Circulating miRNA Spaceflight Signature Reveals Targets for Countermeasure Development

[1]  R. Mewaldt,et al.  Galactic cosmic ray composition and energy spectra. , 1994, Advances in Space Research.

[2]  R T Turner,et al.  The skeletal effects of spaceflight in growing rats: Tissue‐specific alterations in mrna levels for TGF‐β , 1995, Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research.

[3]  R. Globus,et al.  Hindlimb unloading of growing rats: a model for predicting skeletal changes during space flight. , 1998, Bone.

[4]  Thomas J. Goodwin,et al.  Microgravity culture reduces apoptosis and increases the differentiation of a human colorectal carcinoma cell line , 2000, In Vitro Cellular & Developmental Biology - Animal.

[5]  Kathryn E. Crosier,et al.  THE SMAD PROTEINS AND TGFβ SIGNALLING: UNCOVERING A PATHWAY CRITICAL IN CANCER , 2001, Pathology.

[6]  P. Shannon,et al.  Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.

[7]  D. McCloskey,et al.  Chronic corticosterone affects brain weight, and mitochondrial, but not glial volume fraction in hippocampal area CA3 , 2004, Neuroscience.

[8]  Lawrence W Townsend,et al.  Implications of the space radiation environment for human exploration in deep space. , 2005, Radiation protection dosimetry.

[9]  N. Rajewsky,et al.  Silencing of microRNAs in vivo with ‘antagomirs’ , 2005, Nature.

[10]  J. Herman,et al.  Chronic stress induces adrenal hyperplasia and hypertrophy in a subregion-specific manner. , 2006, American journal of physiology. Endocrinology and metabolism.

[11]  A. Rudensky,et al.  Cellular mechanisms of fatal early-onset autoimmunity in mice with the T cell-specific targeting of transforming growth factor-beta receptor. , 2006, Immunity.

[12]  Geoffrey E. Hinton,et al.  Visualizing Data using t-SNE , 2008 .

[13]  Hadley Wickham,et al.  ggplot2 - Elegant Graphics for Data Analysis (2nd Edition) , 2017 .

[14]  James B. Mitchell,et al.  Ionizing Radiation-Induced Oxidative Stress Alters miRNA Expression , 2009, PloS one.

[15]  Janan T Eppig,et al.  The mammalian phenotype ontology: enabling robust annotation and comparative analysis , 2009, Wiley interdisciplinary reviews. Systems biology and medicine.

[16]  Louis S Stodieck,et al.  Effects of spaceflight on innate immune function and antioxidant gene expression. , 2009, Journal of applied physiology.

[17]  C. Bokemeyer,et al.  TGF-β Superfamily Receptors—Targets for Antiangiogenic Therapy? , 2010, Journal of oncology.

[18]  Kohei Miyazono,et al.  Cellular context‐dependent “colors” of transforming growth factor‐β signaling , 2010, Cancer science.

[19]  Leigh-Ann MacFarlane,et al.  MicroRNA: Biogenesis, Function and Role in Cancer , 2010, Current genomics.

[20]  Larry A Kramer,et al.  Optic disc edema, globe flattening, choroidal folds, and hyperopic shifts observed in astronauts after long-duration space flight. , 2011, Ophthalmology.

[21]  P. Grabham,et al.  Effects of Ionizing Radiation on Three-Dimensional Human Vessel Models: Differential Effects According to Radiation Quality and Cellular Development , 2011, Radiation research.

[22]  Clarence Sams,et al.  Monocyte phenotype and cytokine production profiles are dysregulated by short-duration spaceflight. , 2011, Aviation, space, and environmental medicine.

[23]  C. Emanueli,et al.  MicroRNA-503 and the Extended MicroRNA-16 Family in Angiogenesis , 2011, Trends in cardiovascular medicine.

[24]  L. Smilenov,et al.  Proton radiation-induced miRNA signatures in mouse blood: Characterization and comparison with 56Fe-ion and gamma radiation , 2012, International journal of radiation biology.

[25]  Sebastian D. Mackowiak,et al.  miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades , 2011, Nucleic acids research.

[26]  M. Ishida,et al.  miRNA-Based Therapeutic Strategies , 2013, Current Pathobiology Reports.

[27]  L. Hunyady,et al.  Crosstalk between TGF-β signaling and the microRNA machinery. , 2012, Trends in pharmacological sciences.

[28]  Ivo Grosse,et al.  Functional microRNA targets in protein coding sequences , 2012, Bioinform..

[29]  Martin Reczko,et al.  DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows , 2013, Nucleic Acids Res..

[30]  T. Blondal,et al.  Assessing sample and miRNA profile quality in serum and plasma or other biofluids. , 2013, Methods.

[31]  Bernhard Mlecnik,et al.  CluePedia Cytoscape plugin: pathway insights using integrated experimental and in silico data , 2013, Bioinform..

[32]  Christopher M. Hindson,et al.  Absolute quantification by droplet digital PCR versus analog real-time PCR , 2013, Nature Methods.

[33]  Egle Cekanaviciute,et al.  Astrocytic transforming growth factor‐beta signaling reduces subacute neuroinflammation after stroke in mice , 2014, Glia.

[34]  C. Romualdi,et al.  Integration Analysis of MicroRNA and mRNA Expression Profiles in Human Peripheral Blood Lymphocytes Cultured in Modeled Microgravity , 2014, BioMed research international.

[35]  O. Eiken,et al.  Expression changes in human skeletal muscle miRNAs following 10 days of bed rest in young healthy males , 2014, Acta physiologica.

[36]  R. Tibshirani,et al.  Generalized Additive Models , 1986 .

[37]  Russell Bowler,et al.  The multiMiR R package and database: integration of microRNA–target interactions along with their disease and drug associations , 2014, Nucleic acids research.

[38]  P. Linsley,et al.  MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data , 2015, Genome Biology.

[39]  S. Wood,et al.  Smoothing Parameter and Model Selection for General Smooth Models , 2015, 1511.03864.

[40]  Millie Hughes-Fulford,et al.  Spaceflight alters expression of microRNA during T‐cell activation , 2011, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[41]  P. Szodoray,et al.  The role of microRNAs in the pathogenesis of autoimmune diseases. , 2016, Autoimmunity reviews.

[42]  P. Guida,et al.  Short-Term Effects of Low-LET Radiation on the Endothelial Barrier: Uncoupling of PECAM-1 and the Production of Endothelial Microparticles , 2016, Radiation Research.

[43]  I. Mekjavic,et al.  PlanHab (Planetary Habitat Simulation): the combined and separate effects of 21 days bed rest and hypoxic confinement on human skeletal muscle miRNA expression , 2016, Physiological reports.

[44]  L. Stodieck,et al.  Transient gene and microRNA expression profile changes of confluent human fibroblast cells in spaceflight , 2016, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[45]  Tingming Liang,et al.  miRNA and mRNA expression analysis reveals potential sex-biased miRNA expression , 2017, Scientific Reports.

[46]  F. Peyrin,et al.  One-month spaceflight compromises the bone microstructure, tissue-level mechanical properties, osteocyte survival and lacunae volume in mature mice skeletons , 2017, Scientific Reports.

[47]  Louis S Stodieck,et al.  Is spaceflight-induced immune dysfunction linked to systemic changes in metabolism? , 2017, PloS one.

[48]  Hong Zhang,et al.  A Circulating microRNA Signature Predicts Age-Based Development of Lymphoma , 2017, PloS one.

[49]  M. Gariboldi,et al.  A methodological procedure for evaluating the impact of hemolysis on circulating microRNAs. , 2017, Oncology letters.

[50]  B. Nakstad,et al.  Anti-Inflammatory MicroRNAs and Their Potential for Inflammatory Diseases Treatment , 2018, Front. Immunol..

[51]  C. M. Milder,et al.  Radiation Exposure and Mortality from Cardiovascular Disease and Cancer in Early NASA Astronauts , 2018, Scientific Reports.

[52]  Afshin Beheshti,et al.  A microRNA signature and TGF-β1 response were identified as the key master regulators for spaceflight response , 2018, PloS one.

[53]  Jinpeng He,et al.  Serum microRNA as noninvasive indicator for space radiation , 2018, Acta Astronautica.

[54]  Jing Zhang,et al.  RBiomirGS: an all-in-one miRNA gene set analysis solution featuring target mRNA mapping and expression profile integration , 2018, PeerJ.

[55]  H. Verheul,et al.  Evaluation of several methodological challenges in circulating miRNA qPCR studies in patients with head and neck cancer , 2018, Experimental & Molecular Medicine.

[56]  Clarence Sams,et al.  Mechanistic Clues to Overcome Spaceflight-Induced Immune Dysregulation , 2018, Current Pathobiology Reports.

[57]  M. Bouxsein,et al.  A novel partial gravity ground-based analog for rats via quadrupedal unloading. , 2018, Journal of applied physiology.

[58]  X. Estivill,et al.  miRTrace reveals the organismal origins of microRNA sequencing data , 2018, Genome Biology.

[59]  Kevin R. Moon,et al.  Recovering Gene Interactions from Single-Cell Data Using Data Diffusion , 2018, Cell.

[60]  A. V. van Zonneveld,et al.  Gender and cardiovascular disease: are sex-biased microRNA networks a driving force behind heart failure with preserved ejection fraction in women? , 2018, Cardiovascular research.

[61]  Wenhua Zhu,et al.  Interpreting the MicroRNA-15/107 family: interaction identification by combining network based and experiment supported approach , 2019, BMC Medical Genetics.

[62]  Francine E. Garrett-Bakelman,et al.  The NASA Twins Study: A multidimensional analysis of a year-long human spaceflight , 2019, Science.

[63]  Paul J. Hoffman,et al.  Comprehensive Integration of Single-Cell Data , 2018, Cell.

[64]  A. Schreurs,et al.  Influence of Social Isolation During Prolonged Simulated Weightlessness by Hindlimb Unloading , 2019, Front. Physiol..

[65]  A. Domanskyi,et al.  Interplay between MicroRNAs and Oxidative Stress in Neurodegenerative Diseases , 2019, International journal of molecular sciences.

[66]  Chao Xiao,et al.  Differences of microRNA expression profiles between monozygotic twins' blood samples. , 2019, Forensic science international. Genetics.

[67]  Ana Kozomara,et al.  miRBase: from microRNA sequences to function , 2018, Nucleic Acids Res..

[68]  M. Bouxsein,et al.  Negative Effects of Long-duration Spaceflight on Paraspinal Muscle Morphology. , 2019, Spine.

[69]  Kai Zhang,et al.  SnapATAC: A Comprehensive Analysis Package for Single Cell ATAC-seq , 2019, bioRxiv.

[70]  Steven Laureys,et al.  Alterations of Functional Brain Connectivity After Long-Duration Spaceflight as Revealed by fMRI , 2019, Front. Physiol..

[71]  B. Ren,et al.  Fast and Accurate Clustering of Single Cell Epigenomes Reveals Cis-Regulatory Elements in Rare Cell Types , 2019 .

[72]  Jack Miller,et al.  GeneLab Database Analyses Suggest Long-Term Impact of Space Radiation on the Cardiovascular System by the Activation of FYN Through Reactive Oxygen Species , 2019, International journal of molecular sciences.

[73]  Skeletal Muscle Atrophy in Simulated Microgravity Might Be Triggered by Immune-Related microRNAs , 2019, Front. Physiol..

[74]  E. Petretto,et al.  miR-15a/-16 Inhibit Angiogenesis by Targeting the Tie2 Coding Sequence: Therapeutic Potential of a miR-15a/16 Decoy System in Limb Ischemia , 2019, Molecular therapy. Nucleic acids.

[75]  P. Cerretelli,et al.  Recovery from 6-month spaceflight at the International Space Station: muscle-related stress into a proinflammatory setting , 2019, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.

[76]  Shreejit Padmanabhan,et al.  Behavior of mice aboard the International Space Station , 2019, Scientific Reports.

[77]  Francine E. Garrett-Bakelman,et al.  Cell-free DNA (cfDNA) and Exosome Profiling from a Year-Long Human Spaceflight Reveals Circulating Biomarkers , 2020, iScience.

[78]  L. Simonsen,et al.  NASA’s first ground-based Galactic Cosmic Ray Simulator: Enabling a new era in space radiobiology research , 2020, PLoS biology.

[79]  LET-Dependent Low Dose and Synergistic Inhibition of Human Angiogenesis by Charged Particles: Validation of miRNAs that Drive Inhibition , 2020, iScience.

[80]  Scott M Smith,et al.  Beyond Low-Earth Orbit: Characterizing Immune and microRNA Differentials following Simulated Deep Spaceflight Conditions in Mice , 2020, iScience.

[81]  C. Vanderburg,et al.  MicroRNAs (miRNAs), the Final Frontier: The Hidden Master Regulators Impacting Biological Response in All Organisms Due to Spaceflight , 2020 .

[82]  J. Xia,et al.  miRNet 2.0: network-based visual analytics for miRNA functional analysis and systems biology , 2020, Nucleic Acids Res..

[83]  E. Hovig,et al.  MirGeneDB 2.0: the metazoan microRNA complement , 2019, bioRxiv.

[84]  Francine E. Garrett-Bakelman,et al.  Multi-omic, Single-Cell, and Biochemical Profiles of Astronauts Guide Pharmacological Strategies for Returning to Gravity , 2020, Cell Reports.