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| Status |
Public on Dec 31, 2019 |
| Title |
In silico analysis of long noncoding RNAs in medulloblastoma and its subgroups |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Medulloblastoma is the most common pediatric brain tumor exhibiting high malignancy and fatality rates. Recent large-scale patient studies utilizing genome wide technologies have put forth transcriptomic and epigenetic heterogenties among the medulloblastomas, classifying them into four major subgroups: WNT, SHH, group 3 and group 4. However, the contribution of long non-coding RNAs in medulloblastoma remains unknown. Long non-coding RNAs represent a crucial part of the regulatory transcriptome that has shown to control gene expression levels and protein interactions. The relative lack of understanding of long non-coding RNA in medulloblastoma is partly due to dearth of putative functional candidate long non-coding RNAs. From RNA-seq data beloning to 175 medulloblastoma patientswe identified a diagnostic and prognostic signature. We validated the diagnostic model in the PDX dervied from t samples beloning to SHH, group 3 and group 4 patients.
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| Overall design |
Total RNA was isolated from PDX samples belonging to different medulloblastoma subgroups for subsequent RNA-seq analysis.
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| Contributor(s) |
Joshi P, Perera R |
| Citation missing |
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| Submission date |
Jul 15, 2019 |
| Last update date |
Dec 31, 2019 |
| Contact name |
Piyush Joshi |
| E-mail(s) |
pjoshi15@jhu.edu
|
| Organization name |
Johns Hopkins University
|
| Department |
Oncolog/JHACH
|
| Lab |
Perera Lab/CBDI
|
| Street address |
600 5th St S
|
| City |
St. Petersburg |
| State/province |
FL |
| ZIP/Postal code |
33701 |
| Country |
USA |
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| Platforms (1) |
| GPL24676 |
Illumina NovaSeq 6000 (Homo sapiens) |
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| Samples (12)
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| Relations |
| BioProject |
PRJNA554564 |
| SRA |
SRP214574 |
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