|
| Status |
Public on Oct 12, 2016 |
| Title |
CXCR5+ Rep1 |
| Sample type |
SRA |
| |
|
| Source name |
helper T cell
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: spleen
age: 8 weeks
genotype: wild type
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Spleen were removed, stained TH1 cells or TFH cells were sorted using flow cytometer, and RNA was harvested using Trizol reagent.
RNA sequencing libraries were prepared using a kit from Illumina (TruSeq sample prep kit v2; for samples 1-7) or New England Biolabs (NEBNext Ultra RNA Library Prep kit; the rest of samples)
RNA sequencing was done with an Illumina HiSeq1500 on a 50-base single-end mode.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 1500 |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
Read alignment: TopHat2 v2.0.8 with default settings
expression level: Cufflinks v2.1.1 with default settings
Genome_build: mm9
Supplementary_files_format_and_content: tab-delimited text files include RPKM (FPKM) values for each Sample .
|
| |
|
| Submission date |
Aug 08, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Osamu Ohara |
| E-mail(s) |
ohara@kazusa.or.jp
|
| Phone |
+81-438-52-3913
|
| Organization name |
Kazusa DNA Research Institute
|
| Department |
Technology Development
|
| Lab |
Human DNA Analysis
|
| Street address |
2-6-7 Kazusa-Kamatari
|
| City |
Kisarazu |
| State/province |
Chiba |
| ZIP/Postal code |
292-0818 |
| Country |
Japan |
| |
|
| Platform ID |
GPL18480 |
| Series (1) |
| GSE85316 |
Next Generation Sequencing Facilitates Quantitative Analysis of Wild Type and Bcl6-/- helper T cell Transcriptomes |
|
| Relations |
| BioSample |
SAMN05521676 |
| SRA |
SRX2007566 |
