Establishment of genome-wide analysis of post-translational modified proteins binding sites in mammalian cells

• Project/Area Number: 20710150
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Single-year Grants
• Research Field: 基礎ゲノム科学
• Research Institution: The Institute of Physical and Chemical Research
• Principal Investigator: KUBOSAKI Atsutaka The Institute of Physical and Chemical Research, LSAシステム構築ユニット, 研究員 (30425673)
• Project Period (FY): 2008 – 2009
• Project Status: Completed (Fiscal Year 2009)
• Budget Amount: ¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000); Fiscal Year 2009: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000); Fiscal Year 2008: ¥2,990,000 (Direct Cost: ¥2,300,000、Indirect Cost: ¥690,000)
• Keywords: ChIP-chip / 転写因子 / ユビキチン様蛋白質 / IRF8 / IFN刺激応答配列 / ISG15 / 翻訳後修飾 / 転写制御

Research Abstract

ISG15, an ubiquitin-like molecule, knockdown THP-1 myelomonocytic leukemia cells were induced cell death following PMA stimulation. ISG15 gene promoter region contains an interferon response element. Since interferon regulatory factor 8 (IRF8) is a transcription factor expressed predominantly in THP-1 cells, IRF8 was thought to play a role of gene regulation of ISG15. To find the functional direct target genes of IRF8, the gene expression profiles of siRNA knockdown samples and genome-wide binding locations by ChIP-chip were analyzed in THP-1 cells. Consequently, ISG15 and other 84 genes were identified as functional direct targets of IRF8.

Research Products

• [Journal Article] The combination of gene perturbation assay and ChIP-chip reveals functional direct target genes for IRF8 in THP-1 cells. (2010)
  • Author(s): Kubosaki, A., Lindgren, G., Tagami, M., Simon, C., Tomaru, Y., Miura, H., Suzuki, T., Arner, E., Forrest, A.R.R., Irvine, K.M., Schroder, K., Hasegawa, Y., Kanamori-Katayama, M., Rehli, M., Hume, D.A., Kawai, J., Suzuki, M., Suzuki, H., Hayashizaki, Y.
  • Journal Title: Mol Immunol (In press)
  • Peer Reviewed
• [Presentation] The combination of ChIP-chip and gene perturbation assay reveals high confidence target genes for ICSBP and PU.1 in THP-1 cells (2009)
  • Author(s): Kubosaki, A., Tagami, M., Tomaru, Y., Simon, C., Suzuki, M., Suzuki, H., Hayashizaki, Y
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: 横浜
  • Year and Date: 2009-12-12
• [Presentation] The combination of ChIP-chip and gene perturbation assay reveals high confidence target genes for ICSBP and PU. 1 in THP-1 cells. (2009)
  • Author(s): Kubosaki, A., Tagami, M., Tomaru, Y., Simon, C., Suzuki, M., Suzuki, H., Hayashizaki, Y
  • Organizer: The 32nd Annual Meeting of MBSJ
  • Place of Presentation: Yokohama, Kanagawa, Japan