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Sample GSM1653253 Query DataSets for GSM1653253
Status Public on May 08, 2015
Title PBS+GSK-J4
Sample type SRA
 
Source name Female ES cells_GSK-J4
Organism Mus musculus
Characteristics cell line: LF2
strain: 129/J
gender: female
cell type: embryonic stem cells
Treatment protocol LF2 ESCs were cultured with DMSO or GSK-J4 (10 µM) in the absence or presence of 50 µg/ml of L-ascorbic acid (AA) for 24 hr.
Growth protocol LF2 female ESCs were cultured on the feeder cells and passed twice without feeder before treatments.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using TRIzol reagent and RNeasy column (Qiagen) was used for purification.
The Illumina TrueSeq DNA Sample Prep Kit was used for library construction.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
 
Description total RNA
Data processing TopHat2 was used with default setting to map the sequence tags after removal of duplicates.
Fragments Per Kilobase of exon per Million base reads (FPKM) was calculated as described in the manuscript
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include FPKM values for each Sample and statistics for differential gene expression
 
Submission date Apr 08, 2015
Last update date May 15, 2019
Contact name Mary E Donohoe
E-mail(s) med2008@med.cornell.edu
Organization name Weill Cornell Medical College
Department Burme Medical Research Institute
Lab Mary Donohoe lab
Street address 785 Mamaroneck
City White Plains
State/province NY
ZIP/Postal code 10605
Country USA
 
Platform ID GPL17021
Series (1)
GSE67674 Transcriptome analysis of the effects of GSK-J4 and L-ascorbic acid in female embryonic stem cells
Relations
BioSample SAMN03465499
SRA SRX982782

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

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