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Sample GSM2611335 Query DataSets for GSM2611335
Status Public on May 11, 2017
Title PB-ID2
Sample type SRA
Source name PB-ID2-transfected 46C mouse embryonic stem cells
Organism Mus musculus
Characteristics cell line: 46C embryonic stem cells
cell type: Inner cell mass of pre-implantation embryo
passages: 21-24
genotype/variation: ID2-overexpression
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 mm9 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 DESeq
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include the expression values of this transcript for each Sample
Submission date May 10, 2017
Last update date May 15, 2019
Contact name Mengmeng Guo
Organization name Anhui University
Street address Anhui University No.111 Jiulong Road Hefei City Anhui Prov China
City Hefei
ZIP/Postal code 230601
Country China
Platform ID GPL21493
Series (1)
GSE98759 Next Generation Sequencing Facilitates Quantitative Analysis of Transcriptomes in PB- and PB-ID2-transfected 46C mouse embryonic stem cells
BioSample SAMN06925935
SRA SRX2794549

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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