Journal of Proteomics & Bioinformatics
Open Access

Min-Sik Kim

Publications

• Research Article
  Prediction of Gene Activity in Early B Cell Development Based on an Integrative Multi-Omics Analysis
  Author(s): Mohammad Heydarian, Teresa Romeo Luperchio, Jevon Cutler, Christopher J. Mitchell, Min-Sik Kim, Akhilesh Pandey, Barbara Sollner-Webb and Karen Reddy Mohammad Heydarian, Teresa Romeo Luperchio, Jevon Cutler, Christopher J. Mitchell, Min-Sik Kim, Akhilesh Pandey, Barbara Sollner-Webb and Karen Reddy
  
  An increasingly common method for predicting gene activity is genome-wide chromatin immuno-precipitation of ‘active’ chromatin modifications followed by massively parallel sequencing (ChIP-seq). In order to understand better the relationship between developmentally regulated chromatin landscapes and regulation of early B cell development, we determined how differentially active promoter regions were able predict relative RNA and protein levels at the pre-pro-B and pro-B stages. Herein, we describe a novel ChIP-seq quantification method (cRPKM) to identify active promoters and a multi-omics approach that compares promoter chromatin status with ongoing active transcription (GRO-seq), steady state mRNA (RNA-seq), inferred mRNA stability, and relative proteome abundance measurements (iTRAQ). We demonstrate that active chromatin modifications at promoters are good indicators of.. View More»
  DOI: 10.4172/jpb.1000302

  Abstract PDF

Relevant Topics