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Sample GSM1018640 Query DataSets for GSM1018640
Status Public on Oct 12, 2012
Title SNAPC1_unstimulated_rep3
Sample type RNA
 
Source name Hela
Organism Homo sapiens
Characteristics cell line: Hela
genotype/variation: SNAPC1_depleted
treatment: unstimulated
Treatment protocol cells were starved in 1% serum overnight, then treated with 100 ng/microl of recombinant EGF
Growth protocol Hela cells were transfected with sh vectors and selected in puromycin, medium was DMEM + 10% FBS
Extracted molecule total RNA
Extraction protocol cells were harvested and lysed in RLT buffer (Qiagen), total RNA was extracted with Rneasy mini kit
Label biotin
Label protocol samples were biotin-labeled using the TargetAmp™-Nano Labeling Kit for Illumina Expression BeadChip (Epicentre)
 
Hybridization protocol Biotin labeled aRNA at 750ng was hybridized to Illumina HumanHT-12V4 expression Beadchip with Illumina HumanHT-12 v4 Expression BeadChip Kit(cat# BD-103-0204 ) Subsequent steps include washing, blocking, and streptavadin-Cy3 staining of the beadchip.
Scan protocol Fluorescence emission by Cy3 is quantitatively detected with Illumina BeadArray Reader( scan software : Illumina BeadSacn) and GenomeStudio software provides results in standard file format
Description SNAPC1_0_rep3
unstimulated_rep3
Data processing Intensity raw data were log2 transformed and normalized by quantile normalization using BeadArray package on R
 
Submission date Oct 12, 2012
Last update date Oct 12, 2012
Contact name Alessandro Gardini
E-mail(s) [email protected]
Phone 305-243-7394
Organization name University of Miami
Department Sylvester Comprehensive Cancer Center
Lab Ramin Shiekhattar
Street address 1501 NW 10 Avenue
City Miami
State/province FL
ZIP/Postal code 33136
Country USA
 
Platform ID GPL10558
Series (2)
GSE41528 Genome-wide analysis of the SNAPc complex [Illumina array]
GSE41529 Genome-wide analysis of the SNAPc complex

Data table header descriptions
ID_REF
VALUE log2 fluorescence value, normalized using BeadArray

Data table
ID_REF VALUE
ILMN_1762337 7.389307651
ILMN_2055271 7.586505433
ILMN_1736007 7.041621138
ILMN_2383229 7.057557526
ILMN_1806310 7.252405911
ILMN_1779670 7.072733511
ILMN_1653355 7.41436987
ILMN_1717783 6.518865416
ILMN_1705025 7.161177135
ILMN_1814316 7.279073697
ILMN_2359168 6.461923047
ILMN_1731507 6.594995815
ILMN_1787689 7.378595038
ILMN_3241953 8.760113217
ILMN_1745607 11.1594565
ILMN_2136495 6.596247744
ILMN_1668111 6.957829121
ILMN_2295559 7.087461949
ILMN_1735045 9.11731434
ILMN_1680754 6.99304715

Total number of rows: 47231

Table truncated, full table size 1147 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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