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Sample GSM6951244 Query DataSets for GSM6951244
Status Public on Jun 07, 2023
Title Dcir-/- osteoclast 83
Sample type SRA
 
Source name Osteoclasts
Organism Mus musculus
Characteristics strain: C57BL/6J
cell type: Osteoclasts
time: day 4
genotype: Dcir-/-
treatment: RANKL stimulation for 2 days
Treatment protocol Osteoclasts were induced in the presence of M-CSF (20 ng/ml) and RANKL (100 ng/ml) for 2 days cutlure.
Growth protocol Bone marrow cells were maintained in RPMI supplemented with 10% fetal bovine serum (FBS) and antibiotics in humidified atmosphere with 5% CO2 at 37C
Extracted molecule total RNA
Extraction protocol Total RNA was harvested using FastGeneTM RNA basic kit (NIPPON Genetics). The quality of RNA was determned by the TapeStation system. 1 mg of total RNA was used for the construction of sequencing libraries.
 
Library strategy RNA-Seq
Library source transcriptomic
Library selection cDNA
Instrument model Illumina NovaSeq 6000
 
Description OC83
DcirOC_RNAseq_result.xlsx
Data processing The raw sequenceing data were processed using TrimGalore v0.6.6 to remove adapter sequences and low-quality reads.
The processed reads were alined to the mouse genome reference mm10 using hisat2 v2.2.0.
Aligned read counts were caluculated by R package Rsubread v1.32.4.
Assembly: mm10
Supplementary files format and content: An Excel file include differential gene values and p-value.
 
Submission date Jan 21, 2023
Last update date Jun 07, 2023
Contact name Tomonori Kaifu
E-mail(s) kaifu@tohoku-mpu.ac.jp
Phone +817270212
Organization name Tohoku Medicine and Pharmaceutical University
Department Faculty of Medicine
Lab Division of Immunology
Street address 1-15-1 Fukumuro Miyagino ku
City Sendai
State/province Miyagi
ZIP/Postal code 9838536
Country Japan
 
Platform ID GPL24247
Series (1)
GSE223429 Gene expression of Dcir-/- osteoclasts induced by M-CSF and RANKL
Relations
BioSample SAMN32860033
SRA SRX19133536

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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