Virus Dataset Detail

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Dataset Information
Accession GSE279208
Status 2024/10/10
Title Unraveling potential gene biomarkers for dengue infection through RNA sequencing
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary This pilot study, aimed to profile the host transcriptome as a potential strategy for identifying specific biomarkers for dengue prediction and detection. High-throughput RNA-sequencing (RNA-seq) was employed to generate host transcriptome profiles in 16 dengue patients and 10 healthy controls. Differentially expressed genes (DEGs) were identified in patients with severe dengue and those with dengue with warning signs compared to healthy individuals. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were performed to elucidate the functions of upregulated and downregulated genes. Compared to healthy controls, 6466 genes were significantly differentially expressed (P < 0.05) in the dengue with warning signs group and 3082 genes in the severe dengue group, with over half being upregulated. The major KEGG pathways implicated included transport and catabolism (14.4%-16.3%), signal transduction (6.6%-7.3%), global and overview maps (6.7%-7.1%), viral diseases (4.6%-4.8%), and the immune system (4.4%-4.6%). Several genes exhibited consistent and significant upregulation across all dengue patients, regardless of severity: Interferon alpha inducible protein 27 (IFI27), Potassium Channel Tetramerisation Domain Containing 14 (KCTD14), Syndecan 1 (SDC1), DCC netrin 1 receptor (DCC), Ubiquitin C-terminal hydrolase L1 (UCHL1), Marginal zone B and B1 cell specific protein (MZB1), Nestin (NES), C-C motif chemokine ligand 2 (CCL2), TNF receptor superfamily member 17 (TNFSF17), and TNF receptor superfamily member 13B (TNFRSF13B). Further analysis revealed potential biomarkers for severe dengue prediction, including TNF superfamily member 15 (TNFSF15), Plasminogen Activator Inhibitor-2 (SERPINB2), motif chemokine ligand 7 (CCL7), aconitate decarboxylase 1 (ACOD1), Metallothionein 1G (MT1G) and Myosin Light Chain Kinase (MYLK2), which were expressed 3.5 times, 2.9 times, 2.3 times, 2.1 times, 1.7 times, and 1.4 times greater, respectively, than dengue patients exhibiting warning signs. The identification of these host biomarkers through RNA-sequencing holds promising implications and potential to augment existing dengue detection algorithms, contributing significantly to improved diagnostic and prognostic capabilities.
Samples
GSM ID Sample info Characteristics Description
GSM8564259 Blood sample from healthy control 1 tissue:blood/pbmc; disease state:healthy -
GSM8564260 Blood sample from healthy control 2 tissue:blood/pbmc; disease state:healthy -
GSM8564261 Blood sample from healthy control 3 tissue:blood/pbmc; disease state:healthy -
GSM8564262 Blood sample from healthy control 4 tissue:blood/pbmc; disease state:healthy -
GSM8564263 Blood sample from healthy control 5 tissue:blood/pbmc; disease state:healthy -
GSM8564264 Blood sample from healthy control 6 tissue:blood/pbmc; disease state:healthy -
GSM8564265 Blood sample from healthy control 7 tissue:blood/pbmc; disease state:healthy -
GSM8564266 Blood sample from healthy control 8 tissue:blood/pbmc; disease state:healthy -
GSM8564267 Blood sample from healthy control 9 tissue:blood/pbmc; disease state:healthy -
GSM8564268 Blood sample from healthy control 10 tissue:blood/pbmc; disease state:healthy -
GSM8564269 Blood sample from severe dengue patient 1 tissue:blood/pbmc; disease state:dengue virus -
GSM8564270 Blood sample from dengue with warning sign patient 11 tissue:blood/pbmc; disease state:dengue virus -
GSM8564271 Blood sample from dengue with warning sign patient 1 tissue:blood/pbmc; disease state:dengue virus -
GSM8564272 Blood sample from dengue with warning sign patient 12 tissue:blood/pbmc; disease state:dengue virus -
GSM8564273 Blood sample from dengue with warning sign patient 2 tissue:blood/pbmc; disease state:dengue virus -
GSM8564274 Blood sample from dengue with warning sign patient 13 tissue:blood/pbmc; disease state:dengue virus -
GSM8564275 Blood sample from dengue with warning sign patient 3 tissue:blood/pbmc; disease state:dengue virus -
GSM8564276 Blood sample from dengue with warning sign patient 4 tissue:blood/pbmc; disease state:dengue virus -
GSM8564277 Blood sample from dengue with warning sign patient 5 tissue:blood/pbmc; disease state:dengue virus -
GSM8564278 Blood sample from dengue with warning sign patient 6 tissue:blood/pbmc; disease state:dengue virus -
GSM8564279 Blood sample from dengue with warning sign patient 7 tissue:blood/pbmc; disease state:dengue virus -
GSM8564280 Blood sample from severe dengue patient 2 tissue:blood/pbmc; disease state:dengue virus -
GSM8564281 Blood sample from dengue with warning sign patient 8 tissue:blood/pbmc; disease state:dengue virus -
GSM8564282 Blood sample from dengue with warning sign patient 9 tissue:blood/pbmc; disease state:dengue virus -
GSM8564283 Blood sample from severe dengue patient 3 tissue:blood/pbmc; disease state:dengue virus -
GSM8564284 Blood sample from dengue with warning sign patient 10 tissue:blood/pbmc; disease state:dengue virus -
Platform GPL28038  : DNBSEQ-G400 (Homo sapiens)
Literature 39397194  
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* p<0.05 ** p<0.01