|
| Status |
Public on Oct 10, 2015 |
| Title |
EScell_RNA_exp1 |
| Sample type |
SRA |
| |
|
| Source name |
B6N-22 ES cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: B6N-22 ES cell
|
| Growth protocol |
B6N-22 ES cells were cultivated on mitomycin C (MMC) -treated mouse embryonic fibroblast (MEF) in DMEM containing 0.1 mM 2-mercaptoethanol, 1000 units/ml leukemia inhibitory factor (LIF), nonessential amino acids (NEAA), sodium pyruvate and 20% fetal bovine serum (FBS)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was extracted with TRIzol reagent (Invitrogen).
TruSeq RNA Sample Prep Kit v2 (Illumina) was used according to the manufacturer's protocol.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
Embryonic_stem_cells
|
| Data processing |
Read sequences (50 bp) were aligned to the mm10 mouse reference genome (University of California, Santa Cruz (UCSC) December 2011) using Bowtie (version 0.12.8) and TopHat (version 1.3.2).
Fragments per kilobase of exon per million mapped reads (FPKM) for each gene were calculated using Cufflinks (version 2.0.2).
Genome_build: mm10
Supplementary_files_format_and_content: Text files include FPKM values for each Sample
|
| |
|
| Submission date |
Oct 07, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Atsushi Onodera |
| Organization name |
Chiba University
|
| Department |
Immunology
|
| Street address |
Chuo-ku Inohana 1-8-1
|
| City |
Chiba |
| ZIP/Postal code |
260-8670 |
| Country |
Japan |
| |
|
| Platform ID |
GPL17021 |
| Series (2) |
| GSE73813 |
Spatial interplay between Polycomb and Trithorax complexes controls transcriptional activity in T lymphocytes [RNA-Seq] |
| GSE73825 |
Spatial interplay between Polycomb and Trithorax complexes controls transcriptional activity in T lymphocytes |
|
| Relations |
| BioSample |
SAMN04151779 |
| SRA |
SRX1310202 |
