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GEO help: Mouse over screen elements for information. |
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| Status |
Public on Sep 27, 2024 |
| Title |
Single Nucleus RNAseq dissection of choroid plexus tumor cell heterogeneity |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
To examine the cellular and transcriptional heterogeneity of choroid plexus tumors we determined the single nucleus transcriptomes of 23,906 nuclei from normal choroid plexus and choroid plexus tumors. The resulting cellular atlas profiles cellular and transcriptional heterogeneity, copy number alterations, and cell-cell interaction networks in normal and cancerous choroid plexus. We observe changes in choroid plexus tumor epithelial cell gene transcription that correlate with genome wide methylation profiles. In addition, we characterize tumor-grade-specific tumor microenvironments that include altered macrophage and mesenchymal cell states, as well as changes in extracellular matrix components.
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| Overall design |
Nuclei were isolated from fresh frozen samples of disease free human choroid plexus and human choroid plexus tumors and analyzed by snRNAseq.
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| Contributor(s) |
Hill AD, Patrizi A |
| Citation missing |
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| Submission date |
Apr 16, 2024 |
| Last update date |
Sep 28, 2024 |
| Contact name |
Anthony Hill |
| E-mail(s) |
tonyh@alumni.stanford.org
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| Organization name |
German Cancer Research Center (DKFZ)
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| Department |
Schaller Research Group
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| Lab |
Neuronal Signaling and Morphogenesis
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| Street address |
Im Neuenheimer Feld 280
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| City |
Heidelberg |
| State/province |
Baden-Württemberg |
| ZIP/Postal code |
69120 |
| Country |
Germany |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (15)
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| GSM8213048 |
choroid plexus, normal, sample 4 |
| GSM8213049 |
choroid plexus tumor, aCPP, sample 1 |
| GSM8213050 |
choroid plexus tumor, aCPP, sample 2 |
| GSM8213051 |
choroid plexus tumor, CPP, sample 1 |
| GSM8213052 |
choroid plexus tumor, CPP, sample 2 |
| GSM8213053 |
choroid plexus tumor, CPP, sample 3 |
| GSM8213054 |
choroid plexus tumor, CPP, sample 4 |
| GSM8213055 |
choroid plexus tumor, CPC, sample 1 |
| GSM8213056 |
choroid plexus tumor, CPC, sample 2 |
| GSM8213057 |
choroid plexus tumor, CPC, sample 3 |
| GSM8213058 |
choroid plexus tumor, CPC, sample 4 |
| GSM8213059 |
choroid plexus tumor, CPC, sample 5 |
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| Relations |
| BioProject |
PRJNA1101064 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE264154_RAW.tar |
814.9 Mb |
(http)(custom) |
TAR (of MTX, TSV) |
SRA Run Selector |
| Raw data are available in SRA |
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