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Sample GSM2053740 Query DataSets for GSM2053740
Status Public on Mar 17, 2016
Title Sample_AH-28 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-28
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
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
BioSample SAMN04455058
SRA SRX1558827

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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