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Series GSE134248 Query DataSets for GSE134248
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
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.
Overall design Total RNA was isolated from PDX samples belonging to different medulloblastoma subgroups for subsequent RNA-seq analysis.
Contributor(s) Joshi P, Perera R
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Submission date Jul 15, 2019
Last update date Dec 31, 2019
Contact name Piyush Joshi
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
Platforms (1)
GPL24676 Illumina NovaSeq 6000 (Homo sapiens)
Samples (12)
GSM3940438 BT084
GSM3940439 DMB006
GSM3940440 DMB012
BioProject PRJNA554564
SRA SRP214574

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Supplementary file Size Download File type/resource
GSE134248_pdxgc.csv.gz 999.2 Kb (ftp)(http) CSV
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