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Sample GSM3148496 Query DataSets for GSM3148496
Status Public on Oct 29, 2018
Title G001#4_3_A8936
Sample type RNA
 
Source name spleen
Organism Mus musculus
Characteristics tissue: spleen
Sex: female
strain: C57BL/6
parasite strain: G001#4
replicate mouse: 3
rna sample id: A8936
Treatment protocol An inoculum containing 10×106 iRBC suspended in 100 ml of phosphate-buffered saline, pH 7.4, from donor mice was injected intravenously into each experimental C57BL/6 mouse to initiate infection. Naive mice receiving an equivalent number of uninfected RBCs served as a negative control group. Three to six mice as a group were infected with each parasite, and parasitemia were monitored by microscopic examination of Giemsa-stained thin tail blood smears.
Growth protocol Inbred female C57BL/6 mice, aged 6–8 weeks, were purchased from Charles River Laboratory.
Extracted molecule polyA RNA
Extraction protocol RNA was extracted with Trizol reagent, followed by clean-up and DNase I treatment with QIAGEN RNeasy mini kit in accordance with the prescribed protocol provided with the kit. Quality control was performed with Agilent Bioanalyzer or TapeStation.
Label biotin
Label protocol Biotinylated cRNA were prepared with the Ambion TotalPrep kit for Illumina arrays
 
Hybridization protocol Standard Illumina hybridization protocol
Scan protocol Standard Illumina scanning protocol using HiScan-SQ
Description spleen RNA 24 hr post infection with strain G001#4,mouse replicate 3, RNAsampleID=A8936
Data processing Raw data filtered to include only probes detected in at least two arrays, using the detection_pvalue parameter output from Genome Studio, cutoff is 0.1; Each array normalized using quantile normalization of bead_average intensity, performed using JMP/Genomics software.
 
Submission date May 21, 2018
Last update date Oct 29, 2018
Contact name Timothy G Myers
E-mail(s) [email protected]
Organization name National Institute of Allergy and Infectious Diseases
Department Research Technologies Branch
Lab Genomic Technologies Section
Street address 50 South Drive, Room 5509
City Bethesda
State/province MD
ZIP/Postal code 20892-8005
Country USA
 
Platform ID GPL6887
Series (1)
GSE114718 Systematic detection of host pathways universally inhibited by Plasmodium yoelii parasites for immune intervention

Data table header descriptions
ID_REF
VALUE quantile normalized log2 signal

Data table
ID_REF VALUE
ILMN_1212602 6.714453668
ILMN_1212605 8.917743702
ILMN_1212607 6.644292287
ILMN_1212612 6.780980892
ILMN_1212614 6.574711719
ILMN_1212619 6.758878527
ILMN_1212623 6.667229767
ILMN_1212625 8.675535366
ILMN_1212626 7.443198245
ILMN_1212628 6.610073023
ILMN_1212632 6.711232161
ILMN_1212633 6.900715391
ILMN_1212636 10.24369417
ILMN_1212637 8.093544686
ILMN_1212638 12.97587815
ILMN_1212639 7.024616825
ILMN_1212644 6.700864692
ILMN_1212645 7.476162021
ILMN_1212646 8.711958062
ILMN_1212648 7.691862177

Total number of rows: 40829

Table truncated, full table size 992 Kbytes.




Supplementary file Size Download File type/resource
GSM3148496_9977362008_F.txt.gz 886.4 Kb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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