|
Status |
Public on Dec 05, 2018 |
Title |
Patient 21 tumor |
Sample type |
SRA |
|
|
Source name |
Recurrent glioblastoma
|
Organism |
Homo sapiens |
Characteristics |
therapy: adjuvant pembrolizumab
|
Extracted molecule |
total RNA |
Extraction protocol |
QIAGEN Rneasy Mini Kit without Dnase NUGEN mRNA PLUS kit (stranded)
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 3000 |
|
|
Description |
mRNA from fresh surgical samples
|
Data processing |
The reads are first mapped to Grch38 using HISAT2 Gene level raw read counts are quantified using htseq-count Ensemble ID to HUGO gene mapping using biomaRt R package Gene set enrichment analysis using GSVA R package Genome_build: GRCh38 Supplementary_files_format_and_content: Gene level raw count matrix
|
|
|
Submission date |
Oct 25, 2018 |
Last update date |
Dec 03, 2024 |
Contact name |
Willy Hugo |
E-mail(s) |
hwilly@mednet.ucla.edu
|
Organization name |
University of California, Los Angeles
|
Department |
Medicine
|
Street address |
10833 Le Conte Ave
|
City |
Los Angeles |
State/province |
California |
ZIP/Postal code |
90095 |
Country |
USA |
|
|
Platform ID |
GPL21290 |
Series (1) |
GSE121810 |
Neoadjuvant anti-PD-1 immunotherapy promotes a survival benefit with intratumoral and systemic immune responses in recurrent glioblastoma |
|
Relations |
BioSample |
SAMN10311454 |
SRA |
SRX4939051 |