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Sample GSM4971750 Query DataSets for GSM4971750
Status Public on Feb 23, 2022
Title GSK126-treated cells rep2
Sample type SRA
 
Source name mouse B16F10 melanoma cells
Organism Mus musculus
Characteristics treatment: GSK126
cell line: mouse B16F10 melanoma cells
Treatment protocol B16F10 melanoma cells were treated with GSK126 at 10 μM
Growth protocol B16F10 melanoma cells were grown in Dulbecco's modified Eagle's medium (DMEM) or RPMI-1640 supplemented with 10% fetal bovine serum (FBS, GIBCO, CA, USA), 50 IU/mL penicillin, and 50 mg/mL streptomycin (Invitrogen, CA, USA). All cells were cultured at 37 ℃ in a humidified incubator in the presence of 5% CO2.
Extracted molecule total RNA
Extraction protocol RNA was isolated using RNeasy Mini Kit (Qiagen)
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Data processing Basecalls performed using CASAVA version 1.8
aligned to the GRCm38.p4 (mm10) genome assembly using Hisat2(version:2.0.4)
Uniquely mapped reads with mapping quality >=20 were retrieved for downstream analysis.
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated using a protocol from Chepelev et al., Nucleic Acids Research, 2009. In short, exons from all isoforms of a gene were merged to create one meta-transcript. The number of reads falling in the exons of this meta-transcript were counted and normalized by the size of the meta-transcript and by the size of the library.
Genome_build: GRCm38.p4 (mm10)
Supplementary_files_format_and_content: files include counts and RPKM values for each Sample
 
Submission date Dec 11, 2020
Last update date Feb 23, 2022
Contact name Qianqian Yin
Organization name Peking University Third Hospital
Department Center of Basic Medical Research
Street address 49 North Garden Road, Haidian District
City BEIJING
ZIP/Postal code 100191
Country China
 
Platform ID GPL24247
Series (1)
GSE163078 Dysregulated lipid metabolism blunts the sensitivity of B16F10 melanoma cells to EZH2 inhibitor
Relations
BioSample SAMN17062964
SRA SRX9675386

Supplementary file Size Download File type/resource
GSM4971750_G102_gene_counts.txt.gz 1.9 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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