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Sample GSM2190598 Query DataSets for GSM2190598
Status Public on Jul 07, 2016
Title A375_shIno80_day3_rep1
Sample type SRA
 
Source name A375_shIno80_day3
Organism Homo sapiens
Characteristics cell line: A375
cell type: melanoma cell line
transfected with: lenti-viral based shIno80
time point: 3 days after transfection
Treatment protocol Cells were infected with lenti-viral based shNT or shIno80, cells were harvested 2, 3, and 4 days after infection
Growth protocol A375 cells were maintained in 10% FBS DMEM
Extracted molecule total RNA
Extraction protocol Cells were harvested and total RNA was extracted by Thermo RNA kit
The sequencing library was generated by Truseq RNA sample preparation kit according to the instruction
Truseq RNA sample preparation kit V2
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NextSeq 500
 
Description Gene expression 3 days after transfection
Data processing Aligned with TopHat2 version 2.0.4 with the following parameters: -g 10
FPKM measurements obtained using CuffLinks version 2.0.2
Genome_build: hg19
Supplementary_files_format_and_content: FPKM: 1st column = RefSeq ID, 2nd column = fragments per kilobase of exon per million mapped reads (FPKM value)
 
Submission date Jun 07, 2016
Last update date May 15, 2019
Contact name Li Wang
Organization name NIH
Street address 111 T.W. Alexander Dr
City Durham
ZIP/Postal code 27709
Country USA
 
Platform ID GPL18573
Series (2)
GSE82333 INO80 governs super-enhancer-mediated oncogenic transcription and tumor growth in melanoma [RNA-seq]
GSE82334 INO80 governs super-enhancer-mediated oncogenic transcription and tumor growth in melanoma
Relations
BioSample SAMN05214343
SRA SRX1829894

Supplementary file Size Download File type/resource
GSM2190598_A375_shIno80_day3_rep1_FPKM.txt.gz 292.0 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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