title: Network analysis of transcription factors for nuclear reprogramming into induced pluripotent stem cell using bioinformatics.
abstract: OBJECTIVE
  Research related to induce pluripotent stem (iPS) cell generation has increased rapidly in recent years. Six transcription factors, namely OCT4, SOX2, C-MYC, KLF4, NANOG, and LIN28 have been widely used for iPS cell generation. As there is a lack of data on intra- and inter-networking among these six different transcription factors, the objective of this study is to analyze the intra- and inter-networks between them using bioinformatics.
  
  
  METHODS
  In this computational biology study, we used AminoNet, MATLAB to examine networking between the six different transcription factors. The directed network was constructed using MATLAB programming and the distance between nodes was estimated using a phylogram. The protein-protein interactions between the nuclear reprogramming factors was performed using the software STRING.
  
  
  RESULTS
  The relationship between C-MYC and NANOG was depicted using a phylogenetic tree and the sequence analysis showed OCT4, C-MYC, NANOG, and SOX2 together share a common evolutionary origin.
  
  
  CONCLUSIONS
  This study has shown an innovative rapid method for the analysis of intra and inter-networking among nuclear reprogramming factors. Data presented may aid researchers to understand the complex regulatory networks involving iPS cell generation.
authors.affiliation: 1.Department of Bio-Informatics, School of Computer and Information Sciences, Galgotias University, Greater Noida, India.
authors.forename: Chiranjib
authors.initials: C
authors.lastname: Chakraborty
authors.affiliation: 2.School of Computing Science and Engineering, VIT University, Vellore, India.
authors.forename: Sanjiban
authors.initials: S
authors.lastname: S Roy
authors.affiliation: 3.Department of Biological Sciences, National Sun Yat-Sen University, Kaohsiung, Taiwan.
authors.forename: Minna
authors.initials: M
authors.lastname: J Hsu
authors.affiliation: 4.College of Pharmacy and Health Care, Tajen University, Yanpu, Taiwan.
authors.forename: Govindasamy
authors.initials: G
authors.lastname: Agoramoorthy
keywords: Computational Biology; Gene Network; Nuclear Reprogramming; Transcription Factors