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Sample GSM2176296 Query DataSets for GSM2176296
Status Public on Feb 14, 2018
Title Wild type Plasmodium falciparum rep 10
Sample type RNA
 
Source name wild type Plasmodium falciparum, merozoite stage
Organism Plasmodium falciparum
Characteristics strain/background: 3D7
genotype/variation: wild type
developmental stage: merozoite
Treatment protocol WT vs. LLM.
Growth protocol Merozoites were passed through a 5% sucrose cushion at 1500 x g for 7 mins, followed by a PBS wash at 5000 x g for 10 mins.
Extracted molecule total RNA
Extraction protocol RNA was extracted using the RNeasy 96 kit according to manufacturer's recommendations.
Label biotin
Label protocol Labeling was performed using the Ovation Pico WTA system (Nugen Inc., San Carlos, CA).
 
Hybridization protocol Samples were hybridized onto Affymetrix GeneChip Plasmodium/Anopheles arrays according to manufacturer's recommendations.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 7GPlus.
Description Gene expression data from wild type Plasmodium falciparum, merozoite stage rep 10.
Data processing The data were analyzed with Expression Console (EC) 1.4 using Affymetrix default analysis with a Scale factor normalization method (mas5).
 
Submission date May 24, 2016
Last update date May 20, 2018
Contact name Dan Sturdevant
E-mail(s) dsturdevant@niaid.nih.gov
Phone 4063639248
Organization name NIH
Department NIAID
Lab RTS
Street address 903 S 4th street
City Hamilton
State/province MT
ZIP/Postal code 59840
Country USA
 
Platform ID GPL1321
Series (1)
GSE81818 Profiling γ-irradiated invasive Plasmodium falciparum merozoites using a systems biology approach

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 3640.86 P 4.42873e-05
AFFX-BioB-M_at 5016.25 P 4.42873e-05
AFFX-BioB-3_at 4091.56 P 4.42873e-05
AFFX-BioC-5_at 9420.47 P 4.42873e-05
AFFX-BioC-3_at 7330.24 P 4.42873e-05
AFFX-BioDn-5_at 17804.3 P 4.42873e-05
AFFX-BioDn-3_at 26103.1 P 4.42873e-05
AFFX-CreX-5_at 68783.8 P 4.42873e-05
AFFX-CreX-3_at 73085.3 P 4.42873e-05
AFFX-DapX-5_at 133.259 A 0.0726999
AFFX-DapX-M_at 263.25 P 0.000662269
AFFX-DapX-3_at 516.238 P 7.00668e-05
AFFX-LysX-5_at 42.4095 A 0.724854
AFFX-LysX-M_at 81.9133 P 0.0309764
AFFX-LysX-3_at 80.4822 P 0.026111
AFFX-PheX-5_at 5.05375 A 0.910522
AFFX-PheX-M_at 19.8986 A 0.645547
AFFX-PheX-3_at 87.7661 P 0.0103167
AFFX-ThrX-5_at 36.491 A 0.470241
AFFX-ThrX-M_at 29.1571 A 0.327079

Total number of rows: 22769

Table truncated, full table size 855 Kbytes.




Supplementary file Size Download File type/resource
GSM2176296_3673_KK_1_Pf_10_S-HD-G11-4434_1_6651.CEL.gz 2.0 Mb (ftp)(http) CEL
GSM2176296_3673_KK_1_Pf_10_S-HD-G11-4434_1_6651.S1250_PL.mas5.CHP.gz 220.4 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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