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Sample GSM4273520 Query DataSets for GSM4273520
Status Public on Oct 06, 2021
Title MH-S_control rep1
Sample type RNA
 
Source name alveolar macrophage
Organism Mus musculus
Characteristics treatment: PBS, 48h
cell: alveolar macrophage
Treatment protocol MH-S cells were seeded into plastic 6-well plates at a concentration of 1×105 cells/mL and incubated in serum-deprived medium for 12 h followed by treatment with IL-4 at 20 ng/mL for 48 h.
Growth protocol The murine alveolar macrophages (MH-S) purchased from ATCC were maintained in RPMI 1640 containing 10% FBS supplemented with 1% penicillin/streptomycin and incubated at 37 °C in a humidified incubator containing 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using TRIzol (Invitrogen) and purified with RNeasy mini kit (QIAGEN) according to the manufacturer’s instructions. RNA quality and quantity was measured by using nanodrop spectrophotometer (ND-1000, Nanodrop Technologies) and RNA Integrity was determined by gel electrophoresis.
Label Hy3
Label protocol The miRCURY™ Hy3™/Hy5™ Power labeling kit (Exiqon, Vedbaek, Denmark) was used according to the manufacturer's guideline for miRNA labelling.
 
Hybridization protocol The Hy3™-labeled samples were hybridized on the miRCURYTM LNA Array (v.19.0) (Exiqon) according to array manual.
Scan protocol The slides were scanned using the Axon GenePix 4000B microarray scanner (Axon Instruments, Foster City, CA).
Description miRNA expression after 48hr in PBS-induced alveolar macrophages
Data processing Scanned images were then imported into GenePix Pro 6.0 software (Axon) for grid alignment and data extraction. Replicated miRNAs were averaged and miRNAs that intensities>=30 in all samples were chosen for calculating normalization factor. Expressed data were normalized using the Median normalization. After normalization, significant differentially expressed miRNAs between two groups were identified through Fold change and P-value. Differentially expressed miRNAs between two samples were filtered through Fold change. Finally, hierarchical clustering was performed to show distinguishable miRNA expression profiling among samples.
 
Submission date Jan 15, 2020
Last update date Oct 06, 2021
Contact name Qiujie Wang
E-mail(s) wangqiuj@mail2.sysu.edu.cn
Organization name Sun Yat-sen University Second University Hospital
Department Department of Respiratory Medicine
Street address No.107 Yan jiang West Road
City Guangzhou
State/province Guangdong
ZIP/Postal code 510120
Country China
 
Platform ID GPL18058
Series (1)
GSE143740 miRNA expression profiling and identification of a miRNA regulator for macrophage polarization in the murine alveolar macrophage cell line MH-S.

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
13138 3.164160401
42638 5.927318296
42888 0.394736842
17519
17278 2.191729323
46507 0.354636591
17928 1.355889724
42826 1.182957393
17537 5.395989975
42722 0.240601504
42645
46636
11134 5.957393484
17295 1.129072682
32825 5.943609023
46276
42812 0.101503759
42918
46457 0.923558897
42469 2.235588972

Total number of rows: 3556

Table truncated, full table size 55 Kbytes.




Supplementary file Size Download File type/resource
GSM4273520_C1.gpr.gz 948.2 Kb (ftp)(http) GPR
Processed data included within Sample table

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