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Sample GSM1123728 Query DataSets for GSM1123728
Status Public on Aug 28, 2013
Title Mouse 3F + IL6 iPS clone 1
Sample type SRA
Source name induced pluripotent stem cell
Organism Mus musculus
Characteristics cell type: mouse iPS
treatment: treated with 10ng/mL IL6
genetic background: BALB/c
Extracted molecule polyA RNA
Extraction protocol Total RNA was extracted using the Qiagen RNeasy Micro Kit. Poly A enrichment was performed with Oligo dT bead selection. The resulting poly-A+ RNA was fragmented and cDNA was synthesized using Superscript II and random primers. 500ng of total RNA was used for each library.
Libraries were prepared according to standard Illumina protocol, using the Illumina TruSeq mRNA Sample Prep Kit v2.
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 2500
Data processing Illumina Casava1.7 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence to 50bp and mapped to mm10 after removal of mouse rRNA sequences.
Reads Per Kilobase of exon per Megabase of library size (RPKM) were calculated after alignment to mm10 using SeqMap.
Genome_build: mm10
Supplementary_files_format_and_content: gene name and RPKM values for each Sample.
Submission date Apr 16, 2013
Last update date May 15, 2019
Contact name Jennifer Brady
Organization name Stanford University
Street address 269 Campus Drive
City Stanford
State/province CA
ZIP/Postal code 94305
Country USA
Platform ID GPL17021
Series (1)
GSE46104 Global transcriptome profiling of Oct4/Klf4/Sox2 (3Factor, 3F) + IL6 iPS clones derived from mouse embryonic fibroblasts.
Reanalyzed by GSE80797
BioSample SAMN02046477
SRA SRX265574

Supplementary file Size Download File type/resource
GSM1123728_3F_IL6_iPS_rep1.txt.gz 140.3 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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