68 research outputs found

    Identification and replication of RNA-Seq gene network modules associated with depression severity

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    Genomic variation underlying major depressive disorder (MDD) likely involves the interaction and regulation of multiple genes in a network. Data-driven co-expression network module inference has the potential to account for variation within regulatory networks, reduce the dimensionality of RNA-Seq data, and detect significant geneexpression modules associated with depression severity. We performed an RNA-Seq gene co-expression network analysis of mRNA data obtained from the peripheral blood mononuclear cells of unmedicated MDD (n = 78) and healthy control (n = 79) subjects. Across the combined MDD and HC groups, we assigned genes into modules using hierarchical clustering with a dynamic tree cut method and projected the expression data onto a lower-dimensional module space by computing the single-sample gene set enrichment score of each module. We tested the singlesample scores of each module for association with levels of depression severity measured by the Montgomery-Åsberg Depression Scale (MADRS). Independent of MDD status, we identified 23 gene modules from the co-expression network. Two modules were significantly associated with the MADRS score after multiple comparison adjustment (adjusted p = 0.009, 0.028 at 0.05 FDR threshold), and one of these modules replicated in a previous RNA-Seq study of MDD (p = 0.03). The two MADRS-associated modules contain genes previously implicated in mood disorders and show enrichment of apoptosis and B cell receptor signaling. The genes in these modules show a correlation between network centrality and univariate association with depression, suggesting that intramodular hub genes are more likely to be related to MDD compared to other genes in a module

    From the CMD of Omega Centauri and (super-)AGB stellar models to a Galactic plane passage gas purging chemical evolution scenario

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    [Abbreviated] We have investigated the color-magnitude diagram of Omega Centauri and find that the blue main sequence (bMS) can be reproduced only by models that have a of helium abundance in the range Y=0.35-0.40.Toexplainthefaintsubgiantbranchofthereddeststars("MSa/RGa"sequence),isochronesfortheobservedmetallicity([Fe/H]0.7)appeartorequirebothahighage( 13Gyr)andenhancedCNOabundances([CNO/Fe]0.90.40. To explain the faint subgiant branch of the reddest stars ("MS-a/RG-a" sequence), isochrones for the observed metallicity ([Fe/H]\approx0.7) appear to require both a high age (~13Gyr) and enhanced CNO abundances ([CNO/Fe]\approx0.9). Y~0.35 must also be assumed in order to counteract the effects of high CNO on turnoff colors, and thereby to obtain a good fit to the relatively blue turnoff of this stellar population. This suggest a short chemical evolution period of time (<1Gyr) for Omega Cen. Our intermediate-mass (super-)AGB models are able to reproduce the high helium abundances, along with [N/Fe]~2 and substantial O depletions if uncertainties in the treatment of convection are fully taken into account. These abundance features distinguish the bMS stars from the dominant [Fe/H] 1.7\approx1.7 population. The most massive super-AGB stellar models (M_zams>=6.8M_sun, M_He,core>=1.245M_sun) predict too large N-enhancements, which limits their role in contributing to the extreme populations. We show quantitatively that highly He- and N-enriched AGB ejecta have particularly efficient cooling properties. Based on these results and on the reconstruction of the orbit of Omega Cen with respect to the Milky Way we propose the galactic plane passage gas purging scenario for the chemical evolution of this cluster. Our model addresses the formation and properties of the bMS population (including their central location in the cluster). We follow our model descriptively through four passage events, which could explain not only some key properties of the bMS, but also of the MS-a/RGB-a and the s-enriched stars.Comment: Accepted for publication in ApJ. 10 figures, 5 tables, 21 page

    University Reporter Issue 4

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    Alaska Methodist University Back in Business By: Jim Kelly (2) Readers/Writers By: Unknown (2) Students Speak Out: By: Unknown (2) Editorial Educational Alternatives By: Unknown (2) No One’s In Charge By: Bill Parker (3) Surviving As a Public Servant By: Gene Johnson (3) More Than 2500 UAA Students Benefit A Guide To Financial Aid By: Unknown (4) Glossary – The Language of Financial Aid By: Unknown (5) The Myth of Objectivity By: Unknown (6) Recommended Readings By: Unknown (7) LAO TZU And TAI CHI CHUAN Oriental Guide To Eternal Youth BY; Frank Marino (8) Local Doctor Says Good Health Is Simpler Than You Think A Naturopath’s Perspective By: Doris M. Williams (9) Good Food at Good Prices How To Start A Food Co-op By: Unknown (10) Free of Charge Open Door Clinic Serves Community By: Jim Kelly (10) Knowles Says ‘Deck Stacked’ in Unification Report Anchorage Government Reviewed By: Tony Knowles (11) Student Challenges Professional Medical Establishment Health care For People Not Profit By: Megan Andersen (12) Women Alive! By: Sue Drew (14) Hormone Cycles By: Unknown (14) One Proud Homeowner’s Story Anchorage Tipi Dwellers Live Close To The Land By: Jim Ellis (15) A Meditation For Survival By: Nirvair Singh Gibbs (17) ACC Teacher & Student Tackle Mt. McKinley By: Unknown (17) True Cheating By: Barbara Jackson (17) The Student Ombudsman Tell It To Ray BY: Ray Huard (18) Theatre Is a Better Way of Living Than Living Is By: Kim DeLong (18) Visual Arts Center Asks For Help By: Unknown (19) Academy Award Winner, Hearts and Minds, To Show On Campus By: Unknown (19) Majors’ to be offered Alaska Methodist University By: Unknown (20) The Mission Of AMU By: Unknown (21) Simple Guide TO Earthquake Survival By: Unknown (21) Could you be a nuclear expert? By: Unknown (21) Corrections (22) Foreign Students Must Work Hard to Survive By: Unknown (22) The Print Switchboard (23) Community Calendar (24

    The Long-Baseline Neutrino Experiment: Exploring Fundamental Symmetries of the Universe

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    The preponderance of matter over antimatter in the early Universe, the dynamics of the supernova bursts that produced the heavy elements necessary for life and whether protons eventually decay --- these mysteries at the forefront of particle physics and astrophysics are key to understanding the early evolution of our Universe, its current state and its eventual fate. The Long-Baseline Neutrino Experiment (LBNE) represents an extensively developed plan for a world-class experiment dedicated to addressing these questions. LBNE is conceived around three central components: (1) a new, high-intensity neutrino source generated from a megawatt-class proton accelerator at Fermi National Accelerator Laboratory, (2) a near neutrino detector just downstream of the source, and (3) a massive liquid argon time-projection chamber deployed as a far detector deep underground at the Sanford Underground Research Facility. This facility, located at the site of the former Homestake Mine in Lead, South Dakota, is approximately 1,300 km from the neutrino source at Fermilab -- a distance (baseline) that delivers optimal sensitivity to neutrino charge-parity symmetry violation and mass ordering effects. This ambitious yet cost-effective design incorporates scalability and flexibility and can accommodate a variety of upgrades and contributions. With its exceptional combination of experimental configuration, technical capabilities, and potential for transformative discoveries, LBNE promises to be a vital facility for the field of particle physics worldwide, providing physicists from around the globe with opportunities to collaborate in a twenty to thirty year program of exciting science. In this document we provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess.Comment: Major update of previous version. This is the reference document for LBNE science program and current status. Chapters 1, 3, and 9 provide a comprehensive overview of LBNE's scientific objectives, its place in the landscape of neutrino physics worldwide, the technologies it will incorporate and the capabilities it will possess. 288 pages, 116 figure

    The IASLC Lung Cancer Staging Project: A Renewed Call to Participation

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    Over the past two decades, the International Association for the Study of Lung Cancer (IASLC) Staging Project has been a steady source of evidence-based recommendations for the TNM classification for lung cancer published by the Union for International Cancer Control and the American Joint Committee on Cancer. The Staging and Prognostic Factors Committee of the IASLC is now issuing a call for participation in the next phase of the project, which is designed to inform the ninth edition of the TNM classification for lung cancer. Following the case recruitment model for the eighth edition database, volunteer site participants are asked to submit data on patients whose lung cancer was diagnosed between January 1, 2011, and December 31, 2019, to the project by means of a secure, electronic data capture system provided by Cancer Research And Biostatistics in Seattle, Washington. Alternatively, participants may transfer existing data sets. The continued success of the IASLC Staging Project in achieving its objectives will depend on the extent of international participation, the degree to which cases are entered directly into the electronic data capture system, and how closely externally submitted cases conform to the data elements for the project

    Search for dark matter produced in association with bottom or top quarks in √s = 13 TeV pp collisions with the ATLAS detector

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    A search for weakly interacting massive particle dark matter produced in association with bottom or top quarks is presented. Final states containing third-generation quarks and miss- ing transverse momentum are considered. The analysis uses 36.1 fb−1 of proton–proton collision data recorded by the ATLAS experiment at √s = 13 TeV in 2015 and 2016. No significant excess of events above the estimated backgrounds is observed. The results are in- terpreted in the framework of simplified models of spin-0 dark-matter mediators. For colour- neutral spin-0 mediators produced in association with top quarks and decaying into a pair of dark-matter particles, mediator masses below 50 GeV are excluded assuming a dark-matter candidate mass of 1 GeV and unitary couplings. For scalar and pseudoscalar mediators produced in association with bottom quarks, the search sets limits on the production cross- section of 300 times the predicted rate for mediators with masses between 10 and 50 GeV and assuming a dark-matter mass of 1 GeV and unitary coupling. Constraints on colour- charged scalar simplified models are also presented. Assuming a dark-matter particle mass of 35 GeV, mediator particles with mass below 1.1 TeV are excluded for couplings yielding a dark-matter relic density consistent with measurements

    ATLAS Run 1 searches for direct pair production of third-generation squarks at the Large Hadron Collider

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