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Sample GSM2265450 Query DataSets for GSM2265450
Status Public on Aug 10, 2016
Title M0-1
Sample type RNA
Source name Macrophage
Organism Homo sapiens
Characteristics cell population: CD14+ monocytes
macrophage subtype: M0
Treatment protocol CD14+ monocytes from human peripheral blood mononuclear cells were cultured with GM-CSF or M-CSF for seven days, and then stimulated for 24 h with LPS+ IFN-γ, IFN-γ, IL-4, IL-1β, and IL-10.
Growth protocol Human Macrophages were cultured in RPMI1640 medium under 5% CO2 condition.
Extracted molecule total RNA
Extraction protocol RNA was isolated using the RNeasy Mini Kit (Qiagen), quantified using a NanoDrop-1000 spectrophotometer and quality was monitored with the Agilent 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.1 ug RNA using the Low Input Quick Amp Labeling kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA).
Hybridization protocol 1.65 ug of Cy3-labelled cRNA (specific activity > 21pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 55 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 55 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Human Whole Genome Ver. 2.0 arrays (G4845A) for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.
Scan protocol Slides were scanned immediately after washing on the Agilent DNA Microarray Scanner using one color scan setting for 4x44k array slides (Scan Area 61x21.6 mm, Scan resolution 5um, Dye channel is set to Green PMT is set to 100%).
Description CD14+ monocytes were cultured with M-CSF for seven days, and then incubated for 24 h without additional factors
Data processing The scanned images were analyzed with Feature Extraction Software 9.5.1 (Agilent) using default parameters
Submission date Aug 09, 2016
Last update date Aug 10, 2016
Contact name Kyoko Yamashiro
Organization name Asubio pharma co.,LTD.
Street address 6-4-3, inatojima-Minamimachi,
City Chui-ku,Kobe
ZIP/Postal code 650-0047
Country Japan
Platform ID GPL13497
Series (1)
GSE85346 Gene Expression Analysis in Different Macrophage Phenotypes

Data table header descriptions
VALUE 75th percentile normalized signal intensity

Data table
GE_BrightCorner 6.2502356
DarkCorner -6.8200626
A_23_P146146 0.9583092
A_23_P42935 -1.7251921
A_23_P117082 4.55447
A_23_P2683 -0.39805603
A_24_P358131 -5.147713
A_33_P3367647 -5.767233
A_23_P157316 -4.573945
A_32_P14850 3.952961
A_23_P158596 0.991642
A_23_P350107 0.8235693
A_23_P388190 0.5104742
A_23_P106544 2.3640661
A_33_P3219745 -6.6158876
A_32_P85539 -1.3803539
A_23_P94998 -0.3040247
A_33_P3235677 -6.5952516
A_23_P417014 -6.5889583
A_23_P103905 2.0810509

Total number of rows: 34183

Table truncated, full table size 792 Kbytes.

Supplementary file Size Download File type/resource
GSM2265450_M0-1.txt.gz 9.0 Mb (ftp)(http) TXT
Processed data included within Sample table

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