 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Sep 20, 2023 |
| Title |
Imaging and multi-omics datasets converge to define different neural progenitor origins for ATRT-SHH subgroups [DNAmeth_EPICarray] |
| Organism |
Homo sapiens |
| Experiment type |
Methylation profiling by genome tiling array
Third-party reanalysis
|
| 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.
|
| |
|
| Overall design |
DNA methylation array (EPIC) data from 54 primary ATRT samples already deposited in GEO dataset (GSE175892) were re-analysed in this study.
|
| |
|
| Contributor(s) |
Lobon-Iglesias MJ, Andrianteranagna M, Han Z, Masliah-Planchon J, Chauvin C, Servant N, Bourdeaut F |
| Citation(s) |
37863903 |
| |
| Submission date |
Aug 31, 2023 |
| Last update date |
Nov 09, 2023 |
| Contact name |
Mamy Jean de Dieu ANDRIANTERANAGNA |
| E-mail(s) |
mamy-jean-de-dieu.andrianteranagna@curie.fr
|
| Phone |
+33156246274
|
| Organization name |
Institut Curie
|
| Department |
Centre de Recherche
|
| Lab |
U900
|
| Street address |
26 rue d'Ulm
|
| City |
Paris |
| State/province |
Ile de France |
| ZIP/Postal code |
75005 |
| Country |
France |
| |
|
| Platforms (1) |
|
| Samples (24)
|
| GSM7748938 |
primary ATRT, ATRT05 |
| GSM7748939 |
primary ATRT, ATRT12 |
| GSM7748940 |
primary ATRT, ATRT14 |
| GSM7748941 |
primary ATRT, ATRT16 |
| GSM7748942 |
primary ATRT, ATRT18 |
| GSM7748943 |
primary ATRT, ATRT19 |
| GSM7748944 |
primary ATRT, ATRT20 |
| GSM7748945 |
primary ATRT, ATRT21 |
| GSM7748946 |
primary ATRT, ATRT22 |
| GSM7748947 |
primary ATRT, ATRT23 |
| GSM7748948 |
primary ATRT, ATRT24 |
| GSM7748949 |
primary ATRT, ATRT26 |
| GSM7748950 |
primary ATRT, ATRT27 |
| GSM7748951 |
primary ATRT, ATRT28 |
| GSM7748952 |
primary ATRT, ATRT29 |
| GSM7748953 |
primary ATRT, ATRT43 |
| GSM7748954 |
primary ATRT, ATRT45 |
| GSM7748955 |
primary ATRT, ATRT46 |
| GSM7748956 |
primary ATRT, ATRT47 |
| GSM7748957 |
primary ATRT, ATRT48 |
| GSM7748958 |
primary ATRT, ATRT51 |
|
| This SubSeries is part of SuperSeries: |
| GSE242090 |
Imaging and multi-omics datasets converge to define different neural progenitor origins for ATRT-SHH subgroups |
|
| Relations |
| Reanalysis of |
GSM5350849 |
| Reanalysis of |
GSM5350861 |
| Reanalysis of |
GSM5350840 |
| Reanalysis of |
GSM5350862 |
| Reanalysis of |
GSM5350850 |
| Reanalysis of |
GSM5350863 |
| Reanalysis of |
GSM5350864 |
| Reanalysis of |
GSM5350851 |
| Reanalysis of |
GSM5350842 |
| Reanalysis of |
GSM5350843 |
| Reanalysis of |
GSM5350837 |
| Reanalysis of |
GSM5350859 |
| Reanalysis of |
GSM5350839 |
| Reanalysis of |
GSM5350860 |
| Reanalysis of |
GSM5350841 |
| Reanalysis of |
GSM5350858 |
| Reanalysis of |
GSM5350836 |
| Reanalysis of |
GSM5350838 |
| Reanalysis of |
GSM5350835 |
| Reanalysis of |
GSM5350834 |
| Reanalysis of |
GSM5350852 |
| Reanalysis of |
GSM5350846 |
| Reanalysis of |
GSM5350845 |
| Reanalysis of |
GSM5350844 |
| Reanalysis of |
GSM5350865 |
| Reanalysis of |
GSM5350853 |
| Reanalysis of |
GSM5350854 |
| Reanalysis of |
GSM5350855 |
| Reanalysis of |
GSM5350856 |
| Reanalysis of |
GSM5350857 |
| BioProject |
PRJNA1011315 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE242089.txt.gz |
189 b |
(ftp)(http) |
TXT |
| GSE242089_LobonIglesias2023_Andrianteranagna2021_sampleIDs.csv.gz |
476 b |
(ftp)(http) |
CSV |
| GSE242089_LobonIglesias2023_bulkRNAseq_reanalysed_primaryATRT.csv.gz |
676 b |
(ftp)(http) |
CSV |
| GSE242089_RAW.tar |
499.3 Mb |
(http)(custom) |
TAR (of IDAT) |
| GSE242089_matrix_LobonIglesias2023_DNAmethylation_EPICarray_reanalysed_primaryATRT.csv.gz |
370.9 Mb |
(ftp)(http) |
CSV |
| Processed data provided as supplementary file |
| Processed data are available on Series record |
|
|
|
|
 |
Less...
More...