59 research outputs found
Spatiotemporally Complete Condensation in a Non-Poissonian Exclusion Process
We investigate a non-Poissonian version of the asymmetric simple exclusion
process, motivated by the observation that coarse-graining the interactions
between particles in complex systems generically leads to a stochastic process
with a non-Markovian (history-dependent) character. We characterize a large
family of one-dimensional hopping processes using a waiting-time distribution
for individual particle hops. We find that when its variance is infinite, a
real-space condensate forms that is complete in space (involves all particles)
and time (exists at almost any given instant) in the thermodynamic limit. The
mechanism for the onset and stability of the condensate are both rather subtle,
and depends on the microscopic dynamics subsequent to a failed particle hop
attempts.Comment: 5 pages, 5 figures. Version 2 to appear in PR
UBVRI Light Curves of 44 Type Ia Supernovae
We present UBVRI photometry of 44 type-Ia supernovae (SN Ia) observed from
1997 to 2001 as part of a continuing monitoring campaign at the Fred Lawrence
Whipple Observatory of the Harvard-Smithsonian Center for Astrophysics. The
data set comprises 2190 observations and is the largest homogeneously observed
and reduced sample of SN Ia to date, nearly doubling the number of
well-observed, nearby SN Ia with published multicolor CCD light curves. The
large sample of U-band photometry is a unique addition, with important
connections to SN Ia observed at high redshift. The decline rate of SN Ia
U-band light curves correlates well with the decline rate in other bands, as
does the U-B color at maximum light. However, the U-band peak magnitudes show
an increased dispersion relative to other bands even after accounting for
extinction and decline rate, amounting to an additional ~40% intrinsic scatter
compared to B-band.Comment: 84 authors, 71 pages, 51 tables, 10 figures. Accepted for publication
in the Astronomical Journal. Version with high-res figures and electronic
data at http://astron.berkeley.edu/~saurabh/cfa2snIa
How to engage stakeholders in research: design principles to support improvement
Abstract
Background: Closing the gap between research production and research use is a key challenge for the health
research system. Stakeholder engagement is being increasingly promoted across the board by health research
funding organisations, and indeed by many researchers themselves, as an important pathway to achieving impact.
This opinion piece draws on a study of stakeholder engagement in research and a systematic literature search
conducted as part of the study.
Main body: This paper provides a short conceptualisation of stakeholder engagement, followed by ‘design principles’
that we put forward based on a combination of existing literature and new empirical insights from our recently
completed longitudinal study of stakeholder engagement. The design principles for stakeholder engagement are
organised into three groups, namely organisational, values and practices. The organisational principles are to clarify the
objectives of stakeholder engagement; embed stakeholder engagement in a framework or model of research use;
identify the necessary resources for stakeholder engagement; put in place plans for organisational learning and rewarding
of effective stakeholder engagement; and to recognise that some stakeholders have the potential to play a key role. The
principles relating to values are to foster shared commitment to the values and objectives of stakeholder engagement in
the project team; share understanding that stakeholder engagement is often about more than individuals; encourage
individual stakeholders and their organisations to value engagement; recognise potential tension between productivity
and inclusion; and to generate a shared commitment to sustained and continuous stakeholder engagement. Finally, in
terms of practices, the principles suggest that it is important to plan stakeholder engagement activity as part of the
research programme of work; build flexibility within the research process to accommodate engagement and the
outcomes of engagement; consider how input from stakeholders can be gathered systematically to meet objectives;
consider how input from stakeholders can be collated, analysed and used; and to recognise that identification and
involvement of stakeholders is an iterative and ongoing process.
Conclusion: It is anticipated that the principles will be useful in planning stakeholder engagement activity within
research programmes and in monitoring and evaluating stakeholder engagement. A next step will be to address the
remaining gap in the stakeholder engagement literature concerned with how we assess the impact of stakeholder
engagement on research us
High-density genetic mapping identifies new susceptibility loci for rheumatoid arthritis.
Using the Immunochip custom SNP array, which was designed for dense genotyping of 186 loci identified through genome-wide association studies (GWAS), we analyzed 11,475 individuals with rheumatoid arthritis (cases) of European ancestry and 15,870 controls for 129,464 markers. We combined these data in a meta-analysis with GWAS data from additional independent cases (n = 2,363) and controls (n = 17,872). We identified 14 new susceptibility loci, 9 of which were associated with rheumatoid arthritis overall and five of which were specifically associated with disease that was positive for anticitrullinated peptide antibodies, bringing the number of confirmed rheumatoid arthritis risk loci in individuals of European ancestry to 46. We refined the peak of association to a single gene for 19 loci, identified secondary independent effects at 6 loci and identified association to low-frequency variants at 4 loci. Bioinformatic analyses generated strong hypotheses for the causal SNP at seven loci. This study illustrates the advantages of dense SNP mapping analysis to inform subsequent functional investigations
CfA3: 185 Type Ia Supernova Light Curves from the CfA
We present multi-band photometry of 185 type-Ia supernovae (SN Ia), with over
11500 observations. These were acquired between 2001 and 2008 at the F. L.
Whipple Observatory of the Harvard-Smithsonian Center for Astrophysics (CfA).
This sample contains the largest number of homogeneously-observed and reduced
nearby SN Ia (z < 0.08) published to date. It more than doubles the nearby
sample, bringing SN Ia cosmology to the point where systematic uncertainties
dominate. Our natural system photometry has a precision of 0.02 mag or better
in BVRIr'i' and roughly 0.04 mag in U for points brighter than 17.5 mag. We
also estimate a systematic uncertainty of 0.03 mag in our SN Ia standard system
BVRIr'i' photometry and 0.07 mag for U. Comparisons of our standard system
photometry with published SN Ia light curves and comparison stars, where
available for the same SN, reveal agreement at the level of a few hundredths
mag in most cases. We find that 1991bg-like SN Ia are sufficiently distinct
from other SN Ia in their color and light-curve-shape/luminosity relation that
they should be treated separately in light-curve/distance fitter training
samples. The CfA3 sample will contribute to the development of better
light-curve/distance fitters, particularly in the few dozen cases where
near-infrared photometry has been obtained and, together, can help disentangle
host-galaxy reddening from intrinsic supernova color, reducing the systematic
uncertainty in SN Ia distances due to dust.Comment: Accepted to the Astrophysical Journal. Minor changes from last
version. Light curves, comparison star photometry, and passband tables are
available at http://www.cfa.harvard.edu/supernova/CfA3
Common variants at theCHEK2gene locus and risk of epithelial ovarian cancer
Genome-wide association studies have identified 20 genomic regions associated with risk of epithelial ovarian cancer (EOC), but many additional risk variants may exist. Here, we evaluated associations between common genetic variants [single nucleotide polymorphisms (SNPs) and indels] in DNA repair genes and EOC risk. We genotyped 2896 common variants at 143 gene loci in DNA samples from 15 397 patients with invasive EOC and controls. We found evidence of associations with EOC risk for variants at FANCA, EXO1, E2F4, E2F2, CREB5 and CHEK2 genes (P ≤ 0.001). The strongest risk association was for CHEK2 SNP rs17507066 with serous EOC (P = 4.74 x 10(-7)). Additional genotyping and imputation of genotypes from the 1000 genomes project identified a slightly more significant association for CHEK2 SNP rs6005807 (r (2) with rs17507066 = 0.84, odds ratio (OR) 1.17, 95% CI 1.11-1.24, P = 1.1×10(-7)). We identified 293 variants in the region with likelihood ratios of less than 1:100 for representing the causal variant. Functional annotation identified 25 candidate SNPs that alter transcription factor binding sites within regulatory elements active in EOC precursor tissues. In The Cancer Genome Atlas dataset, CHEK2 gene expression was significantly higher in primary EOCs compared to normal fallopian tube tissues (P = 3.72×10(-8)). We also identified an association between genotypes of the candidate causal SNP rs12166475 (r (2) = 0.99 with rs6005807) and CHEK2 expression (P = 2.70×10(-8)). These data suggest that common variants at 22q12.1 are associated with risk of serous EOC and CHEK2 as a plausible target susceptibility gene.Other Research Uni
Identification of six new susceptibility loci for invasive epithelial ovarian cancer.
Genome-wide association studies (GWAS) have identified 12 epithelial ovarian cancer (EOC) susceptibility alleles. The pattern of association at these loci is consistent in BRCA1 and BRCA2 mutation carriers who are at high risk of EOC. After imputation to 1000 Genomes Project data, we assessed associations of 11 million genetic variants with EOC risk from 15,437 cases unselected for family history and 30,845 controls and from 15,252 BRCA1 mutation carriers and 8,211 BRCA2 mutation carriers (3,096 with ovarian cancer), and we combined the results in a meta-analysis. This new study design yielded increased statistical power, leading to the discovery of six new EOC susceptibility loci. Variants at 1p36 (nearest gene, WNT4), 4q26 (SYNPO2), 9q34.2 (ABO) and 17q11.2 (ATAD5) were associated with EOC risk, and at 1p34.3 (RSPO1) and 6p22.1 (GPX6) variants were specifically associated with the serous EOC subtype, all with P < 5 × 10(-8). Incorporating these variants into risk assessment tools will improve clinical risk predictions for BRCA1 and BRCA2 mutation carriers.COGS project is funded through a European Commission's Seventh Framework Programme grant (agreement number 223175 ] HEALTH ]F2 ]2009 ]223175). The CIMBA data management and data
analysis were supported by Cancer Research.UK grants 12292/A11174 and C1287/A10118. The Ovarian Cancer Association Consortium is supported by a grant from the Ovarian Cancer Research
Fund thanks to donations by the family and friends of Kathryn Sladek Smith (PPD/RPCI.07). The scientific development and funding for this project were in part supported by the US National Cancer Institute GAME ]ON Post ]GWAS Initiative (U19 ]CA148112). This study made use of data generated by the Wellcome Trust Case Control consortium. Funding for the project was provided by the Wellcome Trust under award 076113. The results published here are in part based upon data
generated by The Cancer Genome Atlas Pilot Project established by the National Cancer Institute and National Human Genome Research Institute (dbGap accession number phs000178.v8.p7). The cBio portal is developed and maintained by the Computational Biology Center at Memorial Sloan ] Kettering Cancer Center. SH is supported by an NHMRC Program Grant to GCT. Details of the funding of individual investigators and studies are provided in the Supplementary Note. This study made use of data generated by the Wellcome Trust Case Control consortium, funding for which was provided by the Wellcome Trust under award 076113. The results published here are, in part, based upon data generated by The Cancer Genome Atlas Pilot Project established by the National Cancerhttp://dx.doi.org/10.1038/ng.3185This is the Author Accepted Manuscript of 'Identification of six new susceptibility loci for invasive epithelial ovarian cancer' which was published in Nature Genetics 47, 164–171 (2015) © Nature Publishing Group - content may only be used for academic research
American College of Rheumatology Provisional Criteria for Clinically Relevant Improvement in Children and Adolescents With Childhood-Onset Systemic Lupus Erythematosus
10.1002/acr.23834ARTHRITIS CARE & RESEARCH715579-59
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