|
Status |
Public on Aug 19, 2014 |
Title |
m12_bcell_l1 RNA-Seq |
Sample type |
SRA |
|
|
Source name |
wild-type B-Cells
|
Organism |
Mus musculus |
Characteristics |
cell type: Murine bone marrow derived B Cells cell surface marker: CD19 strain: C57BL/6
|
Treatment protocol |
PolyA selection
|
Growth protocol |
Freshly sorted wild type and Dnmt3a-KO mouse HSCs (SP-KSL-CD150+)
|
Extracted molecule |
total RNA |
Extraction protocol |
Extract RNA using Qiagen Rneasy Micro kit. Tru-Seq RNA sample prep kit
|
|
|
Library strategy |
RNA-Seq |
Library source |
transcriptomic |
Library selection |
cDNA |
Instrument model |
Illumina HiSeq 2000 |
|
|
Description |
technical replicate of biological replicate 1
|
Data processing |
RUM to make alignments; Customized script to count fragments on gene; DESEQ to do differential expression test; Genome_build: mm9 Supplementary_files_format_and_content: Tab separated text file for gene's count and fpkm for each sample; XLS file for two sample comparison testing if a gene is differentially expressed;
|
|
|
Submission date |
Sep 11, 2013 |
Last update date |
May 15, 2019 |
Contact name |
deqiang sun |
E-mail(s) |
dsun@tamu.edu
|
Phone |
(713) 677-7439
|
Organization name |
Texas A&M University
|
Street address |
2121 W Holcombe Blvd
|
City |
Houston |
State/province |
TX |
ZIP/Postal code |
77030 |
Country |
USA |
|
|
Platform ID |
GPL13112 |
Series (2) |
GSE50775 |
Role of de novo DNA methyltransferases in hematopoietic stem cells (RNA-seq) |
GSE50793 |
Role of de novo DNA methyltransferases in hematopoietic stem cells |
|
Relations |
BioSample |
SAMN02354085 |
SRA |
SRX348826 |