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Sample GSM1836764 Query DataSets for GSM1836764
Status Public on Oct 01, 2015
Title WT_treated_with_sulfadiazine_4
Sample type RNA
 
Source name P. berghei parasites treated with sulfadiazine
Organism Plasmodium berghei ANKA
Characteristics genotype/variation: wild-type
infection host: female Balb/c mice
tissue: blood infected with P. berghei parasites
Treatment protocol To kill asexual stage parasites, eight-week-old female Balb/c mice infected with AP2-G2(-) or wild-type parasites were treated with sulfadiazine in drinking water (10 mg/l) for two days. Five biologically independent experiments were performed in both AP2-G2(−) and wild-type parasite samples.
Growth protocol Eight-week-old female Balb/c mice were intraperitoneally injected with a glycerol stock of AP2-G2(-) or wild-type parasites. Whole blood was harvested from these mice after treatment with sulfadiazine.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the RNeasy mini kit (Qiagen, Hilden, Germany) according to the manufacturer’s protocols.
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared from 1.0 ug RNA using the One-Color Low RNA Input Linear Amplification PLUS kit (Agilent) according to the manufacturer's instructions, followed by RNAeasy column purification (QIAGEN, Valencia, CA). Dye incorporation and cRNA yield were checked with the NanoDrop ND-1000 Spectrophotometer.
 
Hybridization protocol 1.65 ug Cy3-labelled cRNA (specific activity >10.0 pmol Cy3/ug cRNA) was fragmented at 60°C for 30 minutes in a reaction volume of 250 ml containing 1x Agilent fragmentation buffer and 2x Agilent blocking agent following the manufacturers instructions. On completion of the fragmentation reaction, 250 ml of 2x Agilent hybridization buffer was added to the fragmentation mixture and hybridized to Agilent Whole Human Genome Oligo Microarrays (G4112A) for 17 hours at 65°C in a rotating Agilent hybridization oven. After hybridization, microarrays were washed 1 minute at room temperature with GE Wash Buffer 1 (Agilent) and 1 minute with 37°C GE Wash buffer 2 (Agilent), then dried immediately by brief centrifugation.
Scan protocol Slides were scannedon the Agilent DNA Microarray Scanner (G2565BA) using one color scan setting for 1x44k array slide.
Data processing The scanned images were analyzed with Feature Extraction Software 9.1 (Agilent) using default parameters.
 
Submission date Jul 30, 2015
Last update date Oct 01, 2015
Contact name masao yuda
E-mail(s) m-yuda@doc.medic.mie-u.ac.jp
Organization name mie university
Street address edobashi 2-174
City tsu
State/province mie
ZIP/Postal code 514-0001
Country Japan
 
Platform ID GPL19816
Series (2)
GSE66188 Global Transcriptional Repression: Initial and Essential Step for Plasmodium Sexual Development [expression array]
GSE66190 Global Transcriptional Repression: Initial and Essential Step for Plasmodium Sexual Development

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
CUST_11279_PI425874739 0.111
CUST_3653_PI425874739 0.494
CUST_19071_PI425874739 0.673
CUST_16109_PI425874739 0.5
CUST_18069_PI425874739 3.22
CUST_17664_PI425874739 0.318
CUST_4047_PI425874739 0.353
CUST_15064_PI425874739 0.0191
CUST_14494_PI425874739 0.523
CUST_5967_PI425874739 31.28
CUST_4353_PI425874739 0.195
CUST_17475_PI425874739 4.875
CUST_6606_PI425874739 0.0582
CUST_18578_PI425874739 19.28
CUST_721_PI425874739 5.521
CUST_2448_PI425874739 0.0773
CUST_7708_PI425874739 0.189
CUST_4959_PI425874739 44.43
CUST_9293_PI425874739 0.989
CUST_13574_PI425874739 3.104

Total number of rows: 19464

Table truncated, full table size 538 Kbytes.




Supplementary data files not provided
Processed data included within Sample table

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