|
| Status |
Public on Mar 17, 2016 |
| Title |
Sample_AH-14 Glioblastoma |
| Sample type |
SRA |
| |
|
| Source name |
brain
|
| Organism |
Homo sapiens |
| Characteristics |
tumor type: glioblastoma (Grade IV)
|
| Treatment protocol |
PolyA selection
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extract RNA using Qiagen Allprep DNA/RNA mini kit.
Tru-Seq RNA sample prep kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 3000 |
| |
|
| Description |
Glioblastoma tissue sample corresponding to Sample_AH-14
|
| Data processing |
Reads were aligned with BWA 0.5.7 to both refseq Ensembl64 transcriptome and hg19 genome.
Genome Analysis Toolkit (GATK) 2.8.1 was used to do base recalibration.
RNA-SeQC v1.1.7 was used to evaluate and report the sequencing quality and produce the fpkm gene expression values per sample.
Genome_build: hg19
Supplementary_files_format_and_content: Gene expression profiles (fpkm) for 32 individual samples were assembled into one plain tex file separated by tab in which rows for genes and columns for samples.
|
| |
|
| Submission date |
Feb 03, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Amy B Heimberger |
| E-mail(s) |
[email protected]
|
| Phone |
713-792-2400
|
| Organization name |
The University of Texas MD Anderson Cancer Center
|
| Department |
Neurosurgery
|
| Street address |
1400 Holcombe Blvd., FC7.2000
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
| |
|
| Platform ID |
GPL21290 |
| Series (1) |
| GSE77530 |
Gene expression in human glioblastoma specimens |
|
| Relations |
| BioSample |
SAMN04455042 |
| SRA |
SRX1558812 |
