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Sample GSM1086292 Query DataSets for GSM1086292
Status Public on Dec 17, 2013
Title THP-1 treated with 100 nM CXCL14
Sample type RNA
Source name THP-1, 100 nM CXCL14 treated 60 min
Organism Homo sapiens
Characteristics cell line: THP-1
treatment: 100 nM CXCL14 treated 60 min
Extracted molecule total RNA
Extraction protocol Cells were dissoluved in TRIZOL, and total RNA were extracted with standerd protcol. RNA was further purified with Rnasy kit.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 0.1ug Total RNA using the Low Input Quick Amp Labeling Kit(Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-2000 Spectrophotometer.
Hybridization protocol 0.60 ug of Cy3-labelled cRNA was fragmented at 60°C for 30 minutes in a reaction volume of 25 ul containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 25 ul of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent SurePrint G3 Human Gene Expression Microarray 8x60K Ver.2.0 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 (G2565CA) using one color scan setting for 8x60K array slides (Scan Area 61x21.6 mm, Scan resolution 3um, Dye channel is set to Green PMT is set to 100%).
Data processing The scanned images were analyzed with Feature Extraction Software (Agilent) using default parameters to obtain background subtracted and spatially detrended Processed Signal intensities.
Submission date Feb 21, 2013
Last update date Dec 17, 2013
Contact name Kosuke Tanegashima
Phone +81-3-5316-3130
Organization name Tokyo Metropolitan Institute of Medical Science
Lab Stem cell project
Street address 2-1-6 Kamikitazawa
City Setagaya-ku
State/province Tokyo
ZIP/Postal code 156-8506
Country Japan
Platform ID GPL17077
Series (1)
GSE44550 THP-1 cells treated with CXCL14

Data table header descriptions
VALUE normalized signal intensity

Data table
A_23_P117082 11133.14055
A_33_P3246448 10.21999935
A_33_P3318220 10.28999874
A_33_P3236322 12.99000067
A_33_P3319925 30.67000507
A_21_P0000509 178897.5371
A_21_P0000744 15676.93603
A_24_P215804 2228.169084
A_23_P110167 16484.0143
A_33_P3211513 622.6898703
A_23_P103349 14.88259811
A_32_P61480 10.64999981
A_33_P3788124 10.67000169
A_33_P3414202 1175.219888
A_33_P3316686 893.970243
A_33_P3300975 661.0799732
A_33_P3263061 10600.58307
A_33_P3261373 10.7000008
A_24_P278460 1921.590222
A_21_P0013109 10.68000043

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.

Supplementary file Size Download File type/resource
GSM1086292_AR0993_02raw.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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