Project description:Map the histone H3K9/14 acetylation regions of in human cells at 7 common fragile sites and their flanking non-fragile sequences as well as a 200kb containing the rare fragile site FRAXA, a 1,075kb non-fragile region on chr22, a hyperacetylated region HALPHA44, and a heterochromatic region HET405. The acetylated regions were mapped in untreated, aphidicolin(APH)-treated, trichostatin(TSA)-treated, and TSA plus APH-treated cells by combining the chromatin-immunoprecipitation with a tiled microarray platform (ChIP-chip).
Project description:Profiling of DAF-16 binding by comparison of DNA methylation of a C. elegans control strain expressing the DNA adenine methyltransferase (DAM) and an experimental strain expressing a DAF-16::DAM. Both strains were fed daf-2 RNAi to identify DAF-16 binding associated with long lived worms.
Project description:MBD-affinity purification (MAP) was employed to investigate the DNA methylation status at promoters of mouse embryonic fibroblasts (MEFs), both wild type and Lsh knock-out cells.<br>MAP is conceptually identical to ChIP, using an affinity column rather than an antibody.
Project description:Promoter DNA methylation in mouse ES cells (wild type and G9a knock-out) was assessed using an antibody against 5mC on fragmented genomic DNA and subsequent purification of the methylated DNA by affinity through a column containing the methyl-GpG binding domain of MeCP2 (MAP: methylation affinity purification). Purified DNA, enriched for methylated DNA was hybridised to promoter arrays in pairs input/MAP.
Project description:MafB and c-Maf deficient (Maf-DKO) or wt bone marrow cells were differentiated into macrophages by culture in DMEM/10%FCS supplemented with 20% M-CSF containing L-929 cell conditioned IMDM/0.5%FCS medium (LCM) with a half medium change on day 5 and then full medium changes every 4 days thereafter. RNA was extracted after 2 weeks in culture.
Project description:We used ChIP on chip assays to determine the genome wide distribution of a large set of PcG and trxG proteins, their associated histone marks and four candidate DNA-binding factors for PcG protein recruitment.
Project description:We used ChIP on chip assays to determine the genome wide distribution of a large set of PcG and trxG proteins, their associated histone marks and four candidate DNA-binding factors for PcG protein recruitment.
Project description:Genomic DNA from two normal lung cell lines (MRC5 and WI38) and two non-small cell lung carcinoma cell lines (H226 and H520) was fragmented, and affinity purified using the MBD domain from MeCP2, which binds to methylated CpG dinucleotides. This allows enrichment of a methylated fraction of DNA. Promoter arrays were used to look for methylated promoters by hybridising the enriched fraction and total genomic DNA simultaneously. The process is similar to ChIP-on-chip.