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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
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
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
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
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.
Sample Metadata Fields
Sex, Specimen part
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
Sample Metadata Fields
Sex, Age, Specimen part, Disease, Cell line
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
Sample Metadata Fields
Age, Specimen part
View Samples
SRP160431- Mus musculus
- 12 Downloadable Samples
- Illumina HiSeq 2500
Description
C2C12 cells, as mouse-derived myoblasts, are a classic cell model for studying skeletal muscle development. We knocked down the immunoglobulin superfamily containing leucine-rich repeat (Islr) gene in C2C12 cell line and studied the effect of Islr on the proliferation and differentiation of C2C12 cells.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Gallus gallus
- 5 Downloadable Samples
- Illumina HiSeq 2000
Description
This project sequences the mRNA of the chorioallantoic membrane of Gallus gallus, the domestic chicken.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Mus musculus
- 6 Downloadable Samples
Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
It has been demonstrated previously that the reprogramming factors are sequestered in the pronuclei of zygote after fertilization, as the enucleated zygotes at interphase cannot support the development of cloned embryos whereas the enucleated zygotes at M-phase can reprogram somatic cells to full pluripotency. However, it remains unknown whether the parental pronucleus, derived either from the sperm or oocyte, possesses the similar reprogramming ability. Here, we provide evidence demonstrating that the parental pronuclei are asymmetric in reprogramming and the reprogramming factors reside mainly in the male pronucleus. As a result, only the female pronucleus-depleted mouse zygotes enucleated at M-phase of mitosis can support the somatic cell reprogramming, the derivation of chromosome transfer embryonic stem (ctES) cells with full pluripotency and the full term development of cloned embryos. In striking contrast, the male pronucleus-depleted zygotes enucleated at M-phase of mitosis fail to support the pre-implantation development of somatic cell cloned embryos. Furthermore, we demonstrated that the distinct epigenetic reprogramming ability of the parental pronucleus might contribute directly to the developmental difference of somatic cloned embryos. Our study highlights the developmental asymmetry of parental pronuclei in reprogramming.
Publication Title
Asymmetric reprogramming capacity of parental pronuclei in mouse zygotes.
Sample Metadata Fields
Cell line
View Samples- Mus musculus
- 4 Downloadable Samples
- Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
Adult stem cells have the ability to self-renew and to generate specialized cells. Self-renewal is dependent on extrinsic niche factors but few of those signals have been identified. We show that adult mammary glands contain a Wnt-responsive cell population that is enriched for stem cells. In cell culture experiments, exposure to purified Wnt protein clonally expands mammary stem cells for many generations and maintains their ability to generate functional glands in transplantation assays. We propose here that Wnt3A treated mammary stem cells retain their stemness through the regulation of its downstream target genes.
Publication Title
Identification of multipotent mammary stem cells by protein C receptor expression.
Sample Metadata Fields
Specimen part
View Samples