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| Status |
Public on Jan 31, 2024 |
| Title |
Effect of PBX1 overexpression in PCM6 and MM1S myeloma cell lines |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Multiple Myeloma is an incurable plasma cell malignancy with a poor survival rate that is usually treated with immunomodulatory drugs (iMiDs) and proteosome inhibitors (PIs). The malignant plasma cells quickly become resistant to these agents causing relapse and uncontrolled growth of resistant clones. From whole genome sequencing (WGS) and RNA sequencing (RNA-seq) studies, different high-risk translocation, copy number, mutational, and transcriptional markers have been identified. One of these markers, PHF19, epigenetically regulates cell cycle and other processes and has already been studied using RNA-seq. In this study a massive (325,025 cells and 49 patients) single cell multiomic dataset was generated with jointly quantified ATAC- and RNA-seq for each cell and matched genomic profiles for each patient. We identified an association between one plasma cell subtype with myeloma progression that we have called relapsed/refractory plasma cells (RRPCs). These cells are associated with 1q alterations, TP53 mutations, and higher expression of PHF19. We also identified downstream regulation of cell cycle inhibitors in these cells, possible regulation of the transcription factor (TF) PBX1 on 1q, and determined that PHF19 may be acting primarily through this subset of cells.
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| Overall design |
To investigate the effect of PBX1 expression of PHF19 expression we performed and overexpression experiment in two myeloma cell lines. A vector was created to overexpress PBX1 and an empty vector was used as a control two replicates were used for each group.
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| Contributor(s) |
Robertson S, Becker N, Johnson T, Walker B |
| Citation(s) |
38755140 |
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| Submission date |
Jan 26, 2024 |
| Last update date |
May 31, 2024 |
| Contact name |
Brian Walker |
| E-mail(s) |
bw75@iu.edu
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| Organization name |
Indiana University
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| Department |
Medicine
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| Street address |
980 W Walnut St
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| City |
Indianapolis |
| State/province |
IN |
| ZIP/Postal code |
46202 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (8)
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| GSM8037502 |
MM1-S cells, empty vector, replicate 1 |
| GSM8037503 |
MM1-S cells, empty vector, replicate 2 |
| GSM8037504 |
MM1-S cells, PBX1 overexpression vector, replicate 1 |
| GSM8037505 |
MM1-S cells, PBX1 overexpression vector, replicate 2 |
| GSM8037506 |
PCM6 cells, empty vector, replicate 1 |
| GSM8037507 |
PCM6 cells, empty vector, replicate 2 |
| GSM8037508 |
PCM6 cells, PBX1 overexpression vector, replicate 1 |
| GSM8037509 |
PCM6 cells, PBX1 overexpression vector, replicate 2 |
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| Relations |
| BioProject |
PRJNA1069674 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE254307_raw_counts.txt.gz |
720.4 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
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