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Sample GSM1646409 Query DataSets for GSM1646409
Status Public on Mar 31, 2015
Title ExVivo-early tumor-TAM-3E
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: TAM612_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
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
VALUE normalized signal

Data table
miRNABrightCorner30 7.95899
DarkCorner 2.2574348
mmu-miR-384-5p 0.9592266
mmu-miR-32 0.45973498
mmu-miR-466a-5p 0.45795348
mmu-miR-155 6.5047965
mmu-let-7f 11.446552
mmu-miR-669k 0.95930856
mmu-miR-488* 0.46332148
mmu-miR-297a* 0.46941847
mmu-miR-503* 0.45837015
mmu-miR-1897-5p 5.887401
mmu-miR-374* 0.46243945
mmu-miR-669h-5p 0.96233517
mmu-miR-30e 5.12002
mmu-miR-369-3p 1.9781672
mmu-miR-1186 1.0681192
mmu-miR-699 0.45877737
mcmv-miR-m21-1 0.95849085
mmu-miR-190 2.0157225

Total number of rows: 672

Table truncated, full table size 15 Kbytes.

Supplementary file Size Download File type/resource
GSM1646409_TAM612_252182811048_S01_miRNA_107_Sep09_105_2_3.txt.gz 790.7 Kb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table

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