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Sample GSM2593273 Query DataSets for GSM2593273
Status Public on May 02, 2017
Title PB-Gbx2
Sample type SRA
Source name empty vector-transfected control 46C embryonic stem cells
Organism Mus musculus
Characteristics strain: 46C
cell type: Inner cell mass of pre-implantation embryo
passages: 21-24
Growth protocol ESCs were routinely maintained on gelatin-coated plates in the conventional mouse ESC medium
Extracted molecule total RNA
Extraction protocol RNA was harvested using Trizol reagent.TruSeq® RNA LT Sample Prep Kit v2 was used with total RNA for the construction of sequencing libraries.
RNA libraries were prepared for sequencing using standard Illumina protocols
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina HiSeq 3000
Data processing Illumina Hiseq3000 software used for basecalling.
Sequenced reads were trimmed for adaptor sequence, and masked for low-complexity or low-quality sequence, then mapped to m38 whole genome using STAR software
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: mm9
Supplementary_files_format_and_content: tab-delimited text files include the expression values of this transcript expressed in FPKM (Fragments Per Kilobase of transcript per Million fragments mapped) for each Sample ...
Submission date May 01, 2017
Last update date May 15, 2019
Contact name Manman Wang
Phone +8618714855575
Organization name anhui university
Street address No 111, Jiu Long Road
City Hefei
ZIP/Postal code 230601
Country China
Platform ID GPL21493
Series (1)
GSE98387 Next Generation Sequencing Facilitates Quantitative Analysis of Transcriptomes in PB- and PB-Gbx2-transfected 46C mouse embryonic stem cells
BioSample SAMN06854850
SRA SRX2771643

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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