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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 10, 2023 |
| Title |
NFE2L2 mutations enhance radioresistance in head and neck cancer by modulating intratumoral myeloid cells |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To identify the mechanism by which Nrf2E79Q mediates RT resistance and CB-839 overcomes RT resistance in Nrf2E79Q, we performed RNA sequencing of SAS cells stably expressing either Nrf2WT or Nrf2E79Q treated with RT±CB-839 and analyze the differentially expressed genes in Nrf2E79Q vs. Nrf2WT cells.
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| Overall design |
Nrf2WT or Nrf2E79Q SAS cells were pretreated with 0.1μM CB-839 or vehicle for 24 hours, then irradiated (4 Gy). RT was performed as previously described(14) using a 225kVp cabinet x-ray irradiator filtered with 0.5 mm Cu (IC-250, Kimtron Inc.). Thus 4 groups were created, including Nrf2WT+RT, Nrf2E79Q+RT, Nrf2WT+RT+CB-839, Nrf2E79Q+RT+CB-839. All the experiments were performed in triplicate, generating a total of 12 samples. Next, RNA was isolated using Trizol (Catalog# 15596026, Invitrogen) 24 hours after RT. Library preparation and RNA sequencing were performed by Novogene via Illumina platforms based on mechanism of SBS (Sequencing by synthesis).
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| Contributor(s) |
Guan L |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Jan 11, 2023 |
| Last update date |
Mar 10, 2023 |
| Contact name |
Li Guan |
| Organization name |
Stanford University, Radiation Oncology
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| Street address |
269 Campus dr, CCSR, Room 1230
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| City |
Stanford |
| State/province |
California |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (1) |
| GPL20301 |
Illumina HiSeq 4000 (Homo sapiens) |
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| Samples (24)
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| GSM6928399 |
SAS-Nrf2E79Q, Control, rep1 |
| GSM6928400 |
SAS-Nrf2E79Q, Control, rep2 |
| GSM6928401 |
SAS-Nrf2E79Q, Control, rep3 |
| GSM6928402 |
SAS WT cells, CB-839, rep1 |
| GSM6928403 |
SAS WT cells, CB-839, rep2 |
| GSM6928404 |
SAS WT cells, CB-839, rep3 |
| GSM6928405 |
SAS-Nrf2E79Q, CB-839, rep1 |
| GSM6928406 |
SAS-Nrf2E79Q, CB-839, rep2 |
| GSM6928407 |
SAS-Nrf2E79Q, CB-839, rep3 |
| GSM6928408 |
SAS WT cells, RT, rep1 |
| GSM6928409 |
SAS WT cells, RT, rep2 |
| GSM6928410 |
SAS WT cells, RT, rep3 |
| GSM6928411 |
SAS-Nrf2E79Q, RT, rep1 |
| GSM6928412 |
SAS-Nrf2E79Q, RT, rep2 |
| GSM6928413 |
SAS-Nrf2E79Q, RT, rep3 |
| GSM6928414 |
SAS WT cells, RT+CB-839, rep1 |
| GSM6928415 |
SAS WT cells, RT+CB-839, rep2 |
| GSM6928416 |
SAS WT cells, RT+CB-839, rep3 |
| GSM6928417 |
SAS-Nrf2E79Q, RT+CB-839, rep1 |
| GSM6928418 |
SAS-Nrf2E79Q, RT+CB-839, rep2 |
| GSM6928419 |
SAS-Nrf2E79Q, RT+CB-839, rep3 |
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| Relations |
| BioProject |
PRJNA922975 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE222658_raw_count.txt.gz |
2.8 Mb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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