|
| Status |
Public on Aug 06, 2019 |
| Title |
RNAseq_BMDM_KO_IL4 |
| Sample type |
SRA |
| |
|
| Source name |
RNAseq_BMDM_KO
|
| Organism |
Mus musculus |
| Characteristics |
strain background: C57BL/6
genotype: Slc6a8-/y
cell type: Bone marrow-derived macrophages
treatment: IL4 (10 ng/mL) for 6 hrs
|
| Treatment protocol |
Peritoneal macrophages were untreated or treated with IFNg (10 ng/mL) for 12 hours. Bone marrow-derived macrophages were untreated or treated with IL4 (10 ng/mL) for 6 hours.
|
| Growth protocol |
Mice were intraperitoneally injected with 1 ml of 4% thioglycollate for 3-4 days and peritoneal macrophages were isolated. Bone marrow isolated from mice were cultured with 10% M-CSF for 5 days to differentiate into macrophages.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Cells were washed by PBS and RNA was extracted from whole cell lysates with total RNA purification kit (TR01, GeneMark).
RNA libraries were prepared for sequencing using standard Illumina protocols.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
BGISEQ-500 |
| |
|
| Description |
RNAseq_BMDM_KO_IL4
|
| Data processing |
Base-calling made by Zebracall process version 0.5.0.13875
RNA-seq reads were aligned to the mm10 genome assembly using Bowtie2 version 2.2.5
Reads were filtered as the unsure bases less than 10% and low quality (I<10) bases less than 50%.
FPKM value was quantified by RSEM tools
Genome_build: mm10
Supplementary_files_format_and_content: FPKM
|
| |
|
| Submission date |
Feb 09, 2018 |
| Last update date |
Aug 06, 2019 |
| Contact name |
Liangliang Ji |
| E-mail(s) |
jll14@mails.tsinghua.edu.cn
|
| Organization name |
Institute for Immunology
|
| Department |
School of Medicine
|
| Lab |
Xiaoyu Hu
|
| Street address |
Tsinghua University
|
| City |
Beijing |
| ZIP/Postal code |
100084 |
| Country |
China |
| |
|
| Platform ID |
GPL23479 |
| Series (2) |
| GSE110395 |
Metabolic reprogramming of macrophage polarization by creatine [RNA-seq] |
| GSE110456 |
Metabolic reprogramming of macrophage polarization by creatine |
|
| Relations |
| BioSample |
SAMN08512428 |
| SRA |
SRX3676674 |
