EXPERIMENT_TITLE: Dediferentiated liposarcoma H3K27ac HiChIP
STUDY_DESCRIPTOR_STUDY_ABSTRACT: We collected multiple liposarcoma samples from different patients, including different subtypes (DD, WD) and normal adipose tissue as control. This study provides the biggest liposarcoma cohort to date, and examined the molecular regulatory circuits associated with MDM2 overexpression. To this end, we obtained not only RNA-seq data, but also ChIP-seq from Jun, RUNX, MDM2, P53 and H3K27ac, as well as hiChIP from tumor samples and cell lines. We found that MDM2 binds to thousands of genes involved in cellular growth and stress response in a P53-independent manner. Furthermore, we described these active genes engaged in multi-way topological interactions that resemble transcriptional hubs.
SAMPLE_TITLE: Tumor DNA/RNA sample from retroperitoneum of a human participant in the dbGaP study "Supraphysiologic MDM2 Expression Impacts P53-Independent Chromatin Networks and Therapeutic Responses in Sarcoma"
SAMPLE_SAMPLE_ATTRIBUTES_SAMPLE_ATTRIBUTE: [{"TAG": "gap_accession", "VALUE": "phs003272"}, {"TAG": "submitter handle", "VALUE": "NCI_Liposarcoma_MDM2"}, {"TAG": "biospecimen repository", "VALUE": "NCI_Liposarcoma_MDM2"}, {"TAG": "study name", "VALUE": "Supraphysiologic MDM2 Expression Impacts P53-Independent Chromatin Networks and Therapeutic Responses in Sarcoma"}, {"TAG": "study design", "VALUE": "Collection"}, {"TAG": "biospecimen repository sample id", "VALUE": "10_DD"}, {"TAG": "submitted sample id", "VALUE": "10_DD"}, {"TAG": "submitted subject id", "VALUE": "10"}, {"TAG": "gap_sample_id", "VALUE": "5389779"}, {"TAG": "gap_subject_id", "VALUE": "4445501"}, {"TAG": "body site", "VALUE": "retroperitoneum"}, {"TAG": "histological type", "VALUE": "Liposarcoma"}, {"TAG": "analyte type", "VALUE": "DNA/RNA"}, {"TAG": "is tumor", "VALUE": "Yes"}, {"TAG": "gap_consent_code", "VALUE": "1"}, {"TAG": "gap_consent_short_name", "VALUE": "HMB-MDS"}]
Pool_Member_@attributes_sample_title: Tumor DNA/RNA sample from retroperitoneum of a human participant in the dbGaP study "Supraphysiologic MDM2 Expression Impacts P53-Independent Chromatin Networks and Therapeutic Responses in Sarcoma"
RUN_SET_RUN_Pool_Member_@attributes_sample_title: Tumor DNA/RNA sample from retroperitoneum of a human participant in the dbGaP study "Supraphysiologic MDM2 Expression Impacts P53-Independent Chromatin Networks and Therapeutic Responses in Sarcoma"