{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["2(8)"],"submitter":["Yadav RP"],"pubmed_abstract":["In basic and translational cancer research, the majority of biopsies are stored in formalin-fixed paraffin-embedded (FFPE) samples. Chromatin accessibility reflects the degree to which nuclear macromolecules can physically interact with chromatinized DNA and plays a key role in gene regulation in different physiological conditions. As such, the profiling of chromatin accessibility in archived FFPE tissue can be critical to understanding gene regulation in health and disease. Due to the high degree of DNA damage in FFPE samples, accurate mapping of chromatin accessibility in these specimens is extremely difficult. To address this issue, we recently established FFPE-ATAC, a highly sensitive method based on T7-Tn5-mediated transposition followed by in vitro transcription (IVT), to generate hi"],"journal":["Current protocols"],"pagination":["e535"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12016458"],"repository":["biostudies-literature"],"pubmed_title":["FFPE-ATAC: A Highly Sensitive Method for Profiling Chromatin Accessibility in Formalin-Fixed Paraffin-Embedded Samples."],"pmcid":["PMC12016458"],"pubmed_authors":["Polavarapu VK","Yadav RP","Chen X","Xing P"],"additional_accession":[]},"is_claimable":false,"name":"FFPE-ATAC: A Highly Sensitive Method for Profiling Chromatin Accessibility in Formalin-Fixed Paraffin-Embedded Samples.","description":"In basic and translational cancer research, the majority of biopsies are stored in formalin-fixed paraffin-embedded (FFPE) samples. Chromatin accessibility reflects the degree to which nuclear macromolecules can physically interact with chromatinized DNA and plays a key role in gene regulation in different physiological conditions. As such, the profiling of chromatin accessibility in archived FFPE tissue can be critical to understanding gene regulation in health and disease. Due to the high degree of DNA damage in FFPE samples, accurate mapping of chromatin accessibility in these specimens is extremely difficult. To address this issue, we recently established FFPE-ATAC, a highly sensitive method based on T7-Tn5-mediated transposition followed by in vitro transcription (IVT), to generate hi","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Aug","modification":"2025-07-02T03:05:44.897Z","creation":"2025-07-02T03:05:44.897Z"},"accession":"S-EPMC12016458","cross_references":{"pubmed":["35994571"],"doi":["10.1002/cpz1.535"]}}