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Sample GSM2052439 Query DataSets for GSM2052439
Status Public on Feb 02, 2019
Title miR-508/508/509/514 mimics mixure, 1
Sample type SRA
 
Source name miR-508/508/509/514 mimics mixure
Organism Homo sapiens
Characteristics cell type: human colorectal cancer cells
cell line: HCT116
Treatment protocol The adenovirus against human miR-508/508/509/514 mimics and miR-508 mimics were introduced into the HCT116 colorectal cells, while nonspecific microRNA virus was used as negative controls.
Growth protocol The human colorectal cancer cells HCT116 were cultured in RPMI-1640 medium (Gibco, USA) supplemented with 10 % fetal bovine serum at 37 °C in an atmosphere of 5 % CO2.
Extracted molecule total RNA
Extraction protocol total RNA of HCT116 cells with different treatment was harvested using Trizol reagent. Illumina TruSeq RNA Sample Prep Kit (Cat#FC-122-1001) was used with 1 ug of total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
 
Description HCT116_microRNA_mixure_genes.fpkm_tracking
M1
Data processing Reads were mapped to the human genome (hg19) using TopHat v2.0.11 (http://tophat.cbcb.umd.edu) with the following default options with a TopHat transcript index built from Ensembl_GRCh37. Transcript expression was estimated with an improved version of Cuffdiff2 (http://cufflinks.cbcb.umd.edu). Cuffdiff was run with the default options against the UCSC iGenomes GTF file from Illumina (available at http://cufflinks.cbcb.umd.edu/igenomes.html).
Genome_build: Ensembl_GRCh37(hg19)
Supplementary_files_format_and_content: HCT116_microRNA_mixure_genes.fpkm_tracking
Supplementary_files_format_and_content: miR-508_genes.fpkm_tracking
 
Submission date Feb 02, 2016
Last update date May 15, 2019
Contact name Haoyan Chen
Organization name Renji Hospital
Street address 145 Shandong Road
City Shanghai
State/province Shanghai
ZIP/Postal code 200001
Country China
 
Platform ID GPL21290
Series (1)
GSE77462 Searching for target genes of miR-508/509/506/514 in HCT116 cells
Relations
BioSample SAMN04452404
SRA SRX1557053

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

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