Dataset features

Specifications


Dataset type: Genome binding/occupancy profiling by high throughput sequencing
Number of samples: 6
Release date: Nov 20 2018
Last update date: Nov 27 2018
Access: Public
Diseases: Neoplasms, Carcinoma, Ductal, Breast
Chemicals: Formaldehyde, Paraffin
Dataset link Enhanced PAT-ChIP (EPAT-ChIP), a new procedure for reliable genome-wide studies in clinical FFPE tissues

Experimental Protocol


Our newly designed method EPAT-ChIP was compared with standard PAT-ChIP for validation. Both methods were applied in parallel to the genome-wide study of the low abundant histone mark H3K4me3, known to be associated with active gene promoters, in an archival IBC sample. Then, the comparison between standard PAT-ChIP and EPAT-ChIP was extended to other functionally different histone marks, such as H3K27ac, known to be associated with active promoters and enhancers, and H3K27me3, which characterizes silenced genomic regions.

Repositories


GEO

GSE117752

ENA

SRP155423

BioProject

PRJNA483066

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Contact


Stefano Amatori