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Mus musculus
12 Downloadable Samples
Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)
Description
Estrogen induce organ-specific cell proliferation and development in female reproductive organs, though the reproductive differentiation, sex maturation, implantation and lactation. However, the mechanism of organ-specific estrogen responsive genes is unknown. Thus, we examined early estrogen responsive genes in mouse uterus, vagina and mammary gland.
Publication Title
Comparison of estrogen responsive genes in the mouse uterus, vagina and mammary gland.
Sample Metadata Fields
No sample metadata fields
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GSE1886- Mus musculus
- 18 Downloadable Samples
- Affymetrix Murine Genome U74A Version 2 Array (mgu74av2)
Description
Diethylstilbestrol (DES) inhibits the differentiation of female reproductive tracts during fetal and neonatal days . We examined global gene expressions in the oviduct, uterus and vagina in newborn mice with or without DES. These results suggest understanding the mechanism of the differentiation of female reproductive tracts.
Publication Title
Gene expression change in the Müllerian duct of the mouse fetus exposed to diethylstilbestrol in utero.
Sample Metadata Fields
No sample metadata fields
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- Populus tremula x populus alba
- 18 Downloadable Samples
- Affymetrix Poplar Genome Array (poplar)
Description
This SuperSeries is composed of the SubSeries listed below.
Publication Title
Expression profiling and functional analysis of Populus WRKY23 reveals a regulatory role in defense.
Sample Metadata Fields
Specimen part
View Samples- Populus tremula x populus alba
- 12 Downloadable Samples
- Affymetrix Poplar Genome Array (poplar)
Description
To investigate the function of poplar WRKY23, we generated PtWRKY23-overexpressing and -underexpressing (RNAi) plants. Transgenic plants were inoculated with Melampsora rust or mock-inoculated for assessment of rust-resistance and for gene expression profiling using the poplar Affymetrix GeneChip to study the consequences of PtWRKY23 overexpression and underexpression. Transcriptome analysis of PtWRKY23 overexpressors revealed a significant overlap with the Melampsora-infection response. Transcriptome analysis also indicated that PtWRKY23 affects redox homeostasis and cell wall-related metabolism.
Publication Title
Expression profiling and functional analysis of Populus WRKY23 reveals a regulatory role in defense.
Sample Metadata Fields
Specimen part
View Samples- Populus tremula x populus alba
- 6 Downloadable Samples
- Affymetrix Poplar Genome Array (poplar)
Description
To investigate the function of poplar WRKY23, we generated PtWRKY23-overexpressing and -underexpressing (RNAi) plants. Transgenic plants were inoculated with Melampsora rust or mock-inoculated for assessment of rust-resistance and for gene expression profiling using the poplar Affymetrix GeneChip to study the consequences of PtWRKY23 overexpression and underexpression. Transcriptome analysis of PtWRKY23 overexpressors revealed a significant overlap with the Melampsora-infection response. Transcriptome analysis also indicated that PtWRKY23 affects redox homeostasis and cell wall-related metabolism.
Publication Title
Expression profiling and functional analysis of Populus WRKY23 reveals a regulatory role in defense.
Sample Metadata Fields
Specimen part
View Samples- Homo sapiens
- 3 Downloadable Samples
Description
For the study, colorectal cancer tumour samples were collected from 34 patients and transcriptome sequencing of the samples was done to classify them into consensus molecular subtypes of colorectal cancer. To quantify relative abundances of bacterial strains in the samples, 16S rRNA amplicon metabarcoding was done and the non-human part of the transcriptome data was also analysed. Analysis of the association between the subtypes and microbiome was carried on and the targeted quantitative PCR was done to confirm the findings.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples- Pseudomonas aeruginosa
- 2 Downloadable Samples
- NextSeq 500
Description
We undertook to validate the therapeutic use of a polyherbal preparation described in Ayurved as ‘Panchvalkal’, which has been suggested for treatment of microbial infections. We tested this formulation available in market as Pentaphyte P-5®, against Pseudomonas aeruginosa, for its quorum sensing (QS) modulatory potential. Following demonstration of its in vitro QS modulatory potential, we assayed it for in vivo efficacy using the nematode Caenorhabditis elegans as a model host. This polyherbal formulation conferred notable survival benefit when the nematode worm was challenged with the test pathogen. Todecipher the molecular basis of its efficacy, whole transcriptome analysis of P. aeruginosa exposed to ‘Panchvalkal’ was done, its gene expression profile inpresence of ‘Panchvalkal’ was compared with that in its absence. This polyherbal formulation also enhanced the susceptibility of P. aeruginosa to antibiotics like gentamicin, tetracycline, and cephalexin. This study is a good demonstration of the role of bacterial QS machinery as an important target for development of new antimicrobials/ anti-infectives, and also of the effective use of moderngenomics for validation of ayurvedic prescriptions i.e. ayuromics.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease
View Samples- Pseudomonas aeruginosa
- 38 Downloadable Samples
- Affymetrix Pseudomonas aeruginosa Array (paeg1a)
Description
Pseudomonas aeruginosa chronically colonizes the lungs of individuals with CF, where it reaches high cell densities and produces a battery of virulence factors. Upon infection, a single strain of P. aeruginosa can colonize an individuals lungs throughout his or her lifetime. To understand the evolution of P. aeruginosa during chronic lung infection, we conducted both genotypic and phenotypic analyses on clinical isogenic strains obtained from the lungs of three different individuals with CF. These strains were isolated over a period of approximately ten years and possess phenotypes that are commonly observed in isolates from the CF lung, such as the antibiotic resistant dwarf and mucoid phenotypes. Microarray analyses were carried out on isolates grown in a chemically defined medium that mimics the nutritional environment of the CF lung, synthetic CF sputum medium (SCFM).
Publication Title
Parallel evolution in Pseudomonas aeruginosa over 39,000 generations in vivo.
Sample Metadata Fields
Time
View Samples- Mus musculus
- 4 Downloadable Samples
- Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
Selective serotonin reuptake inhibitors (SSRIs) are commonly prescribed antidepressant drugs in pregnant women. Given that SSRIs can cross the placental and blood-brain barriers, these drugs potentially affect serotonergic neurotransmission and neurodevelopment in the fetus. Although no gross SSRI-related teratogenic effect has been reported, infants born following prenatal exposure to SSRIs have a higher risk for various behavioral abnormalities. Therefore, we examined the effects of prenatal fluoxetine, the most commonly prescribed SSRI, on social and cognitive behavior in mice. Intriguingly, chronic in utero fluoxetine treatment impaired working memory and social novelty recognition in adult males with augmented spontaneous inhibitory synaptic transmission onto the layer 5 pyramidal neurons in the medial prefrontal cortex (mPFC). Moreover, fast-spiking interneurons in the layer 5 mPFC exhibited enhanced basal intrinsic excitability, augmented serotonin-induced neuronal excitability, and increased inhibitory synaptic transmission onto the layer 5 pyramidal neurons due to augmented 5-HT2A receptor (5-HT2AR) signaling. More importantly, the observed behavioral deficits of in utero fluoxetine-treated mice could be reversed by acute systemic application of 5-HT2AR antagonist. Taken together, our findings support the notion that alterations in serotonin-mediated inhibitory neuronal modulation result in reduced cortical network activities and cognitive impairment following prenatal exposure to SSRIs.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Specimen part, Treatment
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