Visualizing SNP statistics in the context of linkage disequilibrium using LD-Plus

Summary: Often in human genetic analysis, multiple tables of single nucleotide polymorphism (SNP) statistics are shown alongside a Haploview style correlation plot. Readers are then asked to make inferences that incorporate knowledge across these multiple sets of results. To better facilitate a collective understanding of all available data, we developed a Ruby-based web application, LD-Plus, to generate figures that simultaneously display physical location of SNPs, binary SNP attributes (such as coding/non-coding or presence on genotyping platforms), common haplotypes and their frequencies and continuously scaled values (such as Fst, minor allele frequency, genotyping efficiency or P-values), all in the context of the D′ and r2 linkage disequilibrium structures. Combining these results into one comprehensive figure reduces dereferencing between figures and tables, and can provide unique insights into genetic features that are not clearly seen when results are partitioned across multiple figures and tables

The death of MyMouseHouse: lessons for systems for the efficient management of mouse colonies

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NMR and LDA evidence for spiral magnetic order in the chain cuprate LiCu2O2

We report on {6,7}Li nuclear magnetic resonance measurements of the spin-chain compound LiCu2O2 in the paramagnetic and magnetically ordered states. Below T about 24 K the NMR lineshape presents a clear signature of incommensurate (IC) static modulation of the local magnetic field consistent with an IC spiral modulation of the magnetic moments. {7}Li NMR reveals strong phason-like dynamical fluctuations extending well below 24 K. We hypothesize that a series of phase transitions at 24.2, 22.5, and 9 K reflects a "Devil's staircase" type behavior generic for IC systems. LDA based calculations of exchange integrals reveal a large in-chain frustration leading to a magnetical spiral.Comment: 4 pages, 4 figure

The use of electronic alerts in primary care computer systems to identify the over-prescription of short-acting beta(2)-agonists in people with asthma: a protocol for a systematic review

The authors wish to thank the Asthma UK Centre for Applied Research for funding this work. AB is an National Institute for Health Research (NIHR) Senior Investigator and additionally was supported by the NIHR Respiratory Disease Biomedical Research Unit at the Royal Brompton and Harefield NHS Foundation Trust and Imperial College London. MT was supported by the NIHR Collaboration for Leadership in Applied Health Research and Care (CLAHRC) Wessex, NIHR School of Primary Care Research and NIHR Southampton Biomedical Research Centre. CG was supported by the NIHR CLAHRC North Thames at Bart’s Health NHS Trust

Parasite infections in a social carnivore: Evidence of their fitness consequences and factors modulating infection load

There are substantial individual differences in parasite composition and infection load in wildlife populations. Few studies have investigated the factors shaping this heterogeneity in large wild mammals or the impact of parasite infections on Darwinian fitness, particularly in juveniles. A host's parasite composition and infection load can be shaped by factors that determine contact with infective parasite stages and those that determine the host's resistance to infection, such as abiotic and social environmental factors, and age. Host–parasite interactions and synergies between coinfecting parasites may also be important. We test predictions derived from these different processes to investigate factors shaping infection loads (fecal egg/oocyte load) of two energetically costly gastrointestinal parasites: the hookworm Ancylostoma and the intracellular Cystoisospora, in juvenile spotted hyenas (Crocuta crocuta) in the Serengeti National Park, in Tanzania. We also assess whether parasite infections curtail survival to adulthood and longevity. Ancylostoma and Cystoisospora infection loads declined as the number of adult clan members increased, a result consistent with an encounter‐reduction effect whereby adults reduced encounters between juveniles and infective larvae, but were not affected by the number of juveniles in a clan. Infection loads decreased with age, possibly because active immune responses to infection improved with age. Differences in parasite load between clans possibly indicate variation in abiotic environmental factors between clan den sites. The survival of juveniles (<365 days old) to adulthood decreased with Ancylostoma load, increased with age, and was modulated by maternal social status. High‐ranking individuals with low Ancylostoma loads had a higher survivorship during the first 4 years of life than high‐ranking individuals with high Ancylostoma loads. These findings suggest that high infection loads with energetically costly parasites such as hookworms during early life can have negative fitness consequences

Chaotic and pseudochaotic attractors of perturbed fractional oscillator

We consider a nonlinear oscillator with fractional derivative of the order alpha. Perturbed by a periodic force, the system exhibits chaotic motion called fractional chaotic attractor (FCA). The FCA is compared to the ``regular'' chaotic attractor. The properties of the FCA are discussed and the ``pseudochaotic'' case is demonstrated.Comment: 20 pages, 7 figure

Magnetic phase diagram of the frustrated S=1/2 chain magnet LiCu_2O_2

We present the results of the magnetization and dielectric constant measurements on untwinned single crystal samples of the frustrated S=1/2 chain cuprate LiCu_2O_2. Novel magnetic phase transitions were observed. A spin flop transition of the spiral spin plane was observed for the field orientations H||a,b. The second magnetic transition was observed at H~15 T for all three principal field directions. This high field magnetic phase is discussed as a collinear spin-modulated phase which is expected for an S=1/2 nearest-neighbor ferromagnetic and next-nearest-neighbor antiferromagnetic chain system

Deployable-erectable trade study for space station truss structures

The results of a trade study on truss structures for constructing the space station are presented. Although this study was conducted for the reference gravity gradient space station, the results are generally applicable to other configurations. The four truss approaches for constructing the space station considered in this paper were the 9 foot single fold deployable, the 15 foot erectable, the 10 foot double fold tetrahedral, and the 15 foot PACTRUSS. The primary rational for considering a 9 foot single-fold deployable truss (9 foot is the largest uncollapsed cross-section that will fit in the Shuttle cargo bay) is that of ease of initial on-orbit construction and preintegration of utility lines and subsystems. The primary rational for considering the 15 foot erectable truss is that the truss bay size will accommodate Shuttle size payloads and growth of the initial station in any dimension is a simple extension of the initial construction process. The primary rational for considering the double-fold 10 foot tetrahedral truss is that a relatively large amount of truss structure can be deployed from a single Shuttle flight to provide a large number of nodal attachments which present a pegboard for attaching a wide variety of payloads. The 15 foot double-fold PACTRUSS was developed to incorporate the best features of the erectable truss and the tetrahedral truss