biostudies-arrayexpressEugenia OngHomo sapienshttps://www.ebi.ac.uk/biostudies/studies/E-MTAB-16858RNA was extracted from whole blood of subjects collected in Tempus tubes. We assessed host response over time following YF17D vaccination in placebo and gentamicin groups.biostudies-arrayexpressSample Collection - Blood was collected in Tempus tubes from subjects, and Tempus tubes were stored at -80deg until RNA extraction. We performed gene expression analysis of host response over time following YF17D vaccination in placebo and gentamicin groups.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.Library Construction - 1 μg total RNA was used for following library preparation. The poly(A) mRNA isolation was performed using Oligo(dT) beads. The mRNA fragmentation was performed using divalent cations and high temperature. Priming was performed using Random Primers. First strand cDNA and the second-strand cDNA were synthesized. The purified double-stranded cDNA was treated to repair both ends and add a dA-tailing in one reaction, followed by a T-A ligation to add adaptors to both ends. Size selection of Adaptor-ligated DNA was then performed using DNA Clean Beads. Each sample was then amplified by PCR using P5 and P7 primers and the PCR products were validated.Sample Treatment - Subjects were randomised into placebo or treatment group prior to vaccination with YF17D.Sequencing - Libraries with different indexes were multiplexed and loaded on an Illumina Novaseq instrument for sequencing using a 2x150 paired-end (PE) configuration according to manufacturer’s instructions.OrganizationMINSEQE ScoreAssays and DataProcessed DataMAGE-TAB FilesSequence Alignment - Short-read alignment was performed using Hisat2 (v2.0.1) with default parameters to the reference genome Emsembl GRCh38.p13.Data Transformation - Pre-processing of data included removal of adapter sequences and filtering of low-quality reads (5' or 3' end bases that contains N’s or of quality values below 20) and contaminations (reads that are less than 75 bp long after trimming) by Cut adapt. Filtered data were subsequently aligned to reference genome using Hisat2 with default parameters. Differential gene expression analysis was subsequently conducted using DESeq2 package. Raw counts were imported into DESeq2 and genes with counts of less than 10 were filtered out prior to normalisation.MetabolomicsUnknownTranscriptomicsGenomicsProteomicsIllumina NovaSeq 6000RNA-seq of coding RNAHomo sapiensEugenia OngfalseRNA-seq of healthy individuals that received placebo or gentamicin prior to YF17D vaccinationRNA was extracted from whole blood of subjects collected in Tempus tubes. We assessed host response over time following YF17D vaccination in placebo and gentamicin groups.2026-05-15T00:00:00Z2026-05-15T01:00:41.807Z2026-04-07T11:07:43.82ZE-MTAB-16858ERP191808EFO_0002944EFO_0004170EFO_0004917EFO_0005518EFO_0003816EFO_0003738EFO_0004184EFO_0003969