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Sample GSM7764786 Query DataSets for GSM7764786
Status Public on Sep 08, 2023
Title Control_MDA_MB231_rep1
Sample type SRA
Source name Cell line drived from breast cancer tissue
Organism Homo sapiens
Characteristics tissue: Cell line drived from breast cancer tissue
cell line: MDA-MB-231
cell type: Cancer cell, adherent
treatment: DMSO 24hrs
Treatment protocol 24 h
Growth protocol Standard (ATCC)
Extracted molecule polyA RNA
Extraction protocol Qiagen RNeasy Micro Kit (50), Cat. No. / ID: 74004
PolyA-enriched, strand-specific RNA libraries were constructed and 100bp paired-end reads were sequenced on an Illumina NovaSeq 6000 platform
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
Description ET43
Data processing Raw data were analyzed using the Hisat aligner with stand-specific settings.
Differential gene expression was analyzed using the DESeq R package (Bioconductor) and the negative binomial model
Criteria for significant differences in gene expression were (1) false discovery rate (FDR) <0.05, (2) expression level >10th percentile, and (3) ≥ 2-fold change.
Assembly: Homo sapiens GRCh38
Supplementary files format and content: htseq output with gene counts for each sample
Submission date Sep 06, 2023
Last update date Sep 08, 2023
Contact name Carrie McCracken
Organization name Institute of Genome
Department Institute for Genome Sciences
Street address 670 W. Baltimore St
City Baltimore
State/province MD
ZIP/Postal code 21201
Country USA
Platform ID GPL24676
Series (1)
GSE242514 Inhibitory effect of VNLG-152R on breast cancer cells MDA-MB-231
BioSample SAMN37307493
SRA SRX21653368

Supplementary file Size Download File type/resource
GSM7764786_ET43.accepted_hits.sorted_by_name.exon.counts.gz 210.7 Kb (ftp)(http) COUNTS
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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