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Sample GSM1646407 Query DataSets for GSM1646407
Status Public on Mar 31, 2015
Title ExVivo-early tumor-TAM-1E
Sample type RNA
 
Source name 4T1 transplanted early tumor
Organism Mus musculus
Characteristics strain: BALB/c
gender: female
cell type: TAM (isolated from early tumor, 12 days after 4T1 cell injection)
Extracted molecule total RNA
Extraction protocol TAMs were isolated from tumor tissue and total RNA was extracted from cells using Trizol (Invitrogen, CA, USA) reagent.Total RNA from each sample was quantified by the NanoDrop ND-1000 and RNA integrity was assessed by standard denaturing agarose gel electrophoresis. RNA quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label Cy3
Label protocol miRNA molecular in total RNA was labeled by miRNA Complete Labeling and Hyb Kit(Agilent technologies,Santa Clara,CA,US)followed the manufacturer’s instructions, labeling section.
 
Hybridization protocol Each slide was hybridized with 100ng Cy3-labeled RNA using miRNA Complete Labeling and Hyb Kit(Agilent technologies, Santa Clara, CA, US) in hybridization Oven(Agilent technologies, Santa Clara, CA, US)at 55℃,20rpm for 20 hours according to the manufacturer’s instructions, hybridization ection. After hybridization, slides were washed in staining dishes (Thermo handon, altham, MA, US) with Gene Expression Wash Buffer Kit(Agilent technologies, Santa Clara, CA, US).
Scan protocol Slides were scanned immediately after washing on Agilent Microarray Scanner(G2565BA, Agilent technologies, Santa Clara, CA, US) Feature Extraction software 10.7 (Agilent technologies, Santa Clara,CA, US)with default settings.
Description Sample name: TAM32_NS
expression of microRNA
Data processing The scanned images were analyzed with Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US)with default settings.
Raw data were normalized by Quantile algorithm, Gene Spring Software 11.0(Agilent technologies, Santa Clara, CA, US).
 
Submission date Mar 30, 2015
Last update date Mar 31, 2015
Contact name Yanshuang Li
E-mail(s) pumcli_ys@163.com
Organization name Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences & Peking Union Medical College
Department National Laboratory of Medical Molecular Biology
Street address 5 Dong Dan San Tiao
City Beijing
ZIP/Postal code 100005
Country China
 
Platform ID GPL9756
Series (1)
GSE67408 microRNA expression during tumor-associated macrophage (TAM) differentiation

Data table header descriptions
ID_REF
VALUE normalized signal

Data table
ID_REF VALUE
miRNABrightCorner30 8.342229
DarkCorner 1.0681192
mmu-miR-384-5p 0.84517586
mmu-miR-32 0.462521
mmu-miR-466a-5p 0.4579948
mmu-miR-155 5.7830544
mmu-let-7f 11.568671
mmu-miR-669k 0.95863694
mmu-miR-488* 0.45966277
mmu-miR-297a* 0.47279
mmu-miR-503* 0.4578219
mmu-miR-1897-5p 7.29792
mmu-miR-374* 0.458716
mmu-miR-669h-5p 0.92613244
mmu-miR-30e 6.232333
mmu-miR-369-3p 1.0225948
mmu-miR-1186 0.9607941
mmu-miR-699 0.4584953
mcmv-miR-m21-1 0.724878
mmu-miR-190 1.022918

Total number of rows: 672

Table truncated, full table size 15 Kbytes.




Supplementary file Size Download File type/resource
GSM1646407_TAM32_252182811046_S01_miRNA_107_Sep09_105_1_4.txt.gz 798.3 Kb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table

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