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Sample GSM1036080 Query DataSets for GSM1036080
Status Public on Nov 01, 2015
Title SHSY5Y cells_Control 2c_rep4
Sample type RNA
 
Source name SHSY5Y cells_Control 2c
Organism Homo sapiens
Characteristics cell line: SHSY5Y (ATCC N. CRL-2266)
cell type: neuroblastoma
Growth protocol Neuroblastoma cells adherent onto Petri dishes at standard density were collected after mild treatment with Trypsin-PBS solution (5 mg/L).
Extracted molecule total RNA
Extraction protocol Total RNA was extracted from 3.5 x 106 cells with Qiagen RNAeasy Mini Kit (Qiagen S.p.A., Milan, Italy) following the manufacturer’s instructions (Animal cells Spin protocol), including genomic DNA elimination step in column. The qualitative parameters A260/A280>1.8, A260/A230>1.7; RNA integrity number>7 were evaluated.
Label Cy3
Label protocol cDNA synthesis and labeling reactions were performed according to the NimbleGen Arrays User’s Guide (V 5.1).
 
Hybridization protocol Hybridization and washing procedures were performed according to the NimbleGen Arrays User’s Guide (V 5.1).
Scan protocol Each microarray was scanned using an Axon GenePix 4400 A at 532 nm and GenePix Pro7 software (Molecular Devices, Sunnyvale, CA, USA).
Data processing The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction.
 
Submission date Nov 13, 2012
Last update date Nov 01, 2015
Contact name Alberto Ferrarini
E-mail(s) alberto.ferrarini@univr.it
Phone +39-045-802-7058
Organization name University of Verona
Department Scientific and Technological Department
Lab Plant Functional Genomics Centre
Street address Strada le Grazie, 15
City Verona
State/province Veneto
ZIP/Postal code 37134
Country Italy
 
Platform ID GPL16025
Series (1)
GSE42236 Extreme sensitivity of gene expression in human neurocytes SH-SY5Y to ultra-low doses of a medicinal plant with anxiolytic-like properties

Data table header descriptions
ID_REF
VALUE RMA-normalized signal intensities.

Data table
ID_REF VALUE
AB000409 2222.7189
AB000463 3030.3613
AB000781 206.3776
AB001328 36.8023
AB002294 4673.0321
AB002308 7755.3885
AB002311 1868.7667
AB002313 15124.649
AB002360 3265.652
AB002377 3674.3593
AB002381 7985.0926
AB002382 10650.236
AB002384 25.1651
AB003177 4153.8499
AB003333 9358.9801
AB006589 56.8646
AB006590 171.131
AB006621 69.7559
AB006625 1202.9454
AB007457 9187.1312

Total number of rows: 45033

Table truncated, full table size 837 Kbytes.




Supplementary file Size Download File type/resource
GSM1036080_534725A02_590_532.pair.gz 2.9 Mb (ftp)(http) PAIR
Processed data included within Sample table

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