|
| Status |
Public on Jan 04, 2021 |
| Title |
CTR_2 |
| Sample type |
SRA |
| |
|
| Source name |
BMDC
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
tissue: bone marrow
cell type: bone-marrow derived DC (BMDC)
genotype: wildtype
treatment: no treatment
|
| Treatment protocol |
BMDCs were untreated or treated with either normal cell-derived exosomes or tumor cell-derived exosome for 24 hours
|
| Growth protocol |
BMDCs were obtained by differentiating bone marrow cells with 20 ng/ml GM-CSF for 6 days
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was harvested using Trizol reagent.
RNA libraries were prepared for sequencing using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Data processing |
Illumina Casava1.7 software used for basecalling.
The RNA-Seq raw data were processed through the standard RNA-Seq analysis pipeline. Briefly, read alignment was examined using TopHat2 version 2.1.1. Differential-expression analysis was carried out with DESeq2 version 1.24.0 in R v.3.3.1 (http://cran.r-project.org/). Genes were considered to be differentially expressed if the adjusted P was less than 0.05.
Supplementary_files_format_and_content: raw counts
|
| |
|
| Submission date |
Aug 07, 2020 |
| Last update date |
Jan 04, 2021 |
| Contact name |
Wenfeng Zeng |
| E-mail(s) |
zengwenfeng@ibp.ac.cn
|
| Organization name |
Institute of Biophysics, Chinese Academy of Sciences
|
| Street address |
15 Datun Road
|
| City |
Beijing |
| ZIP/Postal code |
100101 |
| Country |
China |
| |
|
| Platform ID |
GPL24247 |
| Series (1) |
| GSE155881 |
Next Generation Sequencing Facilitates Quantitative Analysis of Transcriptomes of BMDCs treated without or with exosomes from tumor cells or normal cells |
|
| Relations |
| BioSample |
SAMN15760007 |
| SRA |
SRX8909964 |
