title: A hypothetical relationship between the nuclear reprogramming factors for induced pluripotent stem (iPS) cells generation--bioinformatic and algorithmic approach.
abstract: A hypothetical evolutionary relationship was generated between the nuclear reprogramming factors for induced pluripotent stem (iPS) cells generation. Utilizing bioinformatics techniques, sequence analyses and phylogenetic tree algorithms, a comparative study has been performed to understand the evolutionary relationship of human nuclear reprogramming factors of induced pluripotent stem cells (iPSCs) generation. Among the total six nuclear reprogramming factors, the four reprogramming factors (SOX2, C-MYC, KLF4, and LIN28) have significant evolutionary origin. Our study shows SOX2 and C-MYC have evolutionary relationship and common point of origin. Likewise, KLF4 and LIN28 are having evolutionary relationship and have common point of origin. Based on these evidences, we propose that our study may be a great help to the future researchers to understand the mechanism(s) as well as pathway of nuclear reprogramming process.
authors.affiliation: School of Computing Science and Engineering, VIT University, Vellore, India.
authors.forename: Sanjiban Sekhar
authors.initials: SS
authors.lastname: Roy
authors.forename: C H
authors.initials: CH
authors.lastname: Hsu
authors.forename: Z H
authors.initials: ZH
authors.lastname: Wen
authors.forename: C S
authors.initials: CS
authors.lastname: Lin
authors.forename: Chiranjib
authors.initials: C
authors.lastname: Chakraborty
mesh_terms: D000465:Algorithms; D065150:Cellular Reprogramming; D019295:Computational Biology; D019143:Evolution, Molecular; D018398:Homeodomain Proteins / Q000145:classification / Q000378:metabolism; D006801:Humans; D057026:Induced Pluripotent Stem Cells / Q000502:physiology*; D000090062:Kruppel-Like Factor 4; D051741:Kruppel-Like Transcription Factors / Q000145:classification / Q000378:metabolism; D000071317:Nanog Homeobox Protein; D050814:Octamer Transcription Factor-3 / Q000145:classification / Q000378:metabolism; D010802:Phylogeny; D016271:Proto-Oncogene Proteins c-myc / Q000145:classification / Q000378:metabolism; D016601:RNA-Binding Proteins / Q000145:classification / Q000378:metabolism; D055748:SOXB1 Transcription Factors / Q000145:classification / Q000378:metabolism; D014157:Transcription Factors / Q000145:classification* / Q000378:metabolism
chemical_list: D018398:Homeodomain Proteins; C000715467:KLF4 protein, human; D000090062:Kruppel-Like Factor 4; D051741:Kruppel-Like Transcription Factors; C000715187:Lin28A protein, human; C486780:NANOG protein, human; D000071317:Nanog Homeobox Protein; D050814:Octamer Transcription Factor-3; D016271:Proto-Oncogene Proteins c-myc; D016601:RNA-Binding Proteins; D055748:SOXB1 Transcription Factors; D014157:Transcription Factors