|
| Status |
Public on Mar 04, 2024 |
| Title |
Proteogenomic analysis reveals adaptive strategies to alleviate the consequences of aneuploidy in cancer |
| Organism |
Homo sapiens |
| Experiment type |
Genome variation profiling by array
Genome variation profiling by genome tiling array
|
| Summary |
Aneuploidy is prevalent in cancer, conferring fitness advantage, multidrug resistance, and poor prognosis. In contrast, experimentally induced aneuploidy often results in adverse effects and impaired proliferation. This paradox underscores the necessity of cancer cells to adapt to abnormal chromosome numbers. To identify molecular mechanisms of adaptation to aneuploidy, we initiated in vitro evolution of cells with extra chromosomes added via microcell-mediated chromosome transfer. To this end, we cultured cells in a nutrient-rich medium for 50 passages or plated the cells at a low density and selectively collected the largest colonies originating from a single cell (colony selection). The anaylsis of somatic copy number variations in the evolved cell lines was then carried out based on low-coverage whole genome sequencing (WGS) and array-based comparative genomic hybridization (aCGH).
|
| |
|
| Overall design |
Detection of copy number variations using genome-wide chromosomal genomic hybridization (CGH) analysis with aneuploid cell lines derived from HCT116 and RPE-1 cell lines before (passsage 0) and after in-vitro evolution (along their near-diploid parental counterparts) and with commercially available gDNAs as references.
|
| |
|
| Contributor(s) |
Boekenkamp J, Keuper K, Storchova Z, Stingele S |
| Citation missing |
Has this study been published? Please login to update or notify GEO. |
| Submission date |
Feb 02, 2024 |
| Last update date |
Mar 05, 2024 |
| Contact name |
Jan-Eric Boekenkamp |
| Organization name |
University of Kaiserslautern-Landau
|
| Department |
Molecular Genetics
|
| Street address |
Paul-Ehrlich-Strasse 24
|
| City |
Kaiserslautern |
| ZIP/Postal code |
67663 |
| Country |
Germany |
| |
|
| Platforms (2) |
| GPL5477 |
Agilent-014950 Human Genome CGH Microarray 4x44K (Feature Number version) |
| GPL10123 |
Agilent-022060 SurePrint G3 Human CGH Microarray 4x180K (Feature Number version) |
|
| Samples (13)
|
|
| Relations |
| BioProject |
PRJNA1072666 |
Less...
More...