risk of allogeneic stem-cell transplantation-related complications is justified in transplantation-eligible patients whose median survival time is expected to be less than 5 years.
Sequencing with Microarray Technology—A Powerful New Tool For Molecular Diagnostics (2000)

Nucleic acid sequencing is a fundamental technique that was recognized with the 1980 Nobel Prize in Chemistry. The method allows delineation of DNA sequences with extraordinary accuracy and, since its introduction in the 1970s, has undergone many important modifications and improvements. Among these are the achievement of long reads (up to ∼1000 bp per analysis), better accuracy (related to the discovery of highly versatile and thermostable sequencing enzymes), improved sensitivity with thermocycling protocols (linear amplifications), full automation, higher speed (related to the introduction of thin gels), and substitution of radioactivity with fluorescent and other probes. All of these improvements have allowed scientists to attempt something that was unthinkable 15–20 years ago, i.e., delineation of the complete sequence of the human genome (∼3 × 109 bp) and genomes of other organisms. We have already witnessed, over the last few years, the release of the complete sequence of simple organisms as well as of more complex ones, the latest being the Drosophila genome (1). We are now very close to the completion of the entire Human Genome Project (2). These achievements represent a triumph of the DNA sequencing methodology.

Now that we (almost) know the complete DNA sequences of these organisms and humans, the question arises. How are we to use this information? The next step will be the complete annotation of the human genome, which will include classification of the raw DNA sequence into well-defined gene structures. We will then need to predict and experimentally verify the encoded proteins and their possible biological functions (physiology). Once this is done, we can begin to ask questions about how genomic variation in certain genes (polymorphisms, mutations) can cause or predispose to specific human diseases (pathophysiology). We already have many examples of subtle genetic changes that can cause very serious human diseases, including …
BASS: BitTorrent Assisted Streaming System for Video-on-Demand (2005)

This paper introduces a hybrid server/P2P streaming system called bittorrent-assisted streaming system (BASS) for large-scale video-on-demand (VoD) services. By distributing the load among P2P connections as well as maintaining active server connections, BASS can increase the system scalability while decreasing media playout wait times. To analyze the benefits of BASS, we examine torrent trace data collected in the first week of distribution for Fedora Core 3 and develop an empirical model of bittorrent client performance. Based on this, we run trace-based simulations to evaluate BASS and show that it is more scalable than current unicast solutions and can greatly decrease the average waiting time before playback
Control of Erysiphe cichoracearum on Zinnia elegans, with a Polymer-based Antitranspirant (1985)

Abstract A polymer-based antitranspirant was compared to a fungicide, Acti-Dione PM for control of Erysiphe cichoracearum on Zinnia elegans and its effects on plant growth. Plants treated with the antitranspirant had a significant increase in height, fresh and dry weight, and length of the flowering period. In addition, the antitranspirant treated plants had significantly reduced powdery mildew. SEM studies showed that the antitranspirant treated plants had closed stomata, and presumably this had an effect on water uptake as well as the plant host interactions.
Reliability of self reported smoking status by pregnant women for estimating smoking prevalence: a retrospective, cross sectional study (2009)

Reliance on self reporting to identify pregnant smokers significantly underestimates the number of pregnant smokers in Scotland and results in a failure to detect over 2400 smokers each year who are therefore not offered smoking cessation services.
Adenovirus-Based Expression Vectors and Recombinant Vaccines (1992)

This chapter reviews adenovirus-based expression vectors and recombinant vaccines. A powerful new approach to the development of vaccines is the use of microorganisms as engineered vectors for expression of genes from heterologous species. Such vectors are used in two major ways, that is, as high-level expression systems for production of antigens, or as live recombinant vaccines. It seems likely that different vectors have relative advantages and disadvantages for different applications and the development of several systems in parallel seems worthwhile. The chapter describes some of the merits and potential problems associated with the use of adenoviruses as expression vectors for production of proteins in mammalian cells, and as recombinant vaccines for immunization of humans and animals against disease. From all of the studies performed to date, human adenoviruses have considerable potential as expression vectors and live-virus vaccines for a wide variety of human and animal diseases. It has been suggested that a well-characterized adenovirus serotype, such as human adenovirus type 5, is suited to the development of oral vaccines for use in children.
Aβ40 and Aβ42 Amyloid Fibrils Exhibit Distinct Molecular Recycling Properties (2011)

A critical aspect to understanding the molecular basis of Alzheimer's disease (AD) is the characterization of the kinetics of interconversion between the different species present during amyloid-β protein (Aβ) aggregation. By monitoring hydrogen/deuterium exchange in Aβ fibrils using electrospray ionization mass spectrometry, we demonstrate that the Aβ molecules comprising the fibril continuously dissociate and reassociate, resulting in molecular recycling within the fibril population. Investigations on Aβ40 and Aβ42 amyloid fibrils reveal that molecules making up Aβ40 fibrils recycle to a much greater extent than those of Aβ42. By examining factors that could influence molecular recycling and by running simulations, we show that the rate constant for dissociation of molecules from the fibril (k(off)) is much greater for Aβ40 than that for Aβ42. Importantly, the k(off) values obtained for Aβ40 and Aβ42 reveal that recycling occurs on biologically relevant time scales. These results have implications for understanding the role of Aβ fibrils in neurotoxicity and for designing therapeutic strategies against AD.
Building tolerance by dismantling synapses: inhibitory receptor signaling in natural killer cells (2012)

Cell surface receptors bearing immunotyrosine-based inhibitory motifs (ITIMs) maintain natural killer (NK) cell tolerance to normal host tissues. These receptors are difficult to analyze mechanistically because they block activating responses in a rapid and comprehensive manner. The advent of high-resolution single cell imaging techniques has enabled investigators to explore the cell biological basis of the inhibitory response. Recent studies using these approaches indicate that ITIM-containing receptors function at least in part by structurally undermining the immunological synapse between the NK cell and its target. In this review, we discuss these new advances and how they might relate to what is known about the biochemistry of inhibitory signaling in NK cells and other cell types.