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Gallus gallus
20 Downloadable Samples
Illumina HiSeq 2500
Description
Male broilers from two lines (n=10 per line) with different growth rate were raised at the same condition with free access to feed and drink. At day 6 and day 21, half samples of each broiler line were euthanized by cervical dislocation, and left ventricles were collected for RNA isolation. Gene expression in left ventricle was measured by RNA-seq and compared between different time points and chicken lines. The purpose of this study is to investigate gene expression change during broiler cardiac development and to compared gene expression between fast-growing modern broilers and slow-growing heritage broilers to find possible genes and pathways related to differential cardiac development and differential susceptibility to cardiac diseases between the two broiler lines.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Disease
View Samples- Gallus gallus
- 8 Downloadable Samples
- Illumina HiSeq 2500
Description
broilers heat stress.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Sus scrofa
- 10 Downloadable Samples
- Illumina HiSeq 2000
Description
Sus scrofa has significant characteristics of high fecundity, roughage-resistance disease-resistance and cold-resistance,hence it is valuable to elucidate its transcriptome.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part
View Samples
SRP081182- Homo sapiens
- 2 Downloadable Samples
- Illumina HiSeq 4000
Description
understand the funcation of fatty
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Equus caballus
- 3 Downloadable Samples
- Illumina HiSeq 2000
Description
The equine hoof is a specialized structure in which the distal skeleton is suspended within the capsule by interdigitated structures known as laminae. Inflammation of this tissue, known as laminitis, is a devastating disease that is the second leading cause of both lameness and euthanasia in the horse. Current research on the laminitic transcriptome focuses on the expression of known genes. However, as this tissue is quite unique and equine annotation is largely derived from computational predictions and gene models from other species, there are likely yet uncharacterized transcripts expressed in the laminae that may be involved in the etiology of laminitis. In order to create a novel annotation resource, we performed whole transcriptome sequencing of sagittal lamellar sections from one control and two laminitis affected horses. Assembly of 113 million 100bp reads resulted in around 75,000 transcripts. Of these, 36,000 corresponded to known annotation in NCBI's non-redundant protein database. RT-PCR of 12 selected annotations confirmed structure and expression in lamellar tissue. Transcriptome sequencing represents a powerful tool to expand on equine annotation and identify novel targets for further laminitis research.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples SRP115379- Zea mays
- 6 Downloadable Samples
- Illumina HiSeq 2000
Description
We used isolated zygotene meiocytes, corresponding anthers and 2-week-old seedlings from the Zea mays inbred line Mo17 for RNA extraction and library construction for sequencing with Illumina technology to gain insight on gene expression during a key step in meiosis when recombination initiates.
Publication Title
No associated publication
Sample Metadata Fields
Age, 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- Pseudomonas aeruginosa
- 4 Downloadable Samples
- Illumina HiSeq 4000
Description
Pseudomonas aeruginosa transcriptomic profile exposed to Cr(VI)
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease
View Samples- Gallus gallus
- 20 Downloadable Samples
Affymetrix Chicken Genome Array (chicken)
Description
A 30-day nutritional trial in broiler chickens (Ross 308) was conducted to investigate how specific forms of vitamin E (α- and γ-tocopherol) and their combination impact liver gene expression when oxidative susceptibility of the organism is induced by high n-3 polyunsaturated fatty acids (PUFA) intake. Thirty-six one-day-old male broilers were fed a diet enriched with 5 % linseed oil to induce oxidative susceptibility. Beside negative (N) and positive (P) control group, experimental groups were supplemented with either: 67 mg/kg RRR-α-tocopherol (A), 67 mg/kg RRR-γ-tocopherol (G) or with combination of 33.5 mg/kg of each tocopherol (S). Whole chicken genome microarray analysis was performed on liver RNA and selected differentially expressed genes were confirmed by qRT-PCR.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Compound
View Samples- Sus scrofa
- 23 Downloadable Samples
- Affymetrix Porcine Genome Array (porcine)
Description
This study was performed to determine the effects of dietary fat sources, i.e., beef tallow, soybean oil, olive oil and coconut oil (each 3% in feed), on the growth performance, meat quality and gene expression in growing-finishing pigs.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part
View Samples