|
Status |
Public on Aug 01, 2019 |
Title |
Cbfb-cKO_CD103+CD11b-_rep2 |
Sample type |
SRA |
|
|
Source name |
Intestinal Dendritic Cells
|
Organism |
Mus musculus |
Characteristics |
genotype/variation: Cbfb-cKO strain: mixed background tissue: gut cell types: Dendritic cell
|
Extracted molecule |
total RNA |
Extraction protocol |
Single cell suspensions from mouse intestine were prepared using EDTA and collagenase IV with agitations. Dendritic cells were flow-sorted into buffer TCL (QIAGEN) by FACS Aria and RNA were isolated using Agencourt RNAClean XP beads (Beckman Coulter). RNA libraries were prepared for sequencing applying scRNA-seq procedure with modofications
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|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2500 |
|
|
Data processing |
Basecalls performed using CASAVA version 1.8 Sequenced reads were quality and adapter trimmed by trim_galore, then mapped to mm10 whole genome using STAR v2.7 with a gtf file from EMBL-EBI (GRCm38.92) Reads on each gene were counted using htseq-count with -s no option and a GTF file from EMBL-EBI (GRCm38.92) Genome_build: mm10
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|
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Submission date |
Apr 26, 2019 |
Last update date |
Aug 01, 2019 |
Contact name |
Hideyuki Yoshida |
E-mail(s) |
hideyuki.yoshida@riken.jp
|
Organization name |
RIKEN IMS
|
Street address |
1-7-22 Suehiro-cho
|
City |
Tsurumi-ku, Yokohama |
State/province |
Kanagawa |
ZIP/Postal code |
230-0045 |
Country |
Japan |
|
|
Platform ID |
GPL17021 |
Series (1) |
GSE130380 |
RNA-seq analyses of two intestinal dendritic cell subsets, CD103+CD11b- and CD103-CD11b+, from wild type and CbfbF/F:CD11c-Cre mice. |
|
Relations |
BioSample |
SAMN11515870 |
SRA |
SRX5758604 |