From: An evaluation of two-channel ChIP-on-chip and DNA methylation microarray normalization strategies
Dataset number | #1 | #2 | #3 | #4 | #5 |
---|---|---|---|---|---|
ArrayExpress ID | not registered | E-TABM-529 | E-GEOD-17581 | E-GEOD-24286 | E-GEOD-22831 |
Assay type | ChIP-on-chip | ChIP-on-chip | MeDIP-on-chip | MeDIP-on-chip | MeDIP-on-chip |
Microarray ID | NimbleGen Human HGS17 minimal promoter | NimbleGen Mouse Tiling 2006-07-17 MM8Tiling Set17 | NimbleGen Homo sapiens 385 K CGH array | NimbleGen mouse 385 K Refseq and miRNA promoter tiling (2-array set) | NimbleGen Nimblegen HD2 MM8 promoter deluxe array |
Species | Human | Mouse | Human | Mouse | Mouse |
Investigation | Identification of ER-α target genes in breast cancer cells | Identification of histone modification profiles in WT and Kcnq1ot1 | Methylome analysis of congenital ectopic thyroids | Mecp2-dependent regulation of MicroRNAs in Rett Syndrome | DNA methylation analysis in E3.5 blastocysts, E6.5 epiblasts and E9.5 whole embryos |
No of microarrays | 8 | 11 | 6 | 8 | 11 |
Microarray content | 3 stimulated by 17beta-estradiol 1 pool of the 3 stimulated 3 untreated 1 pool of the 3 untreated | 2 Kcnq1ot1 9 wild type Tissues are placenta or liver | 3 orthotopic thyroid 3 congenital ectopic thyroid | 2 KO using Mecp2 4 wild type using Mecp2 2 wild type using 5-methylcytosine | 2 E3.5 blastocysts 3 E6.5 epiblasts 3 E9.5 whole embryos 3 Control pooled unamplified MeDIPs in E9.5 embryos |
Microarrays used for this study | 3: 2 stimulated + the pool of stimulated | 4: H3K27me3 in wild-type placenta | 6: all | 8: all | 8: all except the pooled controls |
Data publication date | Article publication: 15/01/2010 PMID: 19698761 | 08/01/2008 | 27/10/2010 | 30/09/2010 | 01/11/2010 |