Factors affecting mortality in late stage Parkinson’s Disease

To determine the effect of dysphagia and hospital admissions on mortality in late stage Parkinson’s disease

CLUMP-3D. Testing Λ\LambdaCDM with galaxy cluster shapes

The $\Lambda$CDM model of structure formation makes strong predictions on concentration and shape of DM (dark matter) halos, which are determined by mass accretion processes. Comparison between predicted shapes and observations provides a geometric test of the $\Lambda$CDM model. Accurate and precise measurements needs a full three-dimensional analysis of the cluster mass distribution. We accomplish this with a multi-probe 3D analysis of the X-ray regular CLASH (Cluster Lensing And Supernova survey with Hubble) clusters combining strong and weak lensing, X-ray photometry and spectroscopy, and the Sunyaev-Zel'dovich effect. The cluster shapes and concentrations are consistent with $\Lambda$CDM predictions. The CLASH clusters are randomly oriented, as expected given the sample selection criteria. Shapes agree with numerical results for DM-only halos, which hints at baryonic physics being not so effective in making halos rounder.Comment: v2: 8 pages, in press on ApJL. Extended discussion on regularity. One of three new companion papers of the CLUMP-3D project (Keiichi Umetsu et al., arxiv:1804.00664; I-Non Chiu et al., arXiv:1804.00676

Design-By-Contract for Flexible Multiparty Session Protocols

Choreographic models support a correctness-by-construction principle in distributed programming. Also, they enable the automatic generation of correct message-based communication patterns from a global specification of the desired system behaviour. In this paper we extend the theory of choreography automata, a choreographic model based on finite-state automata, with two key features. First, we allow participants to act only in some of the scenarios described by the choreography automaton. While this seems natural, many choreographic approaches in the literature, and choreography automata in particular, forbid this behaviour. Second, we equip communications with assertions constraining the values that can be communicated, enabling a design-by-contract approach. We provide a toolchain allowing to exploit the theory above to generate APIs for TypeScript web programming. Programs communicating via the generated APIs follow, by construction, the prescribed communication pattern and are free from communication errors such as deadlocks

HTR4 gene structure and altered expression in the developing lung

Background: Meta-analyses of genome-wide association studies (GWAS) have identified single nucleotide polymorphisms (SNPs) spanning the 5-hydroxytryptamine receptor 4 (5-HT4R) gene (HTR4) associated with lung function. The aims of this study were to i) investigate the expression profile of HTR4 in adult and fetal lung tissue and cultured airway cells, ii) further define HTR4 gene structure and iii) explore the potential functional implications of key SNPs using a bioinformatic approach

Bolocam Survey for 1.1 mm Dust Continuum Emission in the c2d Legacy Clouds. II. Ophiuchus

We present a large-scale millimeter continuum map of the Ophiuchus molecular cloud. Nearly 11 square degrees, including all of the area in the cloud with visual extinction more than 3 magnitudes, was mapped at 1.1 mm with Bolocam on the Caltech Submillimeter Observatory (CSO). By design, the map also covers the region mapped in the infrared with the Spitzer Space Telescope. We detect 44 definite sources, and a few likely sources are also seen along a filament in the eastern streamer. The map indicates that dense cores in Ophiuchus are very clustered and often found in filaments within the cloud. Most sources are round, as measured at the half power point, but elongated when measured at lower contour levels, suggesting spherical sources lying within filaments. The masses, for an assumed dust temperature of 10 K, range from 0.24 to 3.9 solar masses, with a mean value of 0.96 solar masses. The total mass in distinct cores is 42 solar masses, 0.5 to 2% of the total cloud mass, and the total mass above 4 sigma is about 80 solar masses. The mean densities in the cores are quite high, with an average of 1.6 x 10^6 per cc, suggesting short free-fall times. The core mass distribution can be fitted with a power law with slope of 2.1 plus or minus 0.3 for M>0.5 solar masses, similar to that found in other regions, but slightly shallower than that of some determinations of the local IMF. In agreement with previous studies, our survey shows that dense cores account for a very small fraction of the cloud volume and total mass. They are nearly all confined to regions with visual extinction at least 9 mag, a lower threshold than found previously.Comment: 47 pages, 16 figures, accepted for Ap

Translational analysis of moderate to severe asthma GWAS signals into candidate causal genes and their functional, tissue-dependent and disease-related associations

Asthma affects more than 300 million people globally and is both under diagnosed and under treated. The most recent and largest genome-wide association study investigating moderate to severe asthma to date was carried out in 2019 and identified 25 independent signals. However, as new and in-depth downstream databases become available, the translational analysis of these signals into target genes and pathways is timely. In this study, unique (U-BIOPRED) and publicly available datasets (HaploReg, Open Target Genetics and GTEx) were investigated for the 25 GWAS signals to identify 37 candidate causal genes. Additional traits associated with these signals were identified through PheWAS using the UK Biobank resource, with asthma and eosinophilic traits amongst the strongest associated. Gene expression omnibus dataset examination identified 13 candidate genes with altered expression profiles in the airways and blood of asthmatic subjects, including MUC5AC and STAT6. Gene expression analysis through publicly available datasets highlighted lung tissue cell specific expression, with both MUC5AC and SLC22A4 genes showing enriched expression in ciliated cells. Gene enrichment pathway and interaction analysis highlighted the dominance of the HLA-DQA1/A2/B1/B2 gene cluster across many immunological diseases including asthma, type I diabetes, and rheumatoid arthritis. Interaction and prediction analyses found IL33 and IL18R1 to be key co-localization partners for other genes, predicted that CD274 forms co-expression relationships with 13 other genes, including the HLA-DQA1/A2/B1/B2 gene cluster and that MUC5AC and IL37 are co-expressed. Drug interaction analysis revealed that 11 of the candidate genes have an interaction with available therapeutics. This study provides significant insight into these GWAS signals in the context of cell expression, function, and disease relationship with the view of informing future research and drug development efforts for moderate-severe asthma

CLUMP-3D: three-dimensional lensing and multi-probe analysis of MACS J1206.2−0847, a remarkably regular cluster

Multi-wavelength techniques can probe the distribution and the physical properties of baryons and dark matter in galaxy clusters from the inner regions out to the peripheries. We present a full three-dimensional analysis combining strong and weak lensing, X-ray surface brightness and temperature, and the Sunyaev–Zel'dovich effect. The method is applied to MACS J1206.2−0847, a remarkably regular, face-on, massive, M_(200) = (1.1 ± 0.2) × 10^(15) M⊙ h^(−1), cluster at z = 0.44. The measured concentration, c_(200) = 6.3 ± 1.2, and the triaxial shape are common to haloes formed in a Λ cold dark matter scenario. The gas has settled in and follows the shape of the gravitational potential, which is evidence of pressure equilibrium via the shape theorem. There is no evidence for significant non-thermal pressure and the equilibrium is hydrostatic

GenBank

GenBank® is a comprehensive database that contains publicly available nucleotide sequences for more than 300 000 organisms named at the genus level or lower, obtained primarily through submissions from individual laboratories and batch submissions from large-scale sequencing projects, including whole genome shotgun (WGS) and environmental sampling projects. Most submissions are made using the web-based BankIt or standalone Sequin programs, and accession numbers are assigned by GenBank staff upon receipt. Daily data exchange with the European Molecular Biology Laboratory Nucleotide Sequence Database in Europe and the DNA Data Bank of Japan ensures worldwide coverage. GenBank is accessible through the NCBI Entrez retrieval system, which integrates data from the major DNA and protein sequence databases along with taxonomy, genome, mapping, protein structure and domain information, and the biomedical journal literature via PubMed. BLAST provides sequence similarity searches of GenBank and other sequence databases. Complete bi-monthly releases and daily updates of the GenBank database are available by FTP. To access GenBank and its related retrieval and analysis services, begin at the NCBI homepage: www.ncbi.nlm.nih.gov