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Sample GSM2076706 Query DataSets for GSM2076706
Status Public on Jun 12, 2017
Title TSC_Ctrl_1
Sample type SRA
 
Source name TSC_control
Organism Mus musculus
Characteristics cell type: E 3.5 isolated trophoblast stem cells
passage: 15-20
genotype/variation: +/+; TSC wild type
treated with: DMSO
Treatment protocol 24 hrs with DMSO or Inhibitor changing media every 12 hrs; 8 days with DMSO or 4OHT
Growth protocol TSCs medium suplemented with Fgf4 and Heparin
Extracted molecule total RNA
Extraction protocol RNA was harvested using Qiagen kit. Strand-Specific RNA Seq with Agilent kit
RNA libraries were prepared for sequencing using standard Illumina protocols
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2000
 
Description TSC treated with DMSO
processed data file: diff_edgeR_D0_Lsd1i.txt
Data processing Raw sequence files (.fastq files) were aligned to mouse genome (mm10) using TopHat
Counting of the aligned reads was performed using homer software (analyze RNA). Differentially expressed genes were identified with EdgeR
Genome_build: mm10
Supplementary_files_format_and_content: tab-delimited text files include processed raw counts, pvalues and fold changes
 
Submission date Mar 01, 2016
Last update date May 15, 2019
Contact name Maria Josefina Castex
Organization name Freiburg Uniklinik
Street address BreisacherStrasse 66
City Freiburg
ZIP/Postal code 79106
Country Germany
 
Platform ID GPL13112
Series (2)
GSE78781 Trophoblast stem cells (TSC) global transcriptome in stemness conditions after treatment with Lsd1 inhibitor or induction of Lsd1 depletion [RNA-seq]
GSE78782 Deletion of Lsd1 triggers Senescence in Trophoblast Stem Cells by Induction of Sirt4
Relations
BioSample SAMN04525179
SRA SRX1606651

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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