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The objective of this study was to explore the role of differentially expressed glycogenes (DEGGs) in three major tissues such as brain, muscle, and liver using mouse RNA-seq data, and we identified 579, 501, and 442 DEGGs for brain versus liver (BvL579), brain versus muscle (BvM501), and liver versus muscle (LvM442) groups. DAVID functional analysis suggested inflammatory response, glycosaminoglycan metabolic process, and protein maturation as the enriched biological processes in BvL579, BvM501, and LvM442, respectively. These DEGGs were then used to construct three interaction networks by using GeneMANIA, from which we detected potential hub genes such as<jats:italic>PEMT<\/jats:italic>and<jats:italic>HPXN<\/jats:italic>(BvL579),<jats:italic>IGF2<\/jats:italic>and<jats:italic>NID2<\/jats:italic>(BvM501), and<jats:italic>STAT6<\/jats:italic>and<jats:italic>FLT1<\/jats:italic>(LvM442), having the highest degree. Additionally, our community analysis results suggest that the significance of immune system related processes in liver, glycosphingolipid metabolic processes in the development of brain, and the processes such as cell proliferation, adhesion, and growth are important for muscle development. Further studies are required to confirm the role of predicted hub genes as well as the significance of biological processes.<\/jats:p>","DOI":"10.1155\/2014\/837365","type":"journal-article","created":{"date-parts":[[2014,7,9]],"date-time":"2014-07-09T21:08:52Z","timestamp":1404940132000},"page":"1-18","source":"Crossref","is-referenced-by-count":5,"title":["Comparative Analysis of Glycogene Expression in Different Mouse Tissues Using RNA-Seq Data"],"prefix":"10.1155","volume":"2014","author":[{"ORCID":"https:\/\/orcid.org\/0000-0003-3395-8015","authenticated-orcid":true,"given":"Ahmad","family":"Firoz","sequence":"first","affiliation":[{"name":"School of Chemistry and Biochemistry, Thapar University, Patiala, Punjab 147004, India"},{"name":"Biomedical Informatics Center of ICMR, Post Graduate Institute of Medical Education and Research (PGIMER), Chandigarh 160012, 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