|
| Status |
Public on Dec 29, 2020 |
| Title |
Mac-1 |
| Sample type |
SRA |
| |
|
| Source name |
leukemia macrophages (Mac)
|
| Organism |
Mus musculus |
| Characteristics |
strain: C57BL/6
cell type: Leukemia macrophages
|
| Treatment protocol |
Target cells were sorted from the cultured leukemia macrophages (Mac) or MSC-educated leukemia macrophages (E-Mac), which were co-cultured with MSC in vitro for 12h.
|
| Growth protocol |
Leukemia macrophages were cultured alone or co-cultured with MSC in vitro for 12h.
|
| Extracted molecule |
polyA RNA |
| Extraction protocol |
Total RNA was extracted using the Rneasy micro kit with on-column Dnase treatment (Qiagen, 74004).
Library was constructed using VAHTSTM mRNA -seq V3 Library Prep Kit for Illumian (Vazyme , NR 611).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Bcl2fastq convert .bcl files into fastq files
Fastq files were aligned to mm10 genome by HISAT2 and generated raw counts values by featureCounts of Subread package.
Gene expression levels of different samples were normalized by DESeq2
Genome_build: mm10
Supplementary_files_format_and_content: raw count table
|
| |
|
| Submission date |
Jan 14, 2019 |
| Last update date |
Dec 29, 2020 |
| Contact name |
Xia Chengxiang |
| E-mail(s) |
xia_chengxiang@gibh.ac.cn
|
| Phone |
15626209179
|
| Organization name |
GIBH
|
| Street address |
Kai Yuang Road 190
|
| City |
Guangzhou |
| State/province |
Guangdong |
| ZIP/Postal code |
510530 |
| Country |
China |
| |
|
| Platform ID |
GPL19057 |
| Series (2) |
| GSE125027 |
Mesenchymal stromal cells orchestrate the overhaul of leukemia bone marrow microenvironment via educating macrophages [in vitro] |
| GSE125029 |
Mesenchymal stromal cells orchestrate the overhaul of leukemia bone marrow microenvironment via educating macrophages |
|
| Relations |
| BioSample |
SAMN10740241 |
| SRA |
SRX5246799 |
