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Series GSE222637 Query DataSets for GSE222637
Status Public on Jan 11, 2023
Title Chemical-Induced Phase Transition and Global Conformational Reorganization of Chromatin [Hi-C]
Organism Homo sapiens
Experiment type Other
Summary Chemicals or drugs were demonstrated to accumulate within biomolecule condensates formed through phase separation in cells. Here, we employed super-resolution imaging to search for chemicals that induce phase transition of chromatin at the microscale. We found that adriamycin (doxorubicin), a widely-used chemotherapeutic drug against malignancies, is able to induce local condensation and global conformational change of chromatin in cancer and primary cells. Hi-C and ATAC-seq experiments demonstrated that adriamycin-induced chromatin condensation is accompanied by weakened chromatin interaction within topologically-associated domains, compartment A/B switching, lower chromatin accessibility, and corresponding transcriptomic changes. Mechanistically, adriamycin complexes with histone H1 and induces the phase transition of H1, forming fibrous aggregates in vitro. Our results reveal a new action mechanism of an anti-cancer drug discovered for decades, demonstrate the link between the physical properties of chromatin and gene expression, and suggest that interactions between drugs and biomolecules could exert profound effects on cells.
Overall design Comparative chromatin feature analysis of HiC data for U2OS cells treated with no treatment or treatment with adriamycin
Contributor(s) Shi S, Wang T, Bian Q, Lin C
Citation(s) 37689690
Submission date Jan 11, 2023
Last update date Dec 01, 2023
Contact name Qinying Ye
Organization name ShanghaiTech University
Street address Haike Road #230
City Shanghai
ZIP/Postal code 2000212
Country China
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (4)
GSM6928080 Hi-C_U2OS, no treatment, rep1
GSM6928081 Hi-C_U2OS, no treatment, rep2
GSM6928082 Hi-C_U2OS, treat with Adriamycin , rep1
BioProject PRJNA922925

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Supplementary file Size Download File type/resource 369.4 Mb (ftp)(http) COOL 312.2 Mb (ftp)(http) COOL
GSE222637_RAW.tar 768.8 Mb (http)(custom) TAR (of COOL)
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Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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