Journal: Cell chemical biology

Article Title: MYC regulation of D2HGDH and L2HGDH influences the epigenome and epitranscriptome

doi: 10.1016/j.chembiol.2020.02.002

Figure Lengend Snippet: KEY RESOURCE TABLE

Article Snippet: Mouse monoclonal anti-5-hydroxymethylcytosine (Clone HMC31) , Cell Signaling Technology , Cat#51660, RRID:AB_2799398.

Techniques: Recombinant, Western Blot, Stripping, Activity Assay, Methylation, DNA Purification, Luciferase, Enzymatic Assay, Cell Isolation, shRNA, Plasmid Preparation, Software

Journal: Molecular nutrition & food research

Article Title: Butyrate inhibits indices of colorectal carcinogenesis via enhancing α-ketoglutarate-dependent DNA demethylation of mismatch repair genes

doi: 10.1002/mnfr.201700932

Figure Lengend Snippet: Caco-2 cells were transfected with isocitrate dehydrogenase 1 (IDH1) knock-down (KD) plasmid or IDH1 wild-type (WT) plasmid to downregulate (−) or over-express (+) IDH1. IDH1 KD cells then were treated with 0 (−) or 4 mM sodium butyrate (NaB, +), or 4 mM NaB supplemented with 0 (−) or 4 mM dimethyl-α-ketoglutarate (a membrane permeable α-ketoglutarate, α-KG, +). (A) Protein contents of IDH1 and cleaved PARP. (B) Protein contents of ten-eleven translocation 3 (TET3). (C) Protein contents of acetylated histone H3 (Ac-H3) and acetylated histone H4 (Ac-H4). (D) Protein contents of MutS homolog 2 (MSH2) and MutL homolog 1 (MLH1). (E) 5hmC and (F) 5mC modifications in the promoter of MSH2 and MLH1. Mean ± SEM, n = 3, *: P < 0.05; **: P < 0.01.

Article Snippet: Then, 1/50 5-hydroxymethylcytosine antibody (5hmC, Cell Signaling Technology), 5-methylcytosine antibody (5mC, Cell Signaling Technology), or normal rabbit IgG (Cell Signaling Technology) was added to denatured DNA.

Techniques: Transfection, Plasmid Preparation, Translocation Assay

Journal: Molecular nutrition & food research

Article Title: Butyrate inhibits indices of colorectal carcinogenesis via enhancing α-ketoglutarate-dependent DNA demethylation of mismatch repair genes

doi: 10.1002/mnfr.201700932

Figure Lengend Snippet: Cells were treated with 0 (□) or 4 mM sodium butyrate (NaB, ■) for 4 d. (A) Protein contents of acetylated histone H3 (Ac-H3), acetylated histone H4 (Ac-H4) and Ten-eleven translocation 3 (TET3). (B) Protein contents of MutS homolog 2 (MSH2) and MutL homolog 1 (MLH1). 5hmC and 5mC modifications in the promoter of MSH2 (C) and MLH1 (D). Mean ± SEM, n = 3, *: P < 0.05; **: P < 0.01.

Article Snippet: Then, 1/50 5-hydroxymethylcytosine antibody (5hmC, Cell Signaling Technology), 5-methylcytosine antibody (5mC, Cell Signaling Technology), or normal rabbit IgG (Cell Signaling Technology) was added to denatured DNA.

Techniques: Translocation Assay