biostudies-arrayexpressMetabolomicsUnknownTranscriptomicsGenomicsProteomicsEugenia Ongtranscription profiling by arrayHomo sapiensHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-13470Samples were collected from the DEN210 study, a phase IIb clinical trial evaluating two doses of TAK003, a tetravalent dengue vaccine, administered 90 days apart in healthy adult participants with and without prior DENV infection (NCT03746015). RNA was extracted from whole blood collected in Paxgene tubes from volunteers at Day 1, 4, 6, 90, 94 and 96. Day 1 and Day 90 samples were collected prior to administration of first and second TAK-003 vaccine dose. We performed gene expression analysis in dengue seronegative and seropositive individuals over time.biostudies-arrayexpressLabeling - Fragmented, labelled single-stranded cDNA were prepared from 200ng of total RNA using Affymetrix GeneChip Whole Transcript (WT) PLUS Reagent Kit, according to the manufacturer’s instructions. Each DNA fragment was end-labeled with biotin using terminal deoxynucleotidyl transferase before hybridization on the arrays.Nucleic Acid Extraction - RNA extraction from whole blood was performed using the Tempus Spin RNA Isolation kit (Thermo Scientific). RNA was eluted in 90ul of RNase-free water.Hybridization - Hybridization cocktails containing fragmented, end-labeled cDNA were prepared and applied to GeneChip Human Gene 2.0 ST arrays. Hybridization was performed at 60 rpm for 16h at 45°C using the FS450_0001 fluidics protocol.Scaning - Scanning was done using the GeneChip® Scanner 3000 7G (Affymetrix Inc., Santa Clara, CA) and Affymetrix GeneChip Command Console Software (AGCC) to produce .CEL intensity files.Sample Collection - Blood was collected in Paxgene tubes from subjects prior to TAK-003 vaccination, and at indicated time points post-vaccination. Tempus tubes were stored at -80deg until RNA extraction. We performed gene expression analysis in dengue seronegative and seropositive individuals over time.MIAME ScoreRaw DataOrganizationAssays and DataProcessed DataMAGE-TAB FilesArray DesignsEugenia OngData Transformation - Microarray .CEL files were imported into Partek Genomics Suite v7.21 (PGS) for gene assignment and intensity signal was quantile-normalized and log2 transformed.falseMicroarray analysis of dengue seronegative or seropositive volunteers that received the tetravalent dengue vaccine TAK-003Samples were collected from the DEN210 study, a phase IIb clinical trial evaluating two doses of TAK003, a tetravalent dengue vaccine, administered 90 days apart in healthy adult participants with and without prior DENV infection (NCT03746015). RNA was extracted from whole blood collected in Paxgene tubes from volunteers at Day 1, 4, 6, 90, 94 and 96. Day 1 and Day 90 samples were collected prior to administration of first and second TAK-003 vaccine dose. We performed gene expression analysis in dengue seronegative and seropositive individuals over time.2025-09-08T00:00:00Z2025-09-09T00:02:26.316Z2023-10-20T11:10:49.626ZE-MTAB-13470EFO_0002768EFO_0002944EFO_0003814EFO_0003813EFO_0005518EFO_0003816EFO_0003815