|
| Status |
Public on May 02, 2017 |
| Title |
PB |
| Sample type |
SRA |
| |
|
| Source name |
Gbx2-overexpressed 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 |
| E-mail(s) |
mm-wang@ahtcm.edu.cn
|
| 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 |
|
| Relations |
| BioSample |
SAMN06854851 |
| SRA |
SRX2771642 |
