Extrachromosomal DNA-driven oncogene dosage heterogeneity determines therapy response in neuroblastoma

Characterization of ecDNA copy number-dependent plasticity of neuroblastoma patient-derived xenograft models. Data corresponds to single-cell G&T sequencing from an untreated neuroblastoma PDX and single-cell multiome ATAC + gene expression sequencing of a SHH medulloblastoma tumor.

Type: Cancer Genomics
Archiver: European Genome-Phenome Archive (EGA)

3 Datasets 1 Publication

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Dataset ID	Description	Technology	Samples
EGAD50000001513	Single-cell G&T seq from an untreated PDX mouse with neuroblastoma (MYCN amplified).	unspecified	96
EGAD50000001514	Single-cell G&T seq from an untreated PDX mouse with neuroblastoma (MYCN amplified).	unspecified	96
EGAD50000001515	The SHH medulloblastoma tumor 7316-178 was received through the Childhood Brain Tumor Network (CBTN). From the patient tumor, disassociated cryopreserved cells stored in 10% DMSO/FBS were used. At least 50 mg of tissue (1 M cells) was used for both samples. Disassociated cells were prepared for Single Cell Multiome ATAC + Gene Expression sequencing (10× Genomics) according to the manufacturer’s instructions. Sequencing was performed on an Illumina NovaSeq S4 200 to a depth of at least 250 M reads for snATAC-seq and 200 M reads for snRNA-seq.	Illumina NovaSeq 6000	30

Publications	Citations
Extrachromosomal DNA-Driven Oncogene Dosage Heterogeneity Promotes Rapid Adaptation to Therapy in MYCN-Amplified Cancers. Montuori G, Tu F, Qin D, Schmargon R, Rodriguez-Fos E, Helmsauer K, Hui H, Mandal S, Purshouse K, Fankhänel L, Bosco B, Spanjaard B, Seyboldt H, Grunewald L, Schmitt MJ, Gürgen D, Buck V, Rosenfeldt MT, Dubois FPB, Schallenberg S, Lehmann A, Theißen J, Taschner-Mandl S, Koch A, Hundsdoerfer P, Künkele A, Eggert A, Fischer M, Gargiulo G, Krieger TG, Chavez L, Coscia F, Werner B, Huang W, Henssen AG, Dörr JR. Cancer Discov 15: 2025 2054-2077	0

Publications

Citations

Extrachromosomal DNA-Driven Oncogene Dosage Heterogeneity Promotes Rapid Adaptation to Therapy in MYCN-Amplified Cancers.
Montuori G, Tu F, Qin D, Schmargon R, Rodriguez-Fos E, Helmsauer K, Hui H, Mandal S, Purshouse K, Fankhänel L, Bosco B, Spanjaard B, Seyboldt H, Grunewald L, Schmitt MJ, Gürgen D, Buck V, Rosenfeldt MT, Dubois FPB, Schallenberg S, Lehmann A, Theißen J, Taschner-Mandl S, Koch A, Hundsdoerfer P, Künkele A, Eggert A, Fischer M, Gargiulo G, Krieger TG, Chavez L, Coscia F, Werner B, Huang W, Henssen AG, Dörr JR. Cancer Discov 15: 2025 2054-2077