|
| Status |
Public on Aug 20, 2019 |
| Title |
bone mouse Mac CTX 1 |
| Sample type |
SRA |
| |
|
| Source name |
bone
|
| Organism |
Mus musculus |
| Characteristics |
cell type: macrophages
patient: donor 1
treatment: CTX
tissue: bone
|
| Growth protocol |
mouse and human macrophages were sorted by flow cytometry based on expression of hCD45-F4/80+CD11b+ and hCD45+CD14+
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Qiagen RNeasy Micro Kit
SMARTer Universal Low Input RNA Kit
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Description |
D9932
|
| Data processing |
Illumina software used for basecalling.
Sequences were trimed with 8 bases in 5-prime and aligned to the human genome using Tophat2
Raw counts of each gene for each sample were calculated by Rsem program
Raw counts of each sample normaized with TMM in calcNormFactors() of edgeR, values log2-transformed
Differentially expressed genes between paired samples before and after treatment were performed using the program edgeR
Genome_build: mm10 or hg19
Supplementary_files_format_and_content: tab-delimited text files include count values for each sample
|
| |
|
| Submission date |
Aug 19, 2019 |
| Last update date |
Aug 22, 2019 |
| Contact name |
Guangan Hu |
| E-mail(s) |
[email protected]
|
| Organization name |
MIT
|
| Department |
Koch Institute
|
| Lab |
Chen
|
| Street address |
500 Main Street
|
| City |
Cambridge |
| State/province |
MA |
| ZIP/Postal code |
02139 |
| Country |
USA |
| |
|
| Platform ID |
GPL13112 |
| Series (1) |
| GSE135997 |
Cyclophosphamide (CTX) Enhances Cancer Antibody Immunotherapy in the Resistant Bone Marrow Niche by Modulating Macrophage FcγR Expression |
|
| Relations |
| BioSample |
SAMN12601649 |
| SRA |
SRX6742881 |
