|
Status |
Public on Dec 03, 2012 |
Title |
germ cell tumor A11 |
Sample type |
SRA |
|
|
Source name |
Brain
|
Organism |
Homo sapiens |
Characteristics |
source tissue: Brain tissue: germ cell tumor
|
Treatment protocol |
Study cases were retrieved from the surgical pathology file of the Department of Pathology and Laboratory Medicine, Taipei Veterans General Hospital, Taiwan. Patients in this study had provided informed consent, and all procedures were approved by the Institutional Review Board of Taipei Veterans General Hospital. Fresh tumor tissues removed during surgery were snap frozen and kept in liquid nitrogen for RNA extraction.
|
Extracted molecule |
total RNA |
Extraction protocol |
TruSeq Small RNA Sample Prep Kit (Cat# RS-200-0012) was used with 1 ug of total RNA for the construction of sequencing libraries.
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
size fractionation |
Instrument model |
Illumina Genome Analyzer II |
|
|
Data processing |
3’ adaptors of the FASTQ raw data were trimmed, and trimmed data were collapsed by the FASTX toolkit (http://hannonlab.cshl.edu/fastx_toolkit). For all datasets, reads that shorter than 17 nt or longer than 30 nt were filtered out. Genome_build: hg19 Supplementary_files_format_and_content: RPKM value of mature miRNA across 34 samples
|
|
|
Submission date |
Aug 02, 2012 |
Last update date |
May 15, 2019 |
Contact name |
wei-chung cheng |
E-mail(s) |
d928503@oz.nthu.edu.tw
|
Organization name |
NTHU
|
Street address |
adqwerqr ew
|
City |
hsinchu |
ZIP/Postal code |
300 |
Country |
Taiwan |
|
|
Platform ID |
GPL9115 |
Series (1) |
GSE39841 |
YM500: An integrative small RNA sequencing (smRNA-seq) database for microRNA research |
|
Relations |
SRA |
SRX173116 |
BioSample |
SAMN01096842 |