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| Status |
Public on Feb 18, 2021 |
| Title |
Next Generation Sequencing Quantitative Analysis of the transcriptomes of Wild Type and Mki67-/- MDA-mb231 (human breast adenocarcinoma) cell line |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: The goals of this study were to compare gene expression profiles of MDA-mb231 cell lines with intact or disrupted Mki67 gene.
Methods: mRNA profiles of wild-type (WT) and three Ki-67 knockout (Mki67−/−) clones in the MDA-mb231 cell line, were generated by deep sequencing using DNBSEQ-G50 in paired-end read mode, 100bp. The sequence reads that passed quality filters were aligned to the mouse genome, quantified, and differential gene expression (DGE) analysis was performed using DEseq2.
Results: Using an optimized data analysis workflow, we mapped about 30 million sequence reads per sample to the mouse genome (GRCh38) and identified differentially expressed genes. This revealed widespread changes in gene expression
Conclusions: Ki-67 knockout causes genome-scale transcriptome alterations
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| Overall design |
mRNA profiles of wild-type (WT) and three Ki-67 knockout (Mki67−/−) clones in the MDA-mb231 cell line, were generated by deep sequencing using DNBSEQ-G50 in paired-end read mode, 100bp.
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| Contributor(s) |
Sanchez Nuria A, Mrouj K, Dubra G, Krasinska L, Fisher D |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Dec 08, 2020 |
| Last update date |
Feb 22, 2021 |
| Contact name |
Daniel Fisher |
| E-mail(s) |
daniel.fisher@igmm.cnrs.fr
|
| Organization name |
CNRS
|
| Department |
IGMM
|
| Lab |
DFL
|
| Street address |
1919 Route de Mende
|
| City |
Montpellier |
| ZIP/Postal code |
34090 |
| Country |
France |
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| Platforms (1) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE163114 |
Ki-67 promotes carcinogenesis by enabling global transcriptional programmes |
|
| Relations |
| BioProject |
PRJNA683634 |
| SRA |
SRP297117 |
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