In particular, the use of DNA microarray methodology (ChIP-on-chip) allows for high-throughput analysis of thousands of genomic sequences simultaneously [ 3].
Although their study is very different than ours in the methodology followed (ChIP-chip vs. ChIP-seq) and the proteins targeted by the ChIP, comparing the two can be useful.
Differences in the experimental conditions (i.e. cells, antibody, drug treatment) and methodologies (ChIP-chip versus ChIP-PET) between the studies may account for the limited overlaps.
We present a new architecture level unified reliability evaluation methodology for chip multiprocessors (CMPs).
We have selected this regulon to validate our methodology for ChIP-seq data analysis.
We describe a robust, simple and scalable methodology for ChIP-seq of low-abundant cell populations, verified down to 10,000 cells.
This is the closest methodology to ChIP-seq, but its mapping precision is lower, and the dynamic range of the readout is significantly less.
To investigate if our methodology allows ChIP-seq on limited cell numbers, we transplanted a new cohort of mice with the leukemic strain also used in the above and FACS-isolated batches of 10,000 GMP-blasts.
In this study we attempted to determine all of the HSF binding sites in Drosophila melanogaster using ChIP-chip methodology on Drosophila genomic tiling arrays.
Furthermore, the question remains if our changes to the ChIP-Chip methodology decrease the dynamic range as suggested by Wade and colleagues and whether such a decrease is relevant to this discussion over the identification of false positives.
Follow-up experiments, using different times of development in combination with chromatin immuno-precipitation (chIP-chip) methodology will be needed to further understand the crucial function of ERK2 in mesendoderm development and determine specific target genes.
