GEO DataSets

(Submitter supplied) The most widely used method for detecting genome-wide protein-DNA interactions is chromatin immunoprecipitation on tiling microarrays, commonly known as ChIP-chip. Here, we conducted the first objective analysis of tiling array platforms, amplification procedures, and signal detection algorithms in a simulated ChIP-chip experiment. Mixtures of human genomic DNA and "spike-ins" comprised of nearly 100 human sequences at various concentrations were hybridized to four tiling array platforms by eight independent groups. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

6 related Platforms

47 Samples

Download data: CEL, GFF, PAIR, TXT

(Submitter supplied) The most widely used method for detecting genome-wide protein-DNA interactions is chromatin immunoprecipitation on tiling microarrays, commonly known as ChIP-chip. Here, we conducted the first objective analysis of tiling array platforms, amplification procedures, and signal detection algorithms in a simulated ChIP-chip experiment. Mixtures of human genomic DNA and "spike-ins" comprised of nearly 100 human sequences at various concentrations were hybridized to four tiling array platforms by eight independent groups. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL6129

18 Samples

Download data: BAR, CEL

(Submitter supplied) For data analysis of the associated Samples, we calculated MAT scores based on the hyridization intensity data of the probes within 500bp windows. The coordinate column in the Platform data table represents the chromosome coordinates for the 500bp window center positions. The supplementary files (linked below) also report the 500bp window start and end positions (and also sequence of 500bp unit region for used for analysis). more...

Organism:

Homo sapiens

6 Series

33 Samples

Download data: TXT