GEO DataSets

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Dengue virus; Chikungunya virus

Type:

Other

Platforms:

GPL33379 GPL33380

8 Samples

Download data: BW, NARROWPEAK

(Submitter supplied) N6-methyladenosine (m6A), the most common internal RNA modification in eukaryotic mRNAs, is described to be abundantly present in the genomes of cytoplasmic-replicating RNA viruses. Yet, how the host nuclear m6A writer has access to the viral RNAs in the cytoplasm and what are the associated biological consequences remain unknown. Here, we comprehensively addressed these questions by combining antibody-dependent (m6A-seq) and antibody-independent (SELECT and nanopore direct RNA sequencing) methods on the cytoplasmic-replicating Chikungunya virus (CHIKV) RNA, and found no evidence of m6A modifications. more...

Organism:

Dengue virus; Homo sapiens

Type:

Other

Platform:

GPL33380

4 Samples

Download data: BW, NARROWPEAK, TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Dengue virus; Zika virus; Homo sapiens

Type:

Protein profiling by protein array

Platforms:

GPL33496 GPL33495

93 Samples

Download data: GPR

(Submitter supplied) Dengue and Zika are two mosquito-borne diseases of great concern, affecting mainly the tropical and subtropical regions worldwide. The arrival of Zika virus (ZIKV) in dengue virus (DENV) endemic areas imposed challenges for differential diagnosis and the development of candidate vaccines. The use of peptides has shown great potential to achieve these goals. We aimed to identify the linear epitope profile recognized by the serum samples of dengue and Zika patients in the E and NS1 proteins of DENV and ZIKV to select peptides with the potential for the development of diagnostic tests and vaccines. more...

Organism:

Dengue virus; Zika virus; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL33496

64 Samples

Download data: GPR, XLSX

(Submitter supplied) Dengue and Zika are two mosquito-borne diseases of great concern, affecting mainly the tropical and subtropical regions worldwide. The arrival of Zika virus (ZIKV) in dengue virus (DENV) endemic areas imposed challenges for differential diagnosis and the development of candidate vaccines. The use of peptides has shown great potential to achieve these goals. We aimed to identify the linear epitope profile recognized by the serum samples of dengue and Zika patients in the E and NS1 proteins of DENV and ZIKV to select peptides with the potential for the development of diagnostic tests and vaccines. more...

Organism:

Homo sapiens; Dengue virus; Zika virus

Type:

Protein profiling by protein array

Platform:

GPL33495

29 Samples

Download data: GPR, XLSX

(Submitter supplied) The genomes of RNA viruses encode the information required for replication in host cells both in their linear sequence and in complex higher-order structures. A subset of these RNA genome structures show clear sequence conservation, and have been extensively described for well-characterized viruses. However, the extent to which viral RNA genomes contain functional structural elements – unable to be detected by sequence alone – that nonetheless are critical to viral fitness is largely unknown. more...

Organism:

dengue virus type 2; dengue virus type 4; dengue virus type 1; dengue virus type 3

Type:

Other

4 related Platforms

12 Samples

Download data: SHAPE, TXT

(Submitter supplied) Dengue virus (DENV) and Zika virus (ZIKV) are single-stranded (+)-sense RNA viruses that infect humans and mosquitoes, posing a significant health risk in tropical and subtropical regions. Mature virions are composed of an icosahedral shell of envelope (E) and membrane (M) proteins circumscribing a lipid bilayer, which in turn contains a complex of the approximately 11 kb genomic RNA with capsid (C) proteins. more...

Organism:

Zika virus; dengue virus type 1

Type:

Other

Platforms:

GPL24217 GPL24221

26 Samples

Download data: CSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Human immunodeficiency virus 1; Measles virus strain Schwarz; Homo sapiens; dengue virus type 4; Measles morbillivirus

Type:

Expression profiling by high throughput sequencing

5 related Platforms

114 Samples

Download data: TXT

(Submitter supplied) Pattern recognition receptors (PRRs) protect against host invasion by detecting specific molecular patterns found in pathogens and initiating an immune response. While microbial-derived PRR ligands have been extensively characterized, the contribution and relevance of endogenous ligands to PRR activation during viral infection remain overlooked. In this work, we characterize the landscape of endogenous ligands that engage RIG-I-like receptors upon infection by a positive-sense RNA virus, a negative-sense RNA virus or a retrovirus. more...

Organism:

dengue virus type 4; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26957

18 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Chikungunya virus; Streptococcus sp. 'group B'; Mycobacterium tuberculosis; Homo sapiens; Dengue virus; Human immunodeficiency virus; Respiratory syncytial virus; Zika virus; Staphylococcus aureus; Onchocerca volvulus; Yellow fever virus; Bordetella pertussis; Plasmodium falciparum

Type:

Protein profiling by protein array

Platform:

GPL29530

804 Samples

Download data

(Submitter supplied) Breastfeeding provides defense against infectious disease during early life. The mechanisms underlying this protection are complex but likely include the vast array of immune cells and components, such as immunoglobulins, in milk. Simply characterizing the concentrations of these bioactives, however, provides only limited information regarding their potential relationships with disease risk in the recipient infant. more...

Organism:

Streptococcus sp. 'group B'; Onchocerca volvulus; Dengue virus; Human immunodeficiency virus; Respiratory syncytial virus; Zika virus; Chikungunya virus; Staphylococcus aureus; Yellow fever virus; Bordetella pertussis; Mycobacterium tuberculosis; Plasmodium falciparum; Homo sapiens

Type:

Protein profiling by protein array

Platform:

GPL29530

402 Samples

Download data: TXT

(Submitter supplied) Breastfeeding provides defense against infectious disease during early life. The mechanisms underlying this protection are complex but likely include the vast array of immune cells and components, such as immunoglobulins, in milk. Simply characterizing the concentrations of these bioactives, however, provides only limited information regarding their potential relationships with disease risk in the recipient infant. more...

Organism:

Yellow fever virus; Chikungunya virus; Streptococcus sp. 'group B'; Onchocerca volvulus; Dengue virus; Human immunodeficiency virus; Zika virus; Staphylococcus aureus; Bordetella pertussis; Mycobacterium tuberculosis; Plasmodium falciparum; Homo sapiens; Respiratory syncytial virus

Type:

Protein profiling by protein array

Platform:

GPL29530

402 Samples

Download data: TXT

(Submitter supplied) Current methods for determening RNA structure with short-read sequencing cannot capture most differences between distinct transcript isoforms. Here, we present RNA structure analysis using nanopore sequencing (PORE-cupine),which combines structure probing using chemical modifications with direct long-read RNA sequencing and machine learning to detect secondary structures in cellular RNAs. PORE-cupine also captures global structural features, such as RNA binding protein (RBP) binding sites and reactivity differences at single nucleotide variants (SNVs). more...

Organism:

Saccharomyces cerevisiae; Homo sapiens; Dengue virus; Oceanobacillus iheyensis; Tetrahymena thermophila; Bacillus subtilis

Type:

Other

5 related Platforms

21 Samples

Download data: CSV, TAR, TXT, XLSX

(Submitter supplied) Viable T cells (CD3+ CD19-) and B cells (CD3- CD19+) were sorted from PBMC samples obtained from 1 individual experiencing a natural secondary DENV infection. Single cell RNA sequencing analysis was performed on 3 time points

Organism:

Dengue virus; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28283

3 Samples

Download data: MTX, TSV

(Submitter supplied) CEM.NKR.DC-SIGN cells were infected in vitro with DENV1 (strain WestPac74) for 18 hours, after which either total viable cells or viable cells expressing surface DENV1 NS1 were isolated by flow cytometric sorting. Sorted cells were processed for scRNAseq analysis using either a standard Oligo(dT) primer, or an Oligo(dT) primer supplemented with a DENV-specific RT primer

Organism:

Dengue virus 1 Nauru/West Pac/1974; Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28282 GPL24676

4 Samples

Download data: MTX, TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Dengue virus 1 Nauru/West Pac/1974; Dengue virus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL28282 GPL24676 GPL28283

7 Samples

Download data: MTX, TSV

(Submitter supplied) Dengue and Zika are closely related members of the Flaviviridae family of positive, single-stranded RNA viruses and are of global clinical importance. These viruses utilize an 11kb RNA genome for translation and replication, and much remains to be learnt about how the entire genome folds to enable virus function. Here, we performed high throughput RNA secondary structure and pair-wise interaction mapping on four dengue serotypes and four Zika strains within their virus particles. more...

Organism:

dengue virus type 2; dengue virus type 1; dengue virus type 3; Homo sapiens; dengue virus type 4; Zika virus

Type:

Other

6 related Platforms

87 Samples

Download data: TXT

(Submitter supplied) Viruses transmitted by small mammals and arthropods serve as global threats to humans. Most emergent and re-emergent viral agents are transmitted by these groups; therefore, the development of high-throughput screening methods for the detection and surveillance of such viruses is of great interest. In this study, we describe a DNA microarray platform that can be used for screening all viruses transmitted by small mammals and arthropods (SMAvirusChip) with nucleotide sequences that have been deposited in the GenBank. more...

Organism:

Aedes aegypti; Flaviviridae; Chikungunya virus; Rio Mamore hantavirus; Mucambo virus; Cacipacore virus; Iguape virus; Homo sapiens; Viruses; dengue virus type 4; West Nile virus; Dengue virus; Mayaro virus; Chlorocebus sabaeus; Zika virus; Oropouche virus; dengue virus type 1; dengue virus type 3; St. Louis encephalitis virus; Yellow fever virus; Guaroa virus; Aedes albopictus; Togaviridae; Flavivirus; dengue virus type 2; Rhabdoviridae; Piry virus; Ilheus virus; Bussuquara virus; Rocio virus

Type:

Expression profiling by array

Platforms:

GPL21870 GPL21871

87 Samples

Download data: GPR

(Submitter supplied) Viruses transmitted by small mammals and arthropods serve as global threats to humans. Most emergent and re-emergent viral agents are transmitted by these groups; therefore, the development of high-throughput screening methods for the detection and surveillance of such viruses is of great interest. In this study, we describe a DNA microarray platform that can be used for screening all viruses transmitted by small mammals and arthropods (SMAvirusChip) with nucleotide sequences that have been deposited in the GenBank. more...

Organism:

Viruses; dengue virus type 4; Zika virus; Aedes albopictus; Chikungunya virus; dengue virus type 1; dengue virus type 3; dengue virus type 2

Type:

Expression profiling by array

Platform:

GPL21871

7 Samples

Download data: GPR

(Submitter supplied) Viruses transmitted by small mammals and arthropods serve as global threats to humans. Most emergent and re-emergent viral agents are transmitted by these groups; therefore, the development of high-throughput screening methods for the detection and surveillance of such viruses is of great interest. In this study, we describe a DNA microarray platform that can be used for screening all viruses transmitted by small mammals and arthropods (SMAvirusChip) with nucleotide sequences that have been deposited in the GenBank. more...

Organism:

Aedes albopictus; dengue virus type 2; Yellow fever virus; Piry virus; Chikungunya virus; Rio Mamore hantavirus; Cacipacore virus; Iguape virus; Viruses; Togaviridae; dengue virus type 1; St. Louis encephalitis virus; West Nile virus; Dengue virus; Mayaro virus; Flaviviridae; dengue virus type 3; Mucambo virus; Guaroa virus; Oropouche virus; Aedes aegypti; Homo sapiens; Flavivirus; dengue virus type 4; Rhabdoviridae; Ilheus virus; Chlorocebus sabaeus; Bussuquara virus; Rocio virus

Type:

Expression profiling by array

Platform:

GPL21870

80 Samples

Download data: GPR