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Sample GSM2433490 Query DataSets for GSM2433490
Status Public on Dec 05, 2019
Title H1299-shCNOT2
Sample type RNA
 
Source name non small lung cancer cell
Organism Homo sapiens
Characteristics cell line: H1299
cell type: non small lung cancer cell
tissue: lung
genotype/variation: CNOT knockdown
Treatment protocol CNOT2 gene was knocked down for 48 hr and melatonin 1mM was treated for 24 hr.
Growth protocol A549 and H1299 were grown in RPMI with 10% FBS and antibiotics. XO1 and XO2 were grown in DMEM-F12 with B27 and antibiotics supplemented with growth factors (EGF and bFGF).
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions.
Label Cy3
Label protocol Amplified and labeled cRNA was purified on cRNA Cleanup Module (Agilent Technology) according to the manufacturer’s protocol. Labeled cRNA target was quantified using ND-1000 spectrophotometer (NanoDrop Technologies, Inc., Wilmington, DE).
 
Hybridization protocol After checking labeling efficiency, fragmentation of cRNA was performed by adding 10X blocking agent and 25X fragmentation buffer and incubating at 60oC for 30 min. The fragmented cRNA was resuspended with 2X hybridization buffer and directly pipetted onto assembled Agilent’s Human Oligo Microarray (60K). The arrays hybridized at 65oC for 17 hours using Agilent Hybridization oven (Agilent Technology, USA). The hybridized microarrays were washed as the manufacturer’s washing protocol (Agilent Technology, USA).
Scan protocol The hybridized images were scanned using Agilent’s DNA microarray scanner and quantified with Feature Extraction Software (Agilent Technology, Palo Alto, CA).
Description 4. H1299-shCNOT2
Data processing All data normalization and further analysis were performed using GeneSpringGX 7.3 (Agilent Technology, USA).
 
Submission date Dec 20, 2016
Last update date Dec 05, 2019
Contact name Hyemin Lee
E-mail(s) glansy555@gmail.com
Organization name Kyunghee Univ
Street address Kyunghee-dae-ro 26
City Seoul
ZIP/Postal code 131701
Country South Korea
 
Platform ID GPL17077
Series (1)
GSE92612 CNOTshRNA or Melatonin treated samples

Data table header descriptions
ID_REF
VALUE Log2 normalized signal intensity (Global normalization)

Data table
ID_REF VALUE
A_19_P00315452 11202.29
A_19_P00315459 319.3824
A_19_P00315482 13.23018
A_19_P00315492 28.05858
A_19_P00315493 926.3749
A_19_P00315502 11.68487
A_19_P00315506 8.04076
A_19_P00315518 7.220496
A_19_P00315519 12.97911
A_19_P00315524 28.17672
A_19_P00315528 148.7347
A_19_P00315529 149.3331
A_19_P00315538 4.467114
A_19_P00315541 4.813691
A_19_P00315543 86.45439
A_19_P00315550 253.2416
A_19_P00315551 349.483
A_19_P00315554 17.16029
A_19_P00315581 5781.966
A_19_P00315583 744.6687

Total number of rows: 50599

Table truncated, full table size 1108 Kbytes.




Supplementary file Size Download File type/resource
GSM2433490_4._H1299-shCNOT2.txt.gz 3.1 Mb (ftp)(http) TXT
Processed data included within Sample table

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