RNAi profiling by array of human Ewings carcinoma cells to down regulate EWS-FLI1

ABSTRACT: We report here the DNA-binding profiles for all human and mouse ETS factors, which we generated using two different methods: a high-throughput microwell-based transcription factor DNA-binding specificity assay, and protein binding microarrays (PBMs). Both approaches reveal that the ETS binding profiles cluster into four distinct classes, and that all ETS factors linked to cancer, ERG, ETV1, ETV4 and FLI1, fall into just one of these classes. We identify amino acid residues that are critical for the differences in specificity between all the classes, and confirm the specificities in vivo using chromatin immunoprecipitation followed by sequencing (ChIP-seq) for a member of each class. To determine whether the ChIP-seq peaks were near genes regulated by the respective ETS-factors, we used RNA

ORGANISM(S): Homo sapiens

SUBMITTER: Gong-Hong Wei 

PROVIDER: E-MEXP-2759 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress