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| Status |
Public on Sep 20, 2023 |
| Title |
Imaging and multi-omics datasets converge to define different neural progenitor origins for ATRT-SHH subgroups [bulkRNAseq_mouseRT_R26] |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Atypical teratoid rhabdoid tumors (ATRT) are divided into MYC, TYR and SHH subgroups, suggesting diverse lineages of origin. Here, we investigate the imaging of human ATRT at diagnosisand the precise anatomic origin of brain tumors in the Rosa26; Cre-ERT2::Smarcb1flox/flox model. This cross-species analysis points to an extra-cerebral origin for MYC tumors. Additionally, we clearly distinguish SHH ATRT emerging from the cerebellar anterior lobe (CAL) from those emerging from the basal ganglia (BG) and intra-ventricular (IV) regions. Molecular characteristics point to the midbrain-hindbrain boundary as the origin of CAL SHH ATRT, and to the ganglionic eminence as the origin of BG/IV SHH ATRT. Single-cell RNA sequencing on SHH ATRT supports these hypotheses. Trajectory analyses suggest that SMARCB1 loss induces a de-differentiation process mediated by repressors of the neuronal program such as REST, ID and the NOTCH pathway.
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| Overall design |
16 primary RT samples from 16 different engineered Smarcb1fl/fl;R26-CreERT2 mouse (Han et al., 2016) were collected and analysed by RNA sequencing.
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| Contributor(s) |
Lobon-Iglesias MJ, Andrianteranagna M, Han Z, Bouarich R, Frah M, Turczynski S, Servant N, Bourdeaut F |
| Citation(s) |
37863903 |
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| Submission date |
Aug 25, 2023 |
| Last update date |
Nov 09, 2023 |
| Contact name |
Mamy Jean de Dieu ANDRIANTERANAGNA |
| E-mail(s) |
mamy-jean-de-dieu.andrianteranagna@curie.fr
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| Phone |
+33156246274
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| Organization name |
Institut Curie
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| Department |
Centre de Recherche
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| Lab |
U900
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| Street address |
26 rue d'Ulm
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| City |
Paris |
| State/province |
Ile de France |
| ZIP/Postal code |
75005 |
| Country |
France |
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| Platforms (1) |
| GPL24247 |
Illumina NovaSeq 6000 (Mus musculus) |
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| Samples (16)
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| GSM7734617 |
mouse, primary RT, 43987A |
| GSM7734618 |
mouse, primary RT, 43989C |
| GSM7734619 |
mouse, primary RT, 43990A |
| GSM7734620 |
mouse, primary RT, 43992A |
| GSM7734621 |
mouse, primary RT, 43998A |
| GSM7734622 |
mouse, primary RT, 29050A |
| GSM7734623 |
mouse, primary RT, 29941C |
| GSM7734624 |
mouse, primary RT, 29225D |
| GSM7734625 |
mouse, primary RT, R26P98 |
| GSM7734626 |
mouse, primary RT, R26P170 |
| GSM7734627 |
mouse, primary RT, R26P123 |
| GSM7734628 |
mouse, primary RT, R26P87 |
| GSM7734629 |
mouse, primary RT, R26P115 |
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| This SubSeries is part of SuperSeries: |
| GSE242090 |
Imaging and multi-omics datasets converge to define different neural progenitor origins for ATRT-SHH subgroups |
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| Relations |
| BioProject |
PRJNA1009427 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE241734_matrix_mouse_R26_primaryRT_RNAseq_TPM.txt.gz |
2.4 Mb |
(ftp)(http) |
TXT |
| GSE241734_matrix_mouse_R26_primaryRT_RNAseq_rawCounts.txt.gz |
653.3 Kb |
(ftp)(http) |
TXT |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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