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Sample GSM3036924 Query DataSets for GSM3036924
Status Public on Mar 07, 2021
Title TBD0207_DMSO_1 (miRNA-seq)
Sample type SRA
 
Source name glioma
Organism Homo sapiens
Characteristics tissue: glioma tissue
tag: DMSO
Extracted molecule total RNA
Extraction protocol Tissue blocks were lysed in TRIzol reagent (Sigma-Aldrich). The lysate was well mixed with chloroform and spun for 15 min at 13000 g at 4 °C. RNA in top aqueous phase was collected and mixed with propan-2-ol to precipitate total RNA.
Samll RNA libraries were prepared for sequencing using BGISEQ-500 Small RNA-Seq Standard Library Prep Kit
 
Library strategy miRNA-Seq
Library source transcriptomic
Library selection size fractionation
Instrument model BGISEQ-500
 
Data processing Basecalls performed using BGISEQ-500 platform.
SOAPnuke was used to get the "clean reads".
Mapping clean reads to hg19 whole genome using AASRA.miRDeep2 predicted the novel miRNAs.
Bowtie2 was used to get the mapping ratio.
Trans Per Million (TPM) was calculated representing the expressive levels.
Genome_build: hg19
Supplementary_files_format_and_content: tab-delimited text files include fpkm values for each Sample ...
 
Submission date Mar 12, 2018
Last update date Mar 08, 2021
Contact name Jinquan Cai
E-mail(s) caijinquan666777@126.com
Organization name Harbin Medical University
Street address Xuefu Road
City Harbin
ZIP/Postal code 150086
Country China
 
Platform ID GPL23227
Series (2)
GSE111675 miRNA-seq of glioma patient tissues treated by DMSO or LY2109761
GSE111676 Mesenchymal glioblastoma constitutes a major ceRNA signature in the TGF-Beta pathway
Relations
BioSample SAMN08685785
SRA SRX3781649

Supplementary file Size Download File type/resource
GSM3036924_TBD0207_DMSO.expr.txt.gz 27.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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