|
Status |
Public on Dec 14, 2014 |
Title |
moDC_sh-Cebpb |
Sample type |
SRA |
|
|
Source name |
GM-CSF derived cells
|
Organism |
Mus musculus |
Characteristics |
strain: C57BL/6 tissue: Bone Marrow treatment: sh-Cebpb infected
|
Treatment protocol |
(mentioned in the relevant samples)
|
Growth protocol |
Samples 1-40:Bone marrows were extracted from femora and tibiae of C57BL/6J female mice (6 to 10 weeks old), growth in presence of GM-CSF (for moDC) or Flt3L (for pDC). Samples 41-50: cells were isolated from the indicated organ, filtered and stained with the indicated antibodies for FACS sorting
|
Extracted molecule |
total RNA |
Extraction protocol |
For RNA extraction, cells were harvested in Qiazol lysis solution (Qiagen), and total RNA was extracted using miRNeasy Mini Kit (Qiagen). 3' end mRNA libraries were prepared for sequencing using a method developed at Dr. Ido Amit's lab, Weizmann Institute of Science 3' RNA-seq for digital gene expression quantitation
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 1500 |
|
|
Description |
polyA+ RNA moDC_and_pDC_Genes_perturbation.xlsx
|
Data processing |
Illumina Casava1.8 software used for basecalling. alignment: TopHat aligner with default parameters. Genome_build: mm9 Supplementary_files_format_and_content: tab-delimited text files include mRNA molecule count values for each Sample
|
|
|
Submission date |
Oct 24, 2014 |
Last update date |
May 15, 2019 |
Contact name |
Ido Amit |
E-mail(s) |
ido.amit@weizmann.ac.il
|
Phone |
972-8-9343338
|
Organization name |
Weizmann Institute of Science
|
Department |
Immunology
|
Street address |
234 Herzl st.
|
City |
Rehovot |
ZIP/Postal code |
760001 |
Country |
Israel |
|
|
Platform ID |
GPL18480 |
Series (1) |
GSE62704 |
A negative feedback loop of transcription factors specifies alternative dendritic cell chromatin states (RNA-Seq) |
|
Relations |
BioSample |
SAMN03142978 |
SRA |
SRX742939 |