2,064 research outputs found
Prediction of Relevant Biomedical Documents: a Human Microbiome Case Study
Background:
Retrieving relevant biomedical literature has become increasingly difficult due to the large volume and rapid growth of biomedical publication. A query to a biomedical retrieval system often retrieves hundreds of results. Since the searcher will not likely consider all of these documents, ranking the documents is important. Ranking by recency, as PubMed does, takes into account only one factor indicating potential relevance. This study explores the use of the searcher’s relevance feedback judgments to support relevance ranking based on features more general than recency. Results:
It was found that the researcher’s relevance judgments could be used to accurately predict the relevance of additional documents: both using tenfold cross-validation and by training on publications from 2008–2010 and testing on documents from 2011. Conclusions:
This case study has shown the promise for relevance feedback to improve biomedical document retrieval. A researcher’s judgments as to which initially retrieved documents are relevant, or not, can be leveraged to predict additional relevant documents
Dynamics of Ordering of Heisenberg Spins with Torque --- Nonconserved Case. I
We study the dynamics of ordering of a nonconserved Heisenberg magnet. The
dynamics consists of two parts --- an irreversible dissipation into a heat bath
and a reversible precession induced by a torque due to the local molecular
field. For quenches to zero temperature, we provide convincing arguments, both
numerically (Langevin simulation) and analytically (approximate closure scheme
due to Mazenko), that the torque is irrelevant at late times. We subject the
Mazenko closure scheme to systematic numerical tests. Such an analysis, carried
out for the first time on a vector order parameter, shows that the closure
scheme performs respectably well. For quenches to , we show, to , that the torque is irrelevant at the Wilson-Fisher fixed
point.Comment: 13 pages, REVTEX, and 19 .eps figures, compressed, Submitted to Phys.
Rev.
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Efficient pricing of ratchet equity-indexed annuities in a variance-gamma economy
In this paper we propose a new method for approximating the price of arithmetic Asian options in a Variance-Gamma (VG) economy, which is then applied to the problem of pricing equityindexed annuity contracts. The proposed procedure is an extension to the case of a VG-based model of the moment-matching method developed by Turnbull and Wakeman and Levy for the pricing of this class of path-dependent options in the traditional Black-Scholes setting. The accuracy of the approximation is analyzed against RQMC estimates for the case of ratchet equityindexed annuities with index averaging
Event-by-Event Search for Charged Neutral Fluctuations in Pb - Pb Collisions at 158-A-GeV
Results from the analysis of data obtained from the WA98 experiment at the
CERN SPS have been presented. Some events have been filtered which show photon
excess in limited zones within the overlap region of the charged
particle and photon multiplicity detectors.Comment: 6 pages, 4 figure
Rheology of Active-Particle Suspensions
We study the interplay of activity, order and flow through a set of
coarse-grained equations governing the hydrodynamic velocity, concentration and
stress fields in a suspension of active, energy-dissipating particles. We make
several predictions for the rheology of such systems, which can be tested on
bacterial suspensions, cell extracts with motors and filaments, or artificial
machines in a fluid. The phenomena of cytoplasmic streaming, elastotaxis and
active mechanosensing find natural explanations within our model.Comment: 3 eps figures, submitted to Phys Rev Let
Tilt Texture Domains on a Membrane and Chirality induced Budding
We study the equilibrium conformations of a lipid domain on a planar fluid
membrane where the domain is decorated by a vector field representing the tilt
of the stiff fatty acid chains of the lipid molecules, while the surrounding
membrane is fluid and structureless. The inclusion of chirality in the bulk of
the domain induces a novel budding of the membrane, which preempts the budding
induced by a decrease in interfacial tension.Comment: 5 pages, 3 figure
Saddles in the energy landscape probed by supercooled liquids
We numerically investigate the supercooled dynamics of two simple model
liquids exploiting the partition of the multi-dimension configuration space in
basins of attraction of the stationary points (inherent saddles) of the
potential energy surface. We find that the inherent saddles order and potential
energy are well defined functions of the temperature T. Moreover, decreasing T,
the saddle order vanishes at the same temperature (T_MCT) where the inverse
diffusivity appears to diverge as a power law. This allows a topological
interpretation of T_MCT: it marks the transition from a dynamics between basins
of saddles (T>T_MCT) to a dynamics between basins of minima (T<T_MCT).Comment: 4 pages, 3 figures, to be published on PR
Protocol for the development and validation procedure of the managing the link and strengthening transition from child to adult mental health care (MILESTONE) suite of measures
Background:
Mental health disorders in the child and adolescent population are a pressing public health concern. Despite the high prevalence of psychopathology in this vulnerable population, the transition from Child and Adolescent Mental Health Services (CAMHS) to Adult Mental Health Services (AMHS) has many obstacles such as deficiencies in planning, organisational readiness and policy gaps. All these factors contribute to an inadequate and suboptimal transition process. A suite of measures is required that would allow young people to be assessed in a structured and standardised way to determine the on-going need for care and to improve communication across clinicians at CAMHS and AMHS. This will have the potential to reduce the overall health economic burden and could also improve the quality of life for patients travelling across the transition boundary. The MILESTONE (Managing the Link and Strengthening Transition from Child to Adult Mental Health Care) project aims to address the significant socioeconomic and societal challenge related to the transition process. This protocol paper describes the development of two MILESTONE transition-related measures: The Transition Readiness and Appropriateness Measure (TRAM), designed to be a decision-making aide for clinicians, and the Transition Related Outcome Measure (TROM), for examining the outcome of transition.
Methods:
The TRAM and TROM have been developed and were validated following the US FDA Guidance for Patient-reported Outcome Measures which follows an incremental stepwise framework. The study gathers information from service users, parents, families and mental health care professionals who have experience working with young people undergoing the transition process from eight European countries.
Discussion:
There is an urgent need for comprehensive measures that can assess transition across the CAMHS/AMHS boundary. This study protocol describes the process of development of two new transition measures: the TRAM and TROM. The TRAM has the potential to nurture better transitions as the findings can be summarised and provided to clinicians as a clinician-decision making support tool for identifying cases who need to transition and the TROM can be used to examine the outcomes of the transition process.
Trial registration:
MILESTONE study registration: ISRCTN83240263 Registered 23-July-2015 - ClinicalTrials.gov NCT03013595 Registered 6 January 2017
Human surfactant protein D alters oxidative stress and HMGA1 expression to induce p53 apoptotic pathway in eosinophil leukemic cell line
This article is made available through the Brunel Open Access Publishing Fund. Copyright: © 2013 Mahajan et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits
unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.Surfactant protein D (SP-D), an innate immune molecule, has an indispensable role in host defense and regulation of
inflammation. Immune related functions regulated by SP-D include agglutination of pathogens, phagocytosis,
oxidative burst, antigen presentation, T lymphocyte proliferation, cytokine secretion, induction of apoptosis and
clearance of apoptotic cells. The present study unravels a novel ability of SP-D to reduce the viability of leukemic
cells (eosinophilic leukemic cell line, AML14.3D10; acute myeloid leukemia cell line, THP-1; acute lymphoid leukemia
cell lines, Jurkat, Raji; and human breast epithelial cell line, MCF-7), and explains the underlying mechanisms. SP-D
and a recombinant fragment of human SP-D (rhSP-D) induced G2/M phase cell cycle arrest, and dose and timedependent
apoptosis in the AML14.3D10 eosinophilic leukemia cell line. Levels of various apoptotic markers viz.
activated p53, cleaved caspase-9 and PARP, along with G2/M checkpoints (p21 and Tyr15 phosphorylation of cdc2)
showed significant increase in these cells. We further attempted to elucidate the underlying mechanisms of rhSP-D
induced apoptosis using proteomic analysis. This approach identified large scale molecular changes initiated by SPD
in a human cell for the first time. Among others, the proteomics analysis highlighted a decreased expression of
survival related proteins such as HMGA1, overexpression of proteins to protect the cells from oxidative burst, while a
drastic decrease in mitochondrial antioxidant defense system. rhSP-D mediated enhanced oxidative burst in
AML14.3D10 cells was confirmed, while antioxidant, N-acetyl-L-cysteine, abrogated the rhSP-D induced apoptosis.
The rhSP-D mediated reduced viability was specific to the cancer cell lines and viability of human PBMCs from
healthy controls was not affected. The study suggests involvement of SP-D in host’s immunosurveillance and
therapeutic potential of rhSP-D in the eosinophilic leukemia and cancers of other origins.Department of Biotechnology, Indi
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