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Sample GSM1867944 Query DataSets for GSM1867944
Status Public on Sep 03, 2015
Title siRNA-mideiated ARID1A down-regulated
Sample type RNA
Source name human invasive breast cancer cells MDA-MB-157 cells
Organism Homo sapiens
Characteristics cell line: human invasive breast cancer cells MDA-MB-157 cells
Extracted molecule total RNA
Extraction protocol total RNAs were extracted using Rneasy mini kit (Qiagen) accoring to the the manufacturer's recommendations.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 600ng RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions.
Hybridization protocol 1.5 ug of Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Whole Human Genome Oligo Microarrays (G4112A) 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 scanned by Agilent Technologies Micorarrray Scanner and calculated using Agilent Feature
Description MOK indicates control siRNA treated cells, while A indicates siRNA-mideiated ARID1A down-regulated cells.
Data processing import to GeneSpring GX
Submission date Sep 02, 2015
Last update date Apr 23, 2018
Contact name Tamotsu Takeuchi
Organization name Gifu University School of Medcine
Department Pathology and Translational Research
Street address Yanagido
City Gifu
ZIP/Postal code 501-1194
Country Japan
Platform ID GPL16699
Series (1)
GSE72669 Genes induced by partial down-regulation of ARID1A in breast cancer cell
Reanalyzed by GSE113533

Data table header descriptions
VALUE Per Chip: Normalize to 75 percentile

Data table
1 209.9653422
2 0.009598901
3 0.008438656
4 5.914153956
5 8.163539482
6 0.01566051
7 0.008990215
8 0.039117609
9 285.0479864
10 5.042738801
11 2.085355287
12 5.60709728
13 0.276643245
14 0.012262292
15 0.008924671
16 0.008941982
17 0.131123166
18 1.184946974
19 0.893168737
20 7.932464172

Total number of rows: 62976

Table truncated, full table size 1089 Kbytes.

Supplementary file Size Download File type/resource
GSM1867944_takeutit08_US82800151_253949423225_S01_GE1_107_Sep09_1_1.txt.gz 12.5 Mb (ftp)(http) TXT
Processed data included within Sample table

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