A statistical framework for joint eQTL analysis in multiple tissues

Mapping expression Quantitative Trait Loci (eQTLs) represents a powerful and widely-adopted approach to identifying putative regulatory variants and linking them to specific genes. Up to now eQTL studies have been conducted in a relatively narrow range of tissues or cell types. However, understanding the biology of organismal phenotypes will involve understanding regulation in multiple tissues, and ongoing studies are collecting eQTL data in dozens of cell types. Here we present a statistical framework for powerfully detecting eQTLs in multiple tissues or cell types (or, more generally, multiple subgroups). The framework explicitly models the potential for each eQTL to be active in some tissues and inactive in others. By modeling the sharing of active eQTLs among tissues this framework increases power to detect eQTLs that are present in more than one tissue compared with "tissue-by-tissue" analyses that examine each tissue separately. Conversely, by modeling the inactivity of eQTLs in some tissues, the framework allows the proportion of eQTLs shared across different tissues to be formally estimated as parameters of a model, addressing the difficulties of accounting for incomplete power when comparing overlaps of eQTLs identified by tissue-by-tissue analyses. Applying our framework to re-analyze data from transformed B cells, T cells and fibroblasts we find that it substantially increases power compared with tissue-by-tissue analysis, identifying 63% more genes with eQTLs (at FDR=0.05). Further the results suggest that, in contrast to previous analyses of the same data, the majority of eQTLs detectable in these data are shared among all three tissues.Comment: Summitted to PLoS Genetic

Investigation of a Liquefaction Methodology to Enable the Utilization of In-Situ Produced Propellant on the Lunar and Martian Surfaces

To enable NASAs plans to return astronauts to the lunar surface and eventually to Mars, the agency is putting emphasis on reusable cryogenic systems. Such systems will require replenishing of cryogens on-orbit via a cryogenic tanker or refueling depot, and potentially on the lunar or Martian surfaces with the utilization of in-situ resources. Surface replenishing requires the in-situ production of gaseous oxygen (and hydrogen if on the lunar surface), followed by liquefaction and storage. The liquefaction system can be integrated into the propulsion system propellant tanks, or in a separate storage facility and transferred to the propulsion system when needed. In interest of developing a liquefaction and storage system that is efficient, reliable and scalable, a multicenter team of NASA engineers was formed. The team conducted trade studies on various system level concepts including multiple heat exchanger configurations to be integrated with active cooling (cryocoolers). When the trade studies concluded, the team settled on a system level configuration which included a propellant tank outfitted with a tube-on-tank heat exchanger integrated with a cryocooler. The team executed a development plan to include: 1) a brassboard level test series to demonstrate proof of concept, 2) model development to predict system performance, 3) model validation utilizing brassboard test results, 4) the design, development and demonstration of a Mars surface liquefaction and storage system prototype, and 5) eventually conduct an end-to-end demonstration to include in-situ production, liquefaction, and long duration storage of cryogens with zero boil-off. The effort is currently in the brassboard level testing phase which will be discussed here

Defining contextual advantage: exploring the contextual relation between effectuation and entrepreneurial marketing for creating new markets effectually

The paper explores the behaviour of the Entrepreneur and the Effectual use of available resources mainly social capital in new market creation. The study dwells on creating a unique ‘Context’ by leveraging these resources to increase the Entrepreneurial orientation of a firm. The paper further attempts to explore whether the Contextual link between Effectuation and Entrepreneurial Marketing helps develop a ‘Contextual Advantage’, which can be used as a mean of developing a unique business model which differentiates the firm in the market. The paper hence explores contemporary theories of Entrepreneurship and Marketing namely Entrepreneurial Marketing, Effectuation and Contextual Marketing by studying their inter-relation. The nature of these theories is under-explored according to the authors and requires further investigation to evolve the field of Marketing and Entrepreneurship.N/

A review of Leptospermum scoparium (Myrtaceae) in New Zealand

Information about Leptospermum scoparium (Myrtaceae), the most widespread and important New Zealand indigenous shrub species, is reviewed. L. scoparium is a variable species, requiring more study of the genetically based differences between New Zealand populations and the affinity of these populations to Australian populations and other closely allied Australian species. Improved understanding of the species’ variation will assist both its conservation roles and economic uses, and the need to sustain genetically distinct varieties is emphasised. Ecologically, the species has a dominant role in infertile and poorly drained environments, and a wider occurrence as a seral shrub species in successions to forest where it may be regarded as a woody weed of pasture or a useful species for erosion control, carbon sesquestration, and vegetation restoration. The main economic products derived from the species are ornamental shrubs, essential oils, and honey. The species’ development as an ornamental plant and further definition of the pharmacologically active components are recommended as priority areas for research

The explanation of why the level of UMF varies in manuka honey

A few years ago many beekeepers kindly supplied samples of manuka honey, from the spring 2001 season, directly from hives in various specific locations so that a study could be conducted to investigate the possible reasons why there is variation in the level of UMF in manuka honey

A hierarchical Bayesian model for predicting ecological interactions using scaled evolutionary relationships

Identifying undocumented or potential future interactions among species is a challenge facing modern ecologists. Recent link prediction methods rely on trait data, however large species interaction databases are typically sparse and covariates are limited to only a fraction of species. On the other hand, evolutionary relationships, encoded as phylogenetic trees, can act as proxies for underlying traits and historical patterns of parasite sharing among hosts. We show that using a network-based conditional model, phylogenetic information provides strong predictive power in a recently published global database of host-parasite interactions. By scaling the phylogeny using an evolutionary model, our method allows for biological interpretation often missing from latent variable models. To further improve on the phylogeny-only model, we combine a hierarchical Bayesian latent score framework for bipartite graphs that accounts for the number of interactions per species with the host dependence informed by phylogeny. Combining the two information sources yields significant improvement in predictive accuracy over each of the submodels alone. As many interaction networks are constructed from presence-only data, we extend the model by integrating a correction mechanism for missing interactions, which proves valuable in reducing uncertainty in unobserved interactions.Comment: To appear in the Annals of Applied Statistic

Frustrations of fur-farmed mink

Captive animals may suffer if strongly motivated to perform activities that their housing does not allow. We investigated this experimentally for caged mink, and found that they would pay high costs to perform a range of natural behaviours, and release cortisol if their most preferred activity, swimming, was prevented. Investigates the effect of limitations on caged mink. Popularity of fur farming; Research into the possible deprivation of mink, which result in their frustration; Details of the experiment; Impact of an access to water; Results which indicate that fur-farmed mink are still motivated to perform the same activities as their wild counterpart

Behavior Classification Algorithms at Intersections

The ability to classify driver behavior lays the foundation for more advanced driver assistance systems. Improving safety at intersections has also been identified as high priority due to the large number of intersection related fatalities. This paper focuses on developing algorithms for estimating driver behavior at road intersections. It introduces two classes of algorithms that can classify drivers as compliant or violating. They are based on 1) Support Vector Machines (SVM) and 2) Hidden Markov Models (HMM), two very popular machine learning approaches that have been used extensively for classification in multiple disciplines. The algorithms are successfully validated using naturalistic intersection data collected in Christiansburg, VA, through the US Department of Transportation Cooperative Intersection Collision Avoidance System for Violations (CICAS-V) initiative

Interferometric Observations of High-Mass Star-Forming Clumps with Unusual N2H+/HCO+ Line Ratios

The Millimetre Astronomy Legacy Team 90 GHz (MALT90) survey has detected high-mass star-forming clumps with anomalous N$_2$H$^+$/HCO$^+$(1-0) integrated intensity ratios that are either unusually high ("N$_2$H$^+$ rich") or unusually low ("N$_2$H$^+$ poor"). With 3 mm observations from the Australia Telescope Compact Array (ATCA), we imaged two N$_2$H$^+$ rich clumps, G333.234-00.061 and G345.144-00.216, and two N$_2$H$^+$ poor clumps, G351.409+00.567 and G353.229+00.672. In these clumps, the N$_2$H$^+$ rich anomalies arise from extreme self-absorption of the HCO$^+$ line. G333.234-00.061 contains two of the most massive protostellar cores known with diameters of less than 0.1 pc, separated by a projected distance of only 0.12 pc. Unexpectedly, the higher mass core appears to be at an earlier evolutionary stage than the lower mass core, which may suggest that two different epochs of high-mass star formation can occur in close proximity. Through careful analysis of the ATCA observations and MALT90 clumps (including the G333, NGC 6334, and NGC 6357 star formation regions), we find that N$_2$H$^+$ poor anomalies arise at clump-scales and are caused by lower relative abundances of N$_2$H$^+$ due to the distinct chemistry of H II regions or photodissociation regions.Comment: 18 pages, 18 figures, accepted to Ap