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SRP142524
Mus musculus
45 Downloadable Samples
Illumina HiSeq 4000
Description
Viral and bacterial coinfections are common in nature, but infrequently studied in laboratory models of infection. We observed disease severity differences in mice infected with two of three possible respiratory viruses, depending on the order of the infection. To discover the mechanisms causing these differences, we compared gene expression responses of lung tissue at three time points following viral coinfection. Differential gene expression and immune cell counts suggest a dampening of immune responses in mice infected with rhinovirus followed by influenza A virus or pneumonia virus of mice.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
View Samples- Mus musculus
- 4 Downloadable Samples
- Illumina HiSeq 2500
Description
The goal of this project is to detect the effect of visfatin on the iimmune related genes using Digital Gene Expression
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Gallus gallus
- 12 Downloadable Samples
- Illumina HiSeq 2500
Description
Chick thymus is the critical site for T cell development and can be damaged by lipopolysaccharide (LPS) derived from Salmonella typhimurium, one of the most deleterious food-borne pathogens. However, the mechanisms remain unclear. Here we reported the first time-series transcriptome research of chick thymus after Salmonella LPS treatment. Overall design: 12 dUTP libraries of thymus samples of newly hatched male chicks were sequenced at 0, 12, 36 and 72 h post LPS treatment with 3 replications at each time point.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Disease stage, Treatment
View Samples- Homo sapiens
- 4 Downloadable Samples
- Illumina HiSeq 2500
Description
Dengue virus (DENV) infection causes profound changes in the host cells and these changes underlie the immune response-based viral clearance and pathogenesis. There are several major cell/tissue types relevant for DENV pathogenesis in vivo, including immune cells, liver, and vascular endothelial cells. We applied a directed differentiation system that produces hepatocyte-like cells (HLCs) from pluripotent stem cells to investigate various aspects of DENV- hepatic cells interaction. Human embryonic stem cells were resistant to DENV infection while progeny hepatic cells were permissive. The transition to DENV permissiveness coincided with the upregulation of entry factors for the virus. Infection of HLCs by DENV was self-limiting due to the activation of the interferon (IFN) pathways, which protected by-stander cells from infection but failed to induce the same level of interferon-induced genes (ISGs) expression in the infected cells due to the subversion of IFN signaling by DENV. Innate immunity also protected the infected cells from virus-induced apoptosis. Furthermore, DENV infection activated the NF-?B pathway, increased production of reactive oxidative species (ROS), and led to production of inflammatory cytokines which may contribute to the cytokine storm implicated in dengue hemorrhagic fever (DHF). Finally, DENV infection of HLCs resulted several in vitro phenotypes that may have relevance for acute liver failure and vascular permeability during DHF. These include the disruption of adherens junctions and the downregulation of many liver specific genes such as albumin (ALB) and coagulation factor V (F5).
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line
View Samples- Drosophila melanogaster
- 12 Downloadable Samples
- Illumina HiSeq 2000
Description
To understand the structural interaction of Drosophila melanogaster Rhino-Deadlock complex and to understand how various point mutation in the interacting domains affect piRNA biogenesis in vivo.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Arabidopsis thaliana
- 31 Downloadable Samples
- NextSeq 500, Illumina HiSeq 2500
Description
This study was designed to understand the mechanism by which floral organ abscission mutants'' phenotypes arise.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part, Treatment
View Samples- Mus musculus
- 8 Downloadable Samples
- NextSeq 500
Description
Neuro-2a cells were infected with ZIKV (MOI = 0.5) for 48 h and total RNA was extracted and purified using TRI Reagent and RNeasy Mini kit (Qiagen). RNA-seq was performed at the Molecular and Genomics Core Facility of the University of Mississippi Medical Center. Differential expression analysis between mock and ZIKV infected cells was done using Tophat and cuffdiff programs from the tuxedo suite.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Disease, Cell line
View Samples- Anopheles gambiae
- 2 Downloadable Samples
- Illumina HiSeq 2000
Description
RNAseq from male testes
Publication Title
Odorant receptor-mediated sperm activation in disease vector mosquitoes.
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 8 Downloadable Samples
Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
Inhibition of calcineurin-NFAT pathway at the early stage can block somatic cell reprogramming. In order to study how the calcineurin-NFAT pathway contributes to the early stage of reprogramming, we designed this microarray experiment and tried to find out which genes or signalings were changed after inhibition of calcineurin-NFAT signaling by CSA (a specific inhibitor of calcineurin-NFAT pathway).
Publication Title
No associated publication
Alternate Accession IDs
Sample Metadata Fields
Specimen part
View Samples- Zea mays
- 28 Downloadable Samples
- Illumina HiSeq 2000
Description
RNA-sequencing was used on leaf tissue from 29 diverse maize lines to characterize differences in gene expression between lines. The main goal from this study was to relate gene expression to measured traits of interest.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Age, Specimen part
View Samples