NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM813055 Query DataSets for GSM813055
Status Public on Oct 11, 2011
Title C33A_24h_10Amol/L5AZA
Sample type RNA
 
Source name 10Amol/L5AZA_treated
Organism Homo sapiens
Characteristics cell line: C33A
cell type: cervical cancer cells
Treatment protocol Four cervical cancer cells were choosed for this study,No.1 samples were treated with 5-azacytidine for 24hrs,the other samples were untreated , then cultured with RPMI 1640 medium supplemented with 10% heat-inactivated fetal bovine serum for 48 hours at 37 ℃ in a humidified incubator with 5% CO2 .
Extracted molecule total RNA
Extraction protocol RNA was prepared using the trizol® Reagent (Invitrogen life technologies) following the manufacturer's recommendations. The protocol includes differential lysis of C33A, CASKI, HeLa, and SIHA cells, and RNasey Mini Kit(Qiagen p/n 74104). RNA quantification and quality control used a NanoDrop-1000 spectrophotometer.
Label Hy3
Label protocol Hy3™ labeled cRNA was prepared from 1 ug RNA using the miRCURYTM Array Power Labeling kit (Cat #208032-A, Exiqon) according to the manufacturer's instructions. Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
 
Hybridization protocol 12.5 ul of Hy3-labelled sample mixed with 2×Hybridization buffer and Nuclease-free Buffer in a reaction volume of 180 ul was Prepare the hybridization mix in a PCR tube.Load the 180ul target hybridization mix into the hybridization assembly through the sample loading opening .Place the hybridization assembly into a 56C oven and set it on a rotator at 2 rotations per minute (RPM) for overnight.After hybridization, disassembled the hybridization assembly, and wash the slides at 56C for 2min. using Wash buffer A.Wash for 2min. at room temperature in Wash buffer B and C.Wash briefly in water.Dry the slides by centrifugation for 5 min at 200g (1000rpm).
Scan protocol Slides were scanned immediately after washing on the Axon GenePix 4000B microarray scanner.
Description Gene expression after 24hr in 10 Amol/L 5-aza-2'-deoxycytidine
Data processing GenePix pro V6.0 is used to read the raw intensity of the image.The intensity of green signal is calculated after background subtraction and four Replicated spots of each probe on the same slide have been averaged. Median Normalization Method was used to obtain 'Normalized Data', Normalized Data = (Foreground-Background)/median, the median is 50 percent quantile of microRNA intensity which is larger than 50 in all samples after background correction. After normalization, the statistical significance of differentially expressed miRNA was analyzed by T-test. Unsupervised hierarchical clustering and Correlation analysis was performed on miRNA data.
 
Submission date Oct 10, 2011
Last update date Oct 11, 2011
Contact name yao ting ting
E-mail(s) squall41269@21cn.com
Phone 008613265991256
Fax 00862081332199
Organization name SUN YAT-SEN MEMORIAL,HOSPITAL,SUN YAT-SEN UNIVERSITY
Street address 107 Riverside Road
City guangzhou
ZIP/Postal code 510000
Country China
 
Platform ID GPL7723
Series (1)
GSE32724 MicroRNA signatures in human cervical cancer

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
4610 0.060993606
11013 0.053123463
11102 0.003935071
17306 0.063944909
17529 0.03639941
17660 0.127889818
17940 0.024594196
5740 3.603541564
11020 3.524840138
11111 0.019675357
11222 0.012788982
17327 0.787998032
17536 0.002951303
17732 0.019675357
17953 1.279881948
10306 0.020659124
11024 0.064928677
11123 0.111165765
11277 0.020659124
17338 0.065912445

Total number of rows: 1354

Table truncated, full table size 23 Kbytes.




Supplementary file Size Download File type/resource
GSM813055_A1.gpr.gz 560.2 Kb (ftp)(http) GPR
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap