|
| Status |
Public on Jun 01, 2015 |
| Title |
CDP_52 |
| Sample type |
SRA |
| |
|
| Source name |
mouse bone marrow
|
| Organism |
Mus musculus |
| Characteristics |
mouse strain: C57BL/6
gender: male
cell population: CDP_sorted_CD45+_Lin-_MHC2-_CD11c-_FLT3+_CD115+_CD117int
mouse status: steady state
|
| Treatment protocol |
no treatment
|
| Growth protocol |
primary mpuse bone marrow cells
|
| Extracted molecule |
total RNA |
| Extraction protocol |
magnetic bead enrichment, FACS sorting, IFC capture, on-chip lysis & rt-pcr
Nextera_XT Kit (Illumina, PN FC-131-1096) with dual indices (Illumina, PN FC-131-1002) was used to prepare single-cell multiplexed libraries
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Reads were mapped against the MM9 reference genome using STAR with intronMotif option. The reference genome was generated with UCSC known gene annotation and the –sjdbOverhang 50 option.
The number of reads mapped to each UCSC known gene was quantified using htseq-count and normalized by calculating reads per kilobase of exon model per million mapped reads (RPKM) values
Genome_build: MM9
Supplementary_files_format_and_content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
Aug 26, 2014 |
| Last update date |
May 15, 2019 |
| Contact name |
jinmiao chen |
| E-mail(s) |
chen_jinmiao@immunol.a-star.edu.sg
|
| Organization name |
Singapore Immunology Network
|
| Street address |
8A Biomedical Grove, #04-06 Immunos
|
| City |
Singapore |
| ZIP/Postal code |
138648 |
| Country |
Singapore |
| |
|
| Platform ID |
GPL13112 |
| Series (2) |
| GSE60781 |
Identification of subset-specific dendritic cell progenitors reveals early commitment in the bone marrow [RNA-Seq] |
| GSE60783 |
Identification of subset-specific dendritic cell progenitors reveals early commitment in the bone marrow |
|
| Relations |
| BioSample |
SAMN03009331 |
| SRA |
SRX687317 |
