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SRP093225
Gallus gallus
18 Downloadable Samples
Illumina HiSeq 4000
Description
The bursa of Fabricius is an immune organ unique to birds and possesses a specialized micro-environment that supports the differentiation of B cells and production of antibodies but, it can be damaged by lipopolysaccharide (LPS) derived from Salmonella typhimurium, one of the most deleterious food-borne pathogens. However, its mechanism of action at transcriptional level is poorly known yet. Therefore, the current project was designed and bursa of Fabricius from newly hatched chicks were sequenced at 12, 36 and 72 hours post saline and LPS treatments with 3 replications at each time point.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Disease stage, Treatment
View Samples- Homo sapiens
- 5 Downloadable Samples
Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)
Description
The colorectal adenoma-carcinoma sequence describes the stepwise progression from normal to dysplastic epithelium and then to carcinoma; only a small proportion of colorectal adenoma (CRA) progresses to colorectal carcinoma (CRC). Presently, endoscopic intervention is used on patients with CRAs of high grade dysplasia, diameters > 1 cm, or villous components > 25% who are at higher risk than other CRA sufferers. During the process, biopsy samples were taken for conventional histological diagnosis, but poor pathomorphological sensitivity and specificity greatly limit the diagnostic accuracy. Unfortunately, there are no reliable molecular criteria available that can predict the potential development of CRA to CRC. In present study, we use microarrays to detail the global programme of gene expression underlying the gradual progress of colorectal adenoma-carcinoma sequence.
Publication Title
Identification of an intermediate signature that marks the initial phases of the colorectal adenoma-carcinoma transition.
Sample Metadata Fields
Specimen part
View Samples- Homo sapiens
- 5 Downloadable Samples
- Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)
Description
This research focus primarily on the interaction between influenza virus and endothelial cell, then we used microarrays to observe global patterns of gene expression in Human Umbilical Vein Endothelial Cells after influenza virus infection and offer further insight into the interaction between endothelial cells and influenza viruses.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part
View Samples- Mus musculus
- 6 Downloadable Samples
- Illumina HiSeq 2500
Description
Toxoplasma infection can cause damage to the male reproductive system, such as sexual dysfunction and infertility. The epididymis is an important accessory organ of male reproductive system, where sperm maturation and storage take place. Sperm maturation in the epididymis is a highly programmed process, which may be affected by the epididymis microenvironment. Therefore, studying the epididymis characteristics is important for identification of factors affecting sperm maturation. However, studies investigating the differential expression genes of host and Toxoplasma gondii by transcriptome sequencing of the male reproductive system are limited. The main objective of this study was to examine differential gene expression by RNA sequencing (RNA-seq) technology in order to identify key genes associated with Toxoplasma gondii (PRU strain) chronic infection of the epididymis in male Kunming mice.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Cell line
View Samples- Danio rerio
- 15 Downloadable Samples
- IlluminaHiSeq2000
Description
The main aim of this focus area is to generate new knowledge from detailed endpoint analyses after gamma radiation exposures, plus-minus secondary stressors, for a few selected model species. A special focus has been on effects related to reproduction and genotoxic effects, and underpinning mechanistic explanatory mechanisms involving transcriptomics and epigenetic regulation.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Gallus gallus
- 60 Downloadable Samples
- Affymetrix Chicken Genome Array (chicken)
Description
Comparative analysis of gene expression profiles in newly developed housing systems is important to understand gene functions in chicken for adaptation and possible gene-environment interactions among layer lines. Therefore, the objective of this study was to characterize the molecular processes that are different among the two layer lines Lohmann Selected Leghorn (LSL) and Lohmann Brown (LB) using whole genome RNA expression profiles. Despite their approximately identical egg production performance these layer lines differ markedly in other phenotypic traits. The two layer lines were kept under the production environment of the newly developed small group housing system Eurovent German with two different group sizes and three tiers.
Publication Title
Differential gene expression from genome-wide microarray analyses distinguishes Lohmann Selected Leghorn and Lohmann Brown layers.
Sample Metadata Fields
Specimen part
View Samples- Mus musculus
- 48 Downloadable Samples
- Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
The transcription factor STAT1 is essential for interferon- (IFN) mediated protective immunity in humans and mice. Two splice isoforms of STAT1, STAT1 and STAT1, differ with regard to a C-terminal transactivation domain, which is absent in STAT1. Dimers of STAT1 are therefore considered transcriptionally inactive and potential competitive inhibitors of STAT1. Contrasting this view, generation and analysis of mice deficient for either STAT1 or STAT1 demonstrated transcriptional activity of the STAT1 isoform and its enhancement of innate immunity. Gene expression profiling in primary cells revealed overlapping, but also non-redundant and gene-specific activities of STAT1 and STAT1 in response to IFN. Consistently, both isoforms mediated protective, IFN-dependent immunity against the bacterium Listeria monocytogenes, although with remarkably different efficiency. In contrast, STAT1 and STAT1 were largely redundant for transcriptional responses to IFN/ and for IFN/-dependent antiviral activity. Collectively, our data shed new light on how STAT1 isoforms contribute to antimicrobial immunity.
Publication Title
STAT1β is not dominant negative and is capable of contributing to gamma interferon-dependent innate immunity.
Sample Metadata Fields
Specimen part
View Samples- Bos taurus
- 14 Downloadable Samples
- Illumina HiSeq 2000
Description
Investigating the local vaccine-induced immune response in small intestinal tissue after vaccination and infection with Cooperia oncophora.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Treatment
View Samples- Mus musculus
- 36 Downloadable Samples
- Illumina MouseWG-6 v2.0 expression beadchip
Description
While aging leads to a reduction in the capacity for regeneration after pneumonectomy (PNX) in most mammals, this biological phenomenon has not been characterized over the lifetime of mice. We measured the age-specific (3, 9, 24 month) effects of PNX on physiology, morphometry, cell proliferation and apoptosis, global gene expression, and lung fibroblast phenotype and clonogenicity in female C57BL6 mice. The data show that only 3 month old mice were fully capable of restoring lung volumes by day 7 and total alveolar surface area. By 9 months, the rate of regeneration was slower (with incomplete regeneration by 21 days), and by 24 months there was no regrowth 21 days post-PNX. The early decline in regeneration rate was not associated with changes in alveolar epithelial cell type II (AECII) proliferation or apoptosis rate. However, significant apoptosis and lack of cell proliferation was evident after PNX in both total cells and AECII cells in 24 mo mice. Analysis of gene expression at several time points (1, 3 and 7 days) post-PNX in 3 versus 9 month mice was consistent with a myofibroblast signature (increased Tnc, Lox1, Col3A1, Eln and Tnfrsf12a) and more alpha smooth muscle actin (SMA) positive myofibroblasts were present after PNX in 9 month than 3 month mice.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Bos taurus
- 20 Downloadable Samples
- Affymetrix Bovine Genome Array (bovine)
Description
The benefit of treatment in mild to moderate cases of E. coli mastitis in dairy cows remains a topic of discussion.
Publication Title
Impact of intramammary treatment on gene expression profiles in bovine Escherichia coli mastitis.
Sample Metadata Fields
Treatment, Time
View Samples