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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Mar 27, 2024 |
| Title |
Childhood cancer mutagenesis caused by a domesticated DNA transposase |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Induction of somatic oncogenic mutations by the domesticated DNA transposase PGBD5 in cerebellar progenitor cells promotes medulloblastoma development.
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| Overall design |
Medulloblastomas from Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+ (n=3) and Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/- (n=3) mice were collected and sequenced for single-cell Multiome. The tumor onset age (harvested age) varied from 94 to 239 days.
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| Contributor(s) |
Yamada M, Keller RR, Masilionis I, Chaligne R, Lopez Gutierrez R, Hébert S, Kleinman CL, Kentsis A |
| Citation(s) |
38517960 |
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| Submission date |
Dec 08, 2023 |
| Last update date |
Apr 11, 2024 |
| Contact name |
Claudia L Kleinman |
| E-mail(s) |
claudia.kleinman@mcgill.ca
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| Phone |
514-340-8222 25139
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| Organization name |
Lady Davis Institute for Medical Research
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| Department |
Human Genetics
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| Street address |
3999 Côte Ste-Catherine Road
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| City |
Montréal |
| State/province |
Québec |
| ZIP/Postal code |
H3T 1E2 |
| Country |
Canada |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (12)
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| GSM7964206 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/-, RNA, rep 1 |
| GSM7964207 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/-, RNA, rep 2 |
| GSM7964208 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+, RNA, rep 1 |
| GSM7964209 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+, RNA, rep 2 |
| GSM7964210 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/-, RNA, rep 3 |
| GSM7964211 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+, RNA, rep 3 |
| GSM7964212 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/-, ATAC, rep 1 |
| GSM7964213 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/-, ATAC, rep 2 |
| GSM7964214 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+, ATAC, rep 1 |
| GSM7964215 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+, ATAC, rep 2 |
| GSM7964216 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5-/-, ATAC, rep 3 |
| GSM7964217 |
Medulloblastoma, Ptf1a-Cre/+; Ptch1fl/fl; Pgbd5+/+, ATAC, rep 3 |
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| Relations |
| BioProject |
PRJNA1050329 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE249785_medullo_Pgbd5minus_rep1.Rds.gz |
1.5 Gb |
(ftp)(http) |
RDS |
| GSE249785_medullo_Pgbd5minus_rep2.Rds.gz |
1.3 Gb |
(ftp)(http) |
RDS |
| GSE249785_medullo_Pgbd5minus_rep3.Rds.gz |
1.0 Gb |
(ftp)(http) |
RDS |
| GSE249785_medullo_Pgbd5plus_rep1.Rds.gz |
1.3 Gb |
(ftp)(http) |
RDS |
| GSE249785_medullo_Pgbd5plus_rep2.Rds.gz |
1.4 Gb |
(ftp)(http) |
RDS |
| GSE249785_medullo_Pgbd5plus_rep3.Rds.gz |
1.1 Gb |
(ftp)(http) |
RDS |
SRA Run Selector |
| Raw data are available in SRA |
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