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| Status |
Public on Aug 04, 2022 |
| Title |
TOP1cc-seq assay in human cancer cells |
| Organism |
Homo sapiens |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
|
| Summary |
TOP1cc-seq assay was performed for the quantitative detection of the transient DNA-protein covalent interactions upon acute stimulations.
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| |
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| Overall design |
MCF7 cells were maintained at 37°C and 5% CO2 in Dulbecco's modified Eagle's medium (DMEM, GIBCO/Invitrogen), supplemented with 10% fetal bovine serum (FBS, GIBCO/Invitrogen). LNCAP cells were maintained at 37°C and 5% CO2 in Advanced RPMI 1640 medium (GIBCO/Invitrogen), supplemented with 10% fetal bovine serum (FBS, GIBCO/Invitrogen).
For hormone treatments, cells were incubated at 37°C and 5% CO2 for at least 3 days in phenol red-free DMEM (GIBCO/Invitrogen) supplemented with 5% charcoal dextran-stripped FBS (GIBCO/Invitrogen). 17-β-Estradiol (E2; Steraloids, Inc.) was added to a final concentration of 100 nM. TNFalpha (R&D systems) was added to a final concentration of 20 ng/ml. 5α-dihydrotestosterone (DHT, Sigma) was added to a final concentration of 100 nM. The ethanol (EtOH) vehicle control was 0.05% in all samples.
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| |
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| Contributor(s) |
Tan Y |
| Citation(s) |
36747093 |
| |
| Submission date |
Aug 12, 2019 |
| Last update date |
Jun 01, 2023 |
| Contact name |
Yuliang Tan |
| E-mail(s) |
yut020@ucsd.edu
|
| Organization name |
University of California, San Diego
|
| Department |
School of Medicine
|
| Street address |
Room 345, CMM West, 9500 Gilman Drive, Mail Code 0648
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92037-0648 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
|
| Samples (9)
|
| GSM4026946 |
Top1cc-seq_E2_0min_CPT_10min_MCF7_exp1 |
| GSM4026947 |
Top1cc-seq_E2_0min_CPT_10min_MCF7_exp2 |
| GSM4026948 |
Top1cc-seq_E2_10min_CPT_10min_MCF7_exp1 |
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| This SubSeries is part of SuperSeries: |
| GSE135808 |
Topoisomerase 1 Nicking-dependent HP1gamma Engagement Mediates Acute Activation of Phase-separated Enhancers |
|
| Relations |
| BioProject |
PRJNA559858 |
| SRA |
SRP218133 |
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