NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM1036093 Query DataSets for GSM1036093
Status Public on Nov 01, 2015
Title SHSY5Y cells_Control 9c_rep1
Sample type RNA
 
Source name SHSY5Y cells_Control 9c
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 2439.7862
AB000463 2689.776
AB000781 197.1406
AB001328 37.9333
AB002294 4595.1426
AB002308 7097.0915
AB002311 1473.1678
AB002313 13091.5618
AB002360 4571.529
AB002377 3062.361
AB002381 7773.2743
AB002382 10525.7426
AB002384 27.1363
AB003177 4430.9576
AB003333 8892.7818
AB006589 70.7683
AB006590 175.7399
AB006621 46.6429
AB006625 260.4508
AB007457 10077.2142

Total number of rows: 45033

Table truncated, full table size 837 Kbytes.




Supplementary file Size Download File type/resource
GSM1036093_534722A10_570_532.pair.gz 2.9 Mb (ftp)(http) PAIR
Processed data included within Sample table

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