|
| Status |
Public on Jan 23, 2019 |
| Title |
PLN DC of un-injected GF Rag KO mice |
| Sample type |
SRA |
| |
|
| Source name |
dendritic cells
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: peripheral lymph node (PLN)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
PLN or SPL DCs were purified with flow cytometory sorting and RNA was harvested with trizol. Illumina TruSeq RNA sample prep kit was used with 1ug of total RNA for the construction of sequencing libararies.
RNA libraries were prepared for sequencing using standard Illumina protocol
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina MiSeq |
| |
|
| Description |
JAEUYI_S1
|
| Data processing |
Illumina Casava1.8 software used for basecalling.
RNA-seq reads were aligned to mouse reference transcriptome build mm10 (M10, GRCm38.p4) from GENCODE (http://www.gencodegenes.org/mouse_releases/10.html)
Fragments Per Kilobase Million (FPKM) were calculated by RSEM with default parameters.
Differentially expressed genes were identified by edgeR-3.16.5 [49] given absolute fold change > 2 and FDR < 10-3
Genome_build: mm10
Supplementary_files_format_and_content: differential gene expression comparsion with FPKM value
|
| |
|
| Submission date |
Oct 26, 2018 |
| Last update date |
Jan 23, 2019 |
| Contact name |
Jaeu Yi |
| E-mail(s) |
discount73@gmail.com
|
| Organization name |
POSTECH
|
| Street address |
Cheongamro77
|
| City |
Pohang |
| ZIP/Postal code |
37673 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL16417 |
| Series (1) |
| GSE121882 |
Unregulated APC activation by T cells breaks self-tolerance |
|
| Relations |
| BioSample |
SAMN10331473 |
| SRA |
SRX4941342 |
