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| Status |
Public on Jul 02, 2024 |
| Title |
Gene expression profiling of CTCL patient-derived cell lines after GTSF1 knockdown |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
In CTCL, the ectopic expression of Gametocyte Specific Factor 1 (GTSF1) has emerged as a potential prognostic biomarker. High expression of GTSF1 has been associated with a worse overall prognosis for patients. However, the contribution of GTSF1 to CTCL carcinogenesis remains unknown. We performed a shRNA mediated silencing of GTSF1 in three cell lines representing the most common variants of CTCL: Mac2A, representative of primary cutaneous Anaplastic Large Cell Lymphoma; MyLa 2000, representative of Mycosis Fungoides; and SZ4, representative of Sézary Syndrome. The three cell lines showed different gene expression profiles, signaling the different clinical behaviors of each variant. In Mac2A, silencing of GTSF1 in CTCL led to T cell activation and production of IFNγ and TNFα. This suugests that GTSF1 contributes to carcinogenesis by partially modifying the effector-memory phenotype of the malignant T cells.
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| Overall design |
We transduced cell lines with lentiviral vectors. For each of the three cell lines we produced two conditions: (1) Non-silencing control (SCR) and (2) GTSF1 silencing (shGTSF1). Then, we performed RNA-Sequencing with three biological replicates for each condition and each cell line.
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| Contributor(s) |
Martinez Villarreal A, Bergeron D, Litvinov I |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
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| Submission date |
Jun 26, 2024 |
| Last update date |
Jul 02, 2024 |
| Contact name |
Amelia Martinez Villarreal |
| Organization name |
McGill University
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| Street address |
1001 Boulevard Decarie
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| City |
Montreal |
| State/province |
Quebec |
| ZIP/Postal code |
H4A 3J1 |
| Country |
Canada |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (18)
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| GSM8352622 |
Mac2A, shGTSF1, 1 |
| GSM8352623 |
Mac2A, shGTSF1, 2 |
| GSM8352624 |
Mac2A, shGTSF1, 3 |
| GSM8352625 |
MyLa, SCR, 1 |
| GSM8352626 |
MyLa, SCR, 2 |
| GSM8352627 |
MyLa, SCR, 3 |
| GSM8352628 |
MyLa, shGTSF1, 1 |
| GSM8352629 |
MyLa, shGTSF1, 2 |
| GSM8352630 |
MyLa, shGTSF1, 3 |
| GSM8352631 |
SZ4, SCR, 1 |
| GSM8352632 |
SZ4, SCR, 2 |
| GSM8352633 |
SZ4, SCR, 3 |
| GSM8352634 |
SZ4, shGTSF1, 1 |
| GSM8352635 |
SZ4, shGTSF1, 2 |
| GSM8352636 |
SZ4, shGTSF1, 3 |
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| Relations |
| BioProject |
PRJNA1128569 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE270818_est_counts_info.xlsx |
8.4 Mb |
(ftp)(http) |
XLSX |
| GSE270818_tpm_info.xlsx |
8.6 Mb |
(ftp)(http) |
XLSX |
SRA Run Selector |
| Raw data are available in SRA |
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