|
| Status |
Public on Aug 19, 2017 |
| Title |
B6J |
| Sample type |
SRA |
| |
|
| Source name |
TEC of fetal thymus
|
| Organism |
Mus musculus |
| Characteristics |
treatment: absence of thymocytes
strain: C57BL/6
tissue: Fetal thymus
age: 15 dpc (Days post coitum)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
CD45-EpCAM+PDGFRa- cells were sorted and lysed in TRIzol regent. Illumina TruSeq RNA Sample Prep Kit 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 1500 |
| |
|
| Data processing |
Base call performed using OLB (version 1.9.4).
RNA-seq reads were aligned on mouse genome using TopHat (version 2.0.8) with Bowtie (version 2.1.0).
Processed data were generated using Cufflinks (version 2.1.1).
Genome_build: mm9
Supplementary_files_format_and_content: Plain text containing FPKM value for each gene
|
| |
|
| Submission date |
Aug 19, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
Takaho A. Endo |
| E-mail(s) |
takaho.endo@riken.jp
|
| Organization name |
RIKEN
|
| Department |
IMS
|
| Lab |
Laboratory for Integrative Genomics
|
| Street address |
1-7-22 Suehiro, Tsurumi
|
| City |
Yokohama |
| State/province |
Kanagawa |
| ZIP/Postal code |
230-0045 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE60520 |
Thymic epithelial cells induce formation of mesenchymal network structure after abrogation of thymic crosstalk |
|
| Relations |
| BioSample |
SAMN02998022 |
| SRA |
SRX683363 |
