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Status |
Public on Nov 02, 2021 |
Title |
SK-N-SH_haloperidol_low_rep2 [SHAP05] |
Sample type |
genomic |
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Source name |
human neuroblastoma cells (SK-N-SH) with 1 uM haloperidol
|
Organism |
Homo sapiens |
Characteristics |
cell type: human neuroblastoma cells (SK-N-SH) treatment: Hal2
|
Treatment protocol |
We used low and high concentrations of haloperidol (1 uM and 10 uM) and risperidone (3 uM and 30 uM) based on their effective blood concentrations. The antipsychotics were dissolved in dimethyl sulfoxide (DMSO). Final concentrations of DMSO were 0.001% to 0.06%, depending on the dose of antipsychotics. The cells were cultured with or without 0.06% of DMSO as a control.
|
Growth protocol |
Human neuroblastoma SK-N-SH cells were cultured with Eagle’s minimal essential medium with 10% fetal bovine serum containing antipsychotics for 8 days.
|
Extracted molecule |
genomic DNA |
Extraction protocol |
Genomic DNA was extracted via standard phenol:chloroform methods. The DNA samples were subjected to bisulfite modification by the EZ DNA Methylation Kit D500 (Zymo Research,).
|
Label |
Cy5 and Cy3
|
Label protocol |
Standard Illumina Protocol was used.
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Hybridization protocol |
Bisulfite converted DNA was amplified, processed and hybridized to Illumina HumanMethylation450 Beadchip using standard Illumina protocol.
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Scan protocol |
Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting.
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Data processing |
Illumina BeadStudio was used, according to the manufacturer's instructions. Average Beta values (Beta value was calculated according to the ratio of intensities between methylated and unmethylated alleles, as in the following formula: beta value = methylated intensity/(methylated intensity + unmethylated intensity + 100) ). Unmethylated and methylated signal intensities (same as signalA and signalB on BeadStudio output, respectively).
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Submission date |
Oct 15, 2021 |
Last update date |
Nov 02, 2021 |
Contact name |
Kazuya Iwamoto |
E-mail(s) |
iwamotok@kumamoto-u.ac.jp
|
Phone |
+81-96-373-5054
|
Organization name |
Kumamoto University
|
Department |
Faculty of Life Sciences
|
Lab |
Department of Molecular Brain Science
|
Street address |
1-1-1 Honjo, Chuo-ku
|
City |
Kumamoto |
ZIP/Postal code |
860-8556 |
Country |
Japan |
|
|
Platform ID |
GPL16304 |
Series (1) |
GSE185973 |
Comprehensive DNA methylation analysis of human neuroblastoma cells treated with haloperidol and risperidone |
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