|
| Status |
Public on May 13, 2022 |
| Title |
DMSO vehicle control parasites 24 hpi time point |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Asexual blood stage parasites
|
| Organism |
Plasmodium falciparum |
| Characteristics |
age: 24 hpi
treatment: DMSO vehicle control parasites 24 hpi time point
strain: 3D7 wildtype
|
| Growth protocol |
Plasmodium falciparum parasites were cultured at 37 C under standard conditions in the presence of 5% CO2 and 6% O2 in RPMI 1640 media. The media was supplemented with HEPES, NaHCO3, hypoxanthine, 2.5% (w/v) Albumax II, and gentamycin (50 ug/ml).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol following manufacturer's instructions
|
| Label |
Cy5
|
| Label protocol |
Painter, H. J., Altenhofen, L. M., Kafsack, B. F. C. & Llinás, M. Whole-genome analysis of Plasmodium spp. Utilizing a new agilent technologies DNA microarray platform. Methods Mol. Biol. 923, 213–219 (2013).
|
| |
|
| Channel 2 |
| Source name |
pooled asexual blood stage P. falciparum total RNA
|
| Organism |
Plasmodium falciparum |
| Characteristics |
strain: 3D7 wildtype
|
| Growth protocol |
Plasmodium falciparum parasites were cultured at 37 C under standard conditions in the presence of 5% CO2 and 6% O2 in RPMI 1640 media. The media was supplemented with HEPES, NaHCO3, hypoxanthine, 2.5% (w/v) Albumax II, and gentamycin (50 ug/ml).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using Trizol following manufacturer's instructions
|
| Label |
Cy3
|
| Label protocol |
Painter, H. J., Altenhofen, L. M., Kafsack, B. F. C. & Llinás, M. Whole-genome analysis of Plasmodium spp. Utilizing a new agilent technologies DNA microarray platform. Methods Mol. Biol. 923, 213–219 (2013).
|
| |
|
| |
| Hybridization protocol |
Painter, H. J., Altenhofen, L. M., Kafsack, B. F. C. & Llinás, M. Whole-genome analysis of Plasmodium spp. Utilizing a new agilent technologies DNA microarray platform. Methods Mol. Biol. 923, 213–219 (2013).
|
| Scan protocol |
Scanned on an Axon 4200A Scanner
Agilent Feature Extraction Software version 11.0.1.1 was used to extract signal intensities
|
| Description |
DMSO vehicle control parasites time point 4 of 7. Biological replicate 1 of 1.
DMSO_24
|
| Data processing |
LIMMA was used to normalize and extract signal intensities. Arrays were normalized using robust splines normalization and gene expression values were averaged across probes.
|
| |
|
| Submission date |
May 12, 2022 |
| Last update date |
May 13, 2022 |
| Contact name |
Timothy J Russell |
| E-mail(s) |
tjr30@psu.edu
|
| Phone |
17742693971
|
| Organization name |
Pennsylvania State University
|
| Street address |
W122 Millennium Science Complex
|
| City |
STATE COLLEGE |
| State/province |
PA |
| ZIP/Postal code |
16802 |
| Country |
USA |
| |
|
| Platform ID |
GPL15130 |
| Series (1) |
| GSE202876 |
Identification of antimalarial compounds that inhibit Apicomplexan AP2 transcription factor proteins in the human malaria parasite Plasmodium falciparum |
|
