An Ensemble Kalman-Particle Predictor-Corrector Filter for Non-Gaussian Data Assimilation

An Ensemble Kalman Filter (EnKF, the predictor) is used make a large change in the state, followed by a Particle Filer (PF, the corrector) which assigns importance weights to describe non-Gaussian distribution. The weights are obtained by nonparametric density estimation. It is demonstrated on several numerical examples that the new predictor-corrector filter combines the advantages of the EnKF and the PF and that it is suitable for high dimensional states which are discretizations of solutions of partial differential equations.Comment: ICCS 2009, to appear; 9 pages; minor edit

Effects of Methylene Blue and Polyethelene Glycol on Facial Nerve Axotomy Recovery

poster abstractInjury and disease are common factors affecting peripheral nerves and can lead to loss of function. Recovery time after an injury is slow and not very efficient in humans. Treatment methods involving methylene blue (MB) and polyethylene glycol (PEG) have shown combinational effects in sciatic nerve axotomies. We are using behavior analysis of eye blink reflex and vibrissae orientation and movement as a measurement of rate of functional recovery. We will have treatment groups of both cut and crush rats. For each group we will be testing the effect of PEG/MB or no treatment control groups. The results of these treatment groups are significant to finding treatment options for clinical use

Technological Devices in the Archives: A Policy Analysis

Doing research in the archive is the cornerstone of humanities scholarship. Various archives institute policies regarding the use of technological devices, such as mobile phones, laptops, and cameras in their reading rooms. Such policies directly affect the scholars as the devices mediate the nature of their interaction with the source materials in terms of capturing, organizing, note taking, and record keeping for future use of found materials. In this paper, we present our analysis of the policies of thirty archives regarding the use of technology in their reading rooms. This policy analysis, along with data from interviews of scholars and archivists, is intended to serve as a basis for developing mobile applications for assisting scholars in their research activities. In this paper we introduce an early prototype of such a mobile application— AMTracker.Informatio

Charge-Symmetry Breaking and the Two-Pion-Exchange Two-Nucleon Interaction

Charge-symmetry breaking in the nucleon-nucleon force is investigated within an effective field theory, using a classification of isospin-violating interactions based on power-counting arguments. The relevant charge-symmetry-breaking interactions corresponding to the first two orders in the power counting are discussed, including their effects on the 3He-3H binding-energy difference. The static charge-symmetry-breaking potential linear in the nucleon-mass difference is constructed using chiral perturbation theory. Explicit formulae in momentum and configuration spaces are presented. The present work completes previously obtained results.Comment: 15 pages, 2 figure

D-state configurations in the electromagnetic form factors of the nucleon and the Delta(1232) resonance

The $\Delta-N$ electromagnetic transition form factors are calculated in the Poincar\'e covariant quark model in three forms of relativistic kinematics. Addition of $D-$state components to pure $S-$state model wave functions, chosen so as to reproduce the empirical elastic electromagnetic nucleon form factors with single constituent currents, brings the calculated $R_{EM}$ ratio for the $\Delta(1232)\to N\gamma$ transition closer to the empirical values in instant and point form kinematics. The calculated $R_{SM}$ ratio is insensitive to the $D-$state component. In front form kinematics the substantial violation of the angular condition for the spin 3/2 resonance transition amplitude in the impulse approximation prevents a unique determination of $R_{EM}$ and $R_{SM}$, both of which are very sensitive to $D-$state components. In no form of kinematics do $D-$state deformations of the rest frame baryon wave functions alone suffice for a description of the empirical values of these ratios.Comment: 11 figures, elsevier forma

FGF receptor genes and breast cancer susceptibility: results from the Breast Cancer Association Consortium

Background:Breast cancer is one of the most common malignancies in women. Genome-wide association studies have identified FGFR2 as a breast cancer susceptibility gene. Common variation in other fibroblast growth factor (FGF) receptors might also modify risk. We tested this hypothesis by studying genotyped single-nucleotide polymorphisms (SNPs) and imputed SNPs in FGFR1, FGFR3, FGFR4 and FGFRL1 in the Breast Cancer Association Consortium. Methods:Data were combined from 49 studies, including 53 835 cases and 50 156 controls, of which 89 050 (46 450 cases and 42 600 controls) were of European ancestry, 12 893 (6269 cases and 6624 controls) of Asian and 2048 (1116 cases and 932 controls) of African ancestry. Associations with risk of breast cancer, overall and by disease sub-type, were assessed using unconditional logistic regression. Results:Little evidence of association with breast cancer risk was observed for SNPs in the FGF receptor genes. The strongest evidence in European women was for rs743682 in FGFR3; the estimated per-allele odds ratio was 1.05 (95 confidence interval=1.02-1.09, P=0.0020), which is substantially lower than that observed for SNPs in FGFR2. Conclusion:Our results suggest that common variants in the other FGF receptors are not associated with risk of breast cancer to the degree observed for FGFR2. © 2014 Cancer Research UK

Association of baseline inflammatory markers and the development of negative symptoms in individuals at clinical high risk for psychosis

Negative symptoms are common in individuals at clinical high-risk (CHR) for psychosis and are associated with worse functional outcomes. Inflammation may be one mechanism underlying negative symptoms. Inflammatory markers are altered in individuals at CHR and are associated with negative symptoms in patients with schizophrenia. We thus hypothesized that baseline inflammatory markers would predict the development of negative symptoms in individuals at CHR for psychosis. Thirty seven individuals from the North American Prodromal Longitudinal Study who met CHR criteria were included in the study. Inflammatory cytokines, including interferon (IFN)-λ, Interleukin (IL)-1β, IL-1 receptor antagonist (IL-1RA), IL-4, IL-6, IL-8, IL-10, and tumor necrosis factor (TNF) were measured at baseline. Negative symptoms as measured by the Scale of Prodromal Symptoms, were measured at baseline and six and twelve months. Associations between inflammatory markers and the trajectory of negative symptoms (slope) over the first year of follow-up, were assessed using linear regression models controlling for age, sex, race and depressive symptom severity (as assessed by the Calgary Depression Scale for Schizophrenia). Baseline TNF (beta = 0.361, p = 0.007) and IL-6 (beta = −0.306, p = 0.026) predicted negative symptoms slopes, along with depressive symptom severity at baseline (beta = −0.596, p = 0.000). These findings demonstrate that inflammatory cytokines may underlie the development of negative symptoms in some individuals at CHR for psychosis. TNF predicted the development of negative symptoms independent of baseline depression. Given the heterogeneity of the CHR population, the comorbidity of negative symptoms and depression in this population, and the particular challenges in treating negative symptoms, immune markers could represent potential biomarkers that underlie the development of negative symptoms, representing a potential treatment target

An Integrated TCGA Pan-Cancer Clinical Data Resource to Drive High-Quality Survival Outcome Analytics

For a decade, The Cancer Genome Atlas (TCGA) program collected clinicopathologic annotation data along with multi-platform molecular profiles of more than 11,000 human tumors across 33 different cancer types. TCGA clinical data contain key features representing the democratized nature of the data collection process. To ensure proper use of this large clinical dataset associated with genomic features, we developed a standardized dataset named the TCGA Pan-Cancer Clinical Data Resource (TCGA-CDR), which includes four major clinical outcome endpoints. In addition to detailing major challenges and statistical limitations encountered during the effort of integrating the acquired clinical data, we present a summary that includes endpoint usage recommendations for each cancer type. These TCGA-CDR findings appear to be consistent with cancer genomics studies independent of the TCGA effort and provide opportunities for investigating cancer biology using clinical correlates at an unprecedented scale. Analysis of clinicopathologic annotations for over 11,000 cancer patients in the TCGA program leads to the generation of TCGA Clinical Data Resource, which provides recommendations of clinical outcome endpoint usage for 33 cancer types

Measurement of the Probability of Gluon Splitting into Charmed Quarks in Hadronic Z Decays

We have measured the probability, n(g->cc~), of a gluon splitting into a charm-quark pair using 1.7 million hadronic Z decays collected by the L3 detector. Two independent methods have been applied to events with a three-jet topology. One method relies on tagging charmed hadrons by identifying a lepton in the lowest energy jet. The other method uses a neural network based on global event shape parameters. Combining both methods, we measure n(g->cc~)= [2.45 +/- 0.29 +/- 0.53]%