Bayesian reconstruction of binary media with unresolved fine-scale spatial structures

We present a Bayesian technique to estimate the fine-scale properties of a binary medium from multiscale observations. The binary medium of interest consists of spatially varying proportions of low and high permeability material with an isotropic structure. Inclusions of one material within the other are far smaller than the domain sizes of interest, and thus are never explicitly resolved. We consider the problem of estimating the spatial distribution of the inclusion proportion, F(x), and a characteristic length-scale of the inclusions, δ, from sparse multiscale measurements. The observations consist of coarse-scale (of the order of the domain size) measurements of the effective permeability of the medium (i.e., static data) and tracer breakthrough times (i.e., dynamic data), which interrogate the fine scale, at a sparsely distributed set of locations. This ill-posed problem is regularized by specifying a Gaussian process model for the unknown field F(x) and expressing it as a superposition of Karhunen–Loève modes. The effect of the fine-scale structures on the coarse-scale effective permeability i.e., upscaling, is performed using a subgrid-model which includes δ as one of its parameters. A statistical inverse problem is posed to infer the weights of the Karhunen–Loève modes and δ, which is then solved using an adaptive Markov Chain Monte Carlo method. The solution yields non-parametric distributions for the objects of interest, thus providing most probable estimates and uncertainty bounds on latent structures at coarse and fine scales. The technique is tested using synthetic data. The individual contributions of the static and dynamic data to the inference are also analyzed.United States. Dept. of Energy. National Nuclear Security Administration (Contract DE-AC04_94AL85000

Human phosphodiesterase 4D7 (PDE4D7) expression is increased in TMPRSS2-ERG positive primary prostate cancer and independently adds to a reduced risk of post-surgical disease progression

background: There is an acute need to uncover biomarkers that reflect the molecular pathologies, underpinning prostate cancer progression and poor patient outcome. We have previously demonstrated that in prostate cancer cell lines PDE4D7 is downregulated in advanced cases of the disease. To investigate further the prognostic power of PDE4D7 expression during prostate cancer progression and assess how downregulation of this PDE isoform may affect disease outcome, we have examined PDE4D7 expression in physiologically relevant primary human samples. methods: About 1405 patient samples across 8 publically available qPCR, Affymetrix Exon 1.0 ST arrays and RNA sequencing data sets were screened for PDE4D7 expression. The TMPRSS2-ERG gene rearrangement status of patient samples was determined by transformation of the exon array and RNA seq expression data to robust z-scores followed by the application of a threshold >3 to define a positive TMPRSS2-ERG gene fusion event in a tumour sample. results: We demonstrate that PDE4D7 expression positively correlates with primary tumour development. We also show a positive association with the highly prostate cancer-specific gene rearrangement between TMPRSS2 and the ETS transcription factor family member ERG. In addition, we find that in primary TMPRSS2-ERG-positive tumours PDE4D7 expression is significantly positively correlated with low-grade disease and a reduced likelihood of progression after primary treatment. Conversely, PDE4D7 transcript levels become significantly decreased in castration resistant prostate cancer (CRPC). conclusions: We further characterise and add physiological relevance to PDE4D7 as a novel marker that is associated with the development and progression of prostate tumours. We propose that the assessment of PDE4D7 levels may provide a novel, independent predictor of post-surgical disease progression

Endoscopic Treatment of Esophageal Foreign Bodies in the Elderly

SummaryBackgroundIngestion of a foreign body is a prevalent condition among children and psychiatric patients; however, such an issue has seldom been discussed in the elderly.MethodsA retrospective review of medical records of patients more than 60 years of age with a diagnosis of esophageal foreign body (EFB) from December 2007 to December 2010 was performed. A total of 45 elderly patients (24 men and 21 women) were analyzed. Demographic data, impaction level of esophagus, types of EFB, underlying diseases, duration from ingestion to endoscopic intervention, endoscopic managements, and outcomes were analyzed.ResultsThe average age of these patients was 75.0 years (60–95 years). Among the materials that caused esophageal impaction, the most frequent were bones of animal origin (17/45 = 37.8%), followed by meat or food bolus (16/45 = 35.6%), dental prostheses (8/45 = 17.8%), and medicine packing (4/45 = 8.8%). In about half of these patients, the EFBs were entrapped in the cervical esophagus. There was no mortality. The success of removing EFB at an initial stage in these patients was about 88.8% (40/45). The retrieval-associated complications occurred in six patients with mis-swallowing of fish bones and medicine packing; four had wound bleeding, which need endoscopic hemostasis, and the other two had penetrating wounds that needed surgical repair.ConclusionFlexible upper endoscopy is relatively safe and effective for extracting EFB in the elderly. Elderly patients with EFBs had a high rate of underlying diseases. Thus, additional care and considerations must be given to such population

Environmental assessment and nano-mineralogical characterization of coal, overburden and sediment from Indian coal mining acid drainage

The deterioration of environmental conditions is the major contributory factor to poor health and quality of life that hinders sustainable development in any region. Coal mining is one of the major industries that contribute to the economy of a country but it also impacts the environment. The chemical parameters of the coal, overburden, soil and sediments along with the coal mine drainage (CMD) were investigated in order to understand the overall environmental impact from high sulphur coal mining at northeastern coalfield (India). It was found that the total sulphur content of the coal is noticeably high compared to the overburden (OB) and soil. The volatile matter of the coal is sufficiently high against the high ash content of the soil and overburden. The water samples have a High Electrical Conductivity (EC) and high Total Dissolve Solid (TDS). Lower values of pH, indicate the dissolution of minerals present in the coal as well as other minerals in the mine rejects/overburden. The chemical and nano-mineralogical composition of coal, soil and overburden samples was studied using a High Resolution-Transmission Electron Microscopy (HR-TEM), Energy Dispersive Spectroscopy (EDS), Selected-Area Diffraction (SAED), Field Emission-Scanning Electron Microscopy (FE-SEM)/EDS, X-ray diffraction (XRD), Fourier Transform Infrared Spectroscopy (FTIR), Raman and Ion-Chromatographic analysis, and Mössbauer spectroscopy. From different geochemical analysis it has been found that the mine water sample from Ledo colliery has the lowest pH value of 3.30, Tirap colliery samples have the highest electrical conductivity value of 5.40 ms cm−1. Both Ledo and Tirap coals have total sulphur contents within the range 3–3.50%. The coal mine water from Tirap colliery (TW-15B) has high values of Mg2+ (450 ppm), and Br− (227.17 ppm). XRD analysis revealed the presence of minerals including quartz and hematite in the coals. Mineral analysis of coal mine overburden (OB) indicates the presence both of pyrite and marcasite which was also confirmed in XRD and Mossbauer spectral analysis. The presented data of the minerals and ultra/nano-particles present shows their ability to control the mobility of hazardous elements, suggesting possible use in environmental management technology, including restoration of the delicate Indian coal mine areas

Nonlinear Feedback Excitation for System Interrogation by Bifurcation Morphing

Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/76971/1/AIAA-35028-143.pd

Sigma-phase in Fe-Cr and Fe-V alloy systems and its physical properties

A review is presented on physical properties of the sigma-phase in Fe-Cr and Fe-V alloy systems as revealed both with experimental -- mostly with the Mossbauer spectroscopy -- and theoretical methods. In particular, the following questions relevant to the issue have been addressed: identification of sigma and determination of its structural properties, kinetics of alpha-to-sigma and sigma-to-alpha phase transformations, Debye temperature and Fe-partial phonon density of states, Curie temperature and magnetization, hyperfine fields, isomer shifts and electric field gradients.Comment: 26 pages, 23 figures and 83 reference

Current challenges in software solutions for mass spectrometry-based quantitative proteomics

This work was in part supported by the PRIME-XS project, grant agreement number 262067, funded by the European Union seventh Framework Programme; The Netherlands Proteomics Centre, embedded in The Netherlands Genomics Initiative; The Netherlands Bioinformatics Centre; and the Centre for Biomedical Genetics (to S.C., B.B. and A.J.R.H); by NIH grants NCRR RR001614 and RR019934 (to the UCSF Mass Spectrometry Facility, director: A.L. Burlingame, P.B.); and by grants from the MRC, CR-UK, BBSRC and Barts and the London Charity (to P.C.