|
| Status |
Public on Jul 01, 2014 |
| Title |
THP-1 exposed to S1 + S2 |
| Sample type |
RNA |
| |
|
| Source name |
THP-1 exposed to S1 + S2 (LPS+, nigericin +)
|
| Organism |
Homo sapiens |
| Characteristics |
cell line: human monocyte cell line THP-1
treatment: S1+S2
|
| Treatment protocol |
To load the Signal 1 (S1), THP-1 cells were incubated for 3 hours in the culture medium with or without inclusion of 0.2 microgram/ml lipopolysaccharide (LPS). To load the Signal 2 (S2), they were incubated further for 2 hours in the culture medium supplemented with 10 microM nigericin sodium salt dissolved in ethanol or the equal v/v% concentration of ethanol (vehicle).
|
| Growth protocol |
THP-1 cells provided by Riken Cell Bank were maintained in RPMI 1640 medium supplemented with 10% fetal bovine serum (FBS), 55 microM 2-mercaptoethanol, 2 mM L-glutamine, 100 U/ml penicillin and 100 microgram/ml streptomycin (culture medium).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total cellular RNA was isolated by using the TRIZOL Plus RNA Purification kit (Invitrogen). The quality of total RNA was evaluated on Agilent 2100 Bioanalyzer (Agilent Technologies).
|
| Label |
biotin
|
| Label protocol |
Three hundred ng of total RNA was processed for cDNA synthesis, fragmentation, and terminal labeling with the GeneChip Whole Transcript Sense Target Labeling and Control Reagents (Affymetrix).
|
| |
|
| Hybridization protocol |
Hybridization was performed at 45℃ for 17 hours. The arrays were washed and stained in the GeneChip Fluidic Station 450 (Affymetrix) by using Hybridization, Wash and Stain kit (Affymetrix).
|
| Scan protocol |
The arrays were scanned by the GeneChip Scanner 3000 7G (Affymetrix).
|
| Description |
Gene expression data from THP-1 exposed to S1 + S2 (LPS+, nigericin +)
|
| Data processing |
The data expressed as CEL files were normalized by the robust multiarray average (RMA) method with the Expression Console software (Affymetrix).
|
| |
|
| Submission date |
Jul 01, 2014 |
| Last update date |
Jul 01, 2014 |
| Contact name |
Jun-ichi Satoh |
| E-mail(s) |
satoj@my-pharm.ac.jp
|
| Organization name |
Meiji Pharmaceutical University
|
| Department |
Bioinformatics
|
| Lab |
Molecular Neuropathology
|
| Street address |
2-522-1 Noshio, Kiyose
|
| City |
Tokyo |
| ZIP/Postal code |
204-8588 |
| Country |
Japan |
| |
|
| Platform ID |
GPL6244 |
| Series (1) |
| GSE58959 |
NLRP3 inflammasome activation-responsive genes in a human monocyte cell line THP-1 |
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