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Series GSE59097 Query DataSets for GSE59097
Status Public on Jul 15, 2014
Title Whole genome expression profiling of artemsinin-resistant Plasmodium falciparum field isolates [in vivo]
Organism Plasmodium falciparum
Experiment type Expression profiling by array
Summary The objective of our study is to characterize gene expression signatures associated with in vivo artemisinin-resistance phenotype in this large-scale genome-wide association study. To achieve this goal, we employed microarray technology to establish the global gene expression profiles of isolates sampled from 1043 patients, of whom after treatment with ACTs (artemisinin combination therapy) displayed differential rates of parasite clearance.
 
Overall design P. falciparum isolates were sampled from the whole blood of 1043 malaria-infected patients prior to ACT treatment. Sampling was done across 14 field sites spanning across South East Asia (Pailin, Pursat, Preah Vihear, Rattanakiri in Cambodia; Mae Sot, Srisakhet, Khun Han, Ranong in Thailand; Shwe Kyin in Myanmar; Binh Phuoc in Vietnam; Attapeu in Laos), to Bangladesh and African DR Congo from 2010 to 2012. RNA were extracted and synthesis and amplification of target DNA was carried out as described in Bozdech, Z., S. Mok & A. P. Gupta, (2013) DNA microarray-based genome-wide analyses of Plasmodium parasites. Methods in molecular biology 923: 189-211 (PMID 22990779), to generate sufficient material for hybridizations against a common RNA reference pool of 3D7 strain using a microarray platform.
 
Contributor(s) Mok S, Lin Z, Liong K, Guo W, Sim J, Yeo T, Bozdech Z
Citation(s) 25502316, 30514877
Submission date Jul 05, 2014
Last update date Dec 10, 2018
Contact name Sachel Mok
E-mail(s) moks0007@ntu.edu.sg
Organization name Nanyang Technological University, School of Biological Sciences
Lab Bozdech Lab (ZB Lab)
Street address 60 Nanyang Drive, 04n-18, School of Biological Sciences
City Singapore
ZIP/Postal code 637551
Country Singapore
 
Platforms (1)
GPL18893 ZB/SBS-NTU Plasmodium falciparum 3D7 11.4K v2
Samples (1043)
GSM1427365 BD001-001-219888
GSM1427366 BD001-002-219908
GSM1427367 BD001-003-219688
This SubSeries is part of SuperSeries:
GSE59099 Whole genome expression profiling of artemsinin-resistant Plasmodium falciparum field isolates
Relations
BioProject PRJNA254409

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE59097_RAW.tar 1.2 Gb (http)(custom) TAR (of GPR)
Raw data provided as supplementary file
Processed data included within Sample table

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