Gene set analysis of transcriptomics data identifies new biological processes associated with early markers of atherosclerosis but not with those of osteoporosis: Atherosclerosis-osteoporosis co/multimorbidity study in the Young Finns Study.

[1]  Vijay Kumar Chattu,et al.  Future health spending forecast in leading emerging BRICS markets in 2030: health policy implications , 2021, Health Research Policy and Systems.

[2]  A. Sun,et al.  The effects of nicotinamide adenine dinucleotide in cardiovascular diseases: Molecular mechanisms, roles and therapeutic potential , 2021, Genes & diseases.

[3]  Sina A. Gharib,et al.  Large-scale cis- and trans-eQTL analyses identify thousands of genetic loci and polygenic scores that regulate blood gene expression , 2021, Nature Genetics.

[4]  Pashupati P. Mishra,et al.  Uncovering the shared lipidomic markers of subclinical osteoporosis-atherosclerosis comorbidity: The young Finns study. , 2021, Bone.

[5]  Joël M. H. Karel,et al.  Integrative multiomics analysis of human atherosclerosis reveals a serum response factor‐driven network associated with intraplaque hemorrhage , 2021, Clinical and translational medicine.

[6]  JJ. Liu,et al.  Association between outdoor particulate air pollution and the risk of osteoporosis: a systematic review and meta-analysis , 2021, Osteoporosis International.

[7]  Jun Liu,et al.  Reprogrammed intestinal functions in Astragalus polysaccharide-alleviated osteoporosis: combined analysis of transcriptomics and DNA methylomics demonstrates the significance of the gut-bone axis in treating osteoporosis. , 2021, Food & function.

[8]  P. Libby.  The changing landscape of atherosclerosis , 2021, Nature.

[9]  Pashupati P. Mishra,et al.  Modular genome-wide gene expression architecture shared by early traits of osteoporosis and atherosclerosis in the Young Finns Study , 2021, Scientific Reports.

[10]  J. Tarbell,et al.  The role of oxygen transport in atherosclerosis and vascular disease , 2020, Journal of the Royal Society Interface.

[11]  Pashupati P. Mishra,et al.  Lipidomic architecture shared by subclinical markers of osteoporosis and atherosclerosis: The Cardiovascular Risk in Young Finns Study. , 2019, Bone.

[12]  Ralf Zimmer,et al.  Toward a gold standard for benchmarking gene set enrichment analysis , 2019, bioRxiv.

[13]  W. Lems,et al.  Common mechanisms and holistic care in atherosclerosis and osteoporosis , 2019, Arthritis Research & Therapy.

[14]  C. Cooper,et al.  Executive summary of European guidance for the diagnosis and management of osteoporosis in postmenopausal women , 2019, Aging Clinical and Experimental Research.

[15]  Feng Chen,et al.  Development and validation of an immune gene-set based Prognostic signature in ovarian cancer , 2018, EBioMedicine.

[16]  Dongfeng Zhang,et al.  Association between Serum Copper and Serum Lipids in Adults , 2018, Annals of Nutrition and Metabolism.

[17]  J. DiNicolantonio,et al.  Copper deficiency may be a leading cause of ischaemic heart disease , 2018, Open Heart.

[18]  N. Timpson,et al.  Evaluation of the causal effects between subjective wellbeing and cardiometabolic health: mendelian randomisation study , 2018, British Medical Journal.

[19]  Chao Xu,et al.  Transcriptomic Data Identified Key Transcription Factors for Osteoporosis in Caucasian Women , 2018, Calcified Tissue International.

[20]  Tianyi Liu,et al.  Antioxidants Maintain Cellular Redox Homeostasis by Elimination of Reactive Oxygen Species , 2017, Cellular Physiology and Biochemistry.

[21]  Eugenia G. Giannopoulou,et al.  Hypoxia‐Sensitive COMMD1 Integrates Signaling and Cellular Metabolism in Human Macrophages and Suppresses Osteoclastogenesis , 2017, Immunity.

[22]  K. Vandenbroeck,et al.  RNAseq based transcriptomics study of SMCs from carotid atherosclerotic plaque: BMP2 and IDs proteins are crucial regulators of plaque stability , 2017, Scientific Reports.

[23]  M. Brandi,et al.  Oxidative stress in bone remodeling: role of antioxidants. , 2017, Clinical cases in mineral and bone metabolism : the official journal of the Italian Society of Osteoporosis, Mineral Metabolism, and Skeletal Diseases.

[24]  Liisa Holm,et al.  Robust multi-group gene set analysis with few replicates , 2016, BMC Bioinformatics.

[25]  Alan M. Kwong,et al.  Next-generation genotype imputation service and methods , 2016, Nature Genetics.

[26]  H. Kurihara,et al.  The “Cardiac Neural Crest” Concept Revisited , 2016 .

[27]  J. Mesirov,et al.  The Molecular Signatures Database Hallmark Gene Set Collection , 2015 .

[28]  M. Kerachian,et al.  Role of apoptosis in pathogenesis and treatment of bone-related diseases , 2015, Journal of Orthopaedic Surgery and Research.

[29]  Matthew E. Ritchie,et al.  limma powers differential expression analyses for RNA-sequencing and microarray studies , 2015, Nucleic acids research.

[30]  Carson C Chow,et al.  Second-generation PLINK: rising to the challenge of larger and richer datasets , 2014, GigaScience.

[31]  Liisa Holm,et al.  Gene set analysis: limitations in popular existing methods and proposed improvements , 2014, Bioinform..

[32]  Teemu Koivistoinen,et al.  Association of Physical Activity in Childhood and Early Adulthood With Carotid Artery Elasticity 21 Years Later: The Cardiovascular Risk in Young Finns Study , 2014, Journal of the American Heart Association.

[33]  J. Bilezikian,et al.  New Clues that May Link Osteoporosis to the Circulating Lipid Profile , 2013, Bone Research.

[34]  Jae-Hyuck Shim,et al.  Osteoimmunology: A Brief Introduction , 2013, Immune network.

[35]  N. Yurgin,et al.  Cost Effectiveness of Denosumab versus Oral Bisphosphonates for Postmenopausal Osteoporosis in the US , 2013, Applied Health Economics and Health Policy.

[36]  Michal Sheffer,et al.  Pathway-based personalized analysis of cancer , 2013, Proceedings of the National Academy of Sciences.

[37]  S. Lutsenko,et al.  The Role of Copper as a Modifier of Lipid Metabolism , 2013 .

[38]  A. Tedgui,et al.  Apoptotic cell death and efferocytosis in atherosclerosis. , 2012, Arteriosclerosis, thrombosis, and vascular biology.

[39]  W. Lems,et al.  (Sub)clinical cardiovascular disease is associated with increased bone loss and fracture risk; a systematic review of the association between cardiovascular disease and osteoporosis , 2011, Arthritis research & therapy.

[40]  M. Kirby,et al.  Factors controlling cardiac neural crest cell migration , 2010, Cell adhesion & migration.

[41]  T. Lehtimäki,et al.  Determinants of bone strength and fracture incidence in adult Finns: Cardiovascular Risk in Young Finns Study (the GENDI pQCT study) , 2010 .

[42]  Di Wu,et al.  ROAST: rotation gene set tests for complex microarray experiments , 2010, Bioinform..

[43]  A. Flanagan,et al.  Hypoxia stimulates osteoclast formation from human peripheral blood , 2010, Cell biochemistry and function.

[44]  Xiangding Chen,et al.  Gene Expression Profiling in Monocytes and SNP Association Suggest the Importance of the Gene for Osteoporosis in Both Chinese and Caucasians , 2009, Journal of bone and mineral research : the official journal of the American Society for Bone and Mineral Research.

[45]  T. Kondo,et al.  Roles of oxidative stress and redox regulation in atherosclerosis. , 2009, Journal of atherosclerosis and thrombosis.

[46]  T. Laitinen,et al.  Alcohol consumption is directly associated with carotid intima-media thickness in Finnish young adults: the Cardiovascular Risk in Young Finns Study. , 2009, Atherosclerosis.

[47]  Risto Telama,et al.  Cohort profile: the cardiovascular risk in Young Finns Study. , 2008, International journal of epidemiology.

[48]  J. Cauley,et al.  The link between osteoporosis and cardiovascular disease. , 2008, Clinical cases in mineral and bone metabolism : the official journal of the Italian Society of Osteoporosis, Mineral Metabolism, and Skeletal Diseases.

[49]  P. Kannus,et al.  Age-Related Decline in Trabecular and Cortical Density: A 5-Year Peripheral Quantitative Computed Tomography Follow-Up Study of Pre- and Postmenopausal Women , 2007, Calcified Tissue International.

[50]  Peter Bühlmann,et al.  Analyzing gene expression data in terms of gene sets: methodological issues , 2007, Bioinform..

[51]  J. Davis.  Bioinformatics and Computational Biology Solutions Using R and Bioconductor , 2007 .

[52]  Pablo Tamayo,et al.  Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles , 2005, Proceedings of the National Academy of Sciences of the United States of America.

[53]  Øyvind Langsrud,et al.  Rotation tests , 2005, Stat. Comput..

[54]  M. Bond,et al.  Distribution and Cross-Sectional Age-Related Increases of Carotid Artery Intima-Media Thickness in Young Adults: The Bogalusa Heart Study , 2004, Stroke.

[55]  T. Speed,et al.  GOstat: find statistically overrepresented Gene Ontologies within a group of genes. , 2004, Bioinformatics.

[56]  J. M. Guralnik,et al.  Aging bone in men and women: beyond changes in bone mineral density , 2003, Osteoporosis International.

[57]  E. Ford.  Serum copper concentration and coronary heart disease among US adults. , 2000, American journal of epidemiology.

[58]  M. Ashburner,et al.  Gene Ontology: tool for the unification of biology , 2000, Nature Genetics.

[59]  Hiroyuki Ogata,et al.  KEGG: Kyoto Encyclopedia of Genes and Genomes , 1999, Nucleic Acids Res..