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Sample GSM2546360 Query DataSets for GSM2546360
Status Public on Jul 26, 2018
Title M0 CM treated A549
Sample type RNA
 
Source name M0 macrophage conditioned media
Organism Homo sapiens
Characteristics cell line: A549
cell type: lung cancer
Treatment protocol A549 cells were treated with M0, M1, and M2 conditioned media.
Growth protocol cultivated in RPMI + 5% fetal bovine serum
Extracted molecule total RNA
Extraction protocol Total RNA were extracted by RNeasy mini kit (Cat. 74106; Qiagen, Hilden, Germany), and 100 ng to 1 ug of total RNA were subjected into reverse transcription using the SuperScriptTM III Reverse transcriptase kit (Invitrogen) as directed by the manufacturer.
Label CY3-CTP
Label protocol 0.2 μg of total RNA was amplified by a Low Input Quick-Amp Labeling kit (Agilent Technologies, USA) and labeled with Cy3 (CyDye, Agilent Technologies, USA) during the in vitro transcription process. 0.6 μg of Cy3-labled cRNA was fragmented to an average size of about 50-100 nucleotides by incubation with fragmentation buffer at 60°C for 30 minutes.
 
Hybridization protocol Correspondingly fragmented labeled cRNA is then pooled and hybridized to Agilent SurePrint G3 Human V2 GE 8×60K Microarray (Agilent Technologies, USA) at 65°C for 17 h.
Scan protocol After washing and drying by nitrogen gun blowing, microarrays are scanned with an Agilent microarray scanner (Agilent Technologies, USA) at 535 nm for Cy3
Description 2 days treatment
Data processing Scanned images are analyzed by Feature extraction10.5.1.1 software (Agilent Technologies, USA), an image analysis and normalization software is used to quantify signal and background intensity for each feature.
 
Submission date Mar 23, 2017
Last update date Jul 26, 2018
Contact name Chih-Chan Lee
E-mail(s) chihchanlee@gmail.com
Phone +886-952-520047
Organization name Molecular medicine program
Street address No.155, Sec.2, Linong Street
City Taipei
ZIP/Postal code 112
Country Taiwan
 
Platform ID GPL17077
Series (1)
GSE96943 Expression analysis of A549 cells following treatment with conditioned medium from polarized macrophages

Data table header descriptions
ID_REF
VALUE Normalized signal is generated from gProcessedSignal after normalized by quantile

Data table
ID_REF VALUE
A_19_P00315452 10.35162516
A_19_P00315459 9.260473306
A_19_P00315482 7.177156931
A_19_P00315492 5.420029584
A_19_P00315493 7.189136095
A_19_P00315502 13.18423527
A_19_P00315506 5.235991203
A_19_P00315518 5.561287079
A_19_P00315519 3.756639532
A_19_P00315524 7.197859538
A_19_P00315528 7.799980641
A_19_P00315529 7.545604904
A_19_P00315538 2.641646416
A_19_P00315541 8.179387032
A_19_P00315543 6.889386538
A_19_P00315550 9.579755454
A_19_P00315551 9.499081341
A_19_P00315554 5.875769165
A_19_P00315581 12.88434098
A_19_P00315583 7.538855162

Total number of rows: 50599

Table truncated, full table size 1255 Kbytes.




Supplementary file Size Download File type/resource
GSM2546360_A549_M0_16854_253949414907_2_1.txt.gz 12.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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