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Arabidopsis thaliana
29 Downloadable Samples
Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
Calcium acts as a universal second messenger to regulate gene expression in both developmental processes and responses to environmental stresses. Previous studies showed that a number of stimuli can induce calcium increases in the cytoplasm and nucleus, independently. However, the gene expression network deciphering [Ca2+]cyt and/or [Ca2+]nuc signaling pathway remain obscure.
Publication Title
No associated publication
Alternate Accession IDs
Sample Metadata Fields
Specimen part, Treatment
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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
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Arabidopsis thaliana
- 12 Downloadable Samples
- Illumina HiSeq 2500
Description
compare the transcriptome changes under high ambient temperature
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part, Treatment
View Samples- Homo sapiens
- 9 Downloadable Samples
- Illumina HiSeq 2500
Description
To delineate the mechanism underlying SRSF1/delta133p53-mediated alterations in vascular smooth muscle cell (VSMC) proliferation, we analyzed the genome-wide gene expression profiles in cultured human aortic smooth muscle cells (HASMCs) with delta133p53-overexpression and Ang II treatment versus GFP controls using RNA-Seq approach.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Treatment
View Samples- Arabidopsis thaliana
- 9 Downloadable Samples
- Illumina HiSeq 2000
Description
The RNA-seq data was used to study alternative splicing in Arabidopsis
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part, Disease
View Samples- Arabidopsis thaliana
- 2 Downloadable Samples
- Illumina HiSeq 2000
Description
Plant seedlings undergo distinct developmental processes in the dark and in the light. Using an activation-tagging approach, we identified SRS5ox, which overexpresses SHI-RELATED SEQUENCE 5 (SRS5) following induction with estradiol in Arabidopsis thaliana. SRS5 overexpression in SRS5ox seedlings results in a constitutive photomorphogenesis phenotype in the dark. To investigate potential downstream genes of SRS5, the expression levels of genes assayed by RNA-seq in 5-day-old SRS5ox seedlings grown under white light treated with or without estradiol for 2 hours, respectively.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part
View Samples SRP162200- Danio rerio
- 2 Downloadable Samples
- Illumina HiSeq 2500
Description
The transcriptome of zebrafish mutant and wt embryos.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line
View Samples- Homo sapiens
- 9 Downloadable Samples
- Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)
Description
To elucidate the mechanisms by which Nrf2 regulates cell growth, we performed global gene expression profiling of A549 lung cancer cells with knockdown of Nrf2. Gene networks associated with carbohydrate metabolism and drug metabolism were significantly downregulated in Nrf2-depleted A549 cells. Gene Set Enrichment Analysis revealed significant enrichment of genes associated with carbohydrate catabolic processes, positive regulation of metabolic processes, PPP, and arachidonic acid metabolism. In summary, this analysis revealed that Nrf2 positively regulates transcription of genes that play key roles in central carbon metabolism.
Publication Title
Transcription factor NRF2 regulates miR-1 and miR-206 to drive tumorigenesis.
Alternate Accession IDs
Sample Metadata Fields
Specimen part, Cell line
View Samples- Mus musculus
- 8 Downloadable Samples
- Affymetrix Mouse Gene 1.0 ST Array (mogene10st)
Description
We examine the potential of Kras as a metabolic target in lung cancer using the KrasLSL-G12D lung cancer model. We demonstrate that mutant Kras drives a lipogenic gene expression program, and that fatty acid synthesis is important in Kras-induced tumorigenesis.
Publication Title
De novo lipogenesis represents a therapeutic target in mutant Kras non-small cell lung cancer.
Alternate Accession IDs
Sample Metadata Fields
Specimen part
View Samples- Oryza sativa
- 8 Downloadable Samples
- Affymetrix Rice Gene 1.1 ST Array (rcngene11st)
Description
Using microarray, the anther transcript profiles of the three indica rice CMS lines revealed 622 differentially expression genes (DEGs) in each of the three CMS lines. GO and Mapman analysis indicated that these DEGs were mainly involved in lipid metabolic and cell wall organization. Comprised with the gene expression of sporophytic and gametophytic CMS lines, 303 DEGs were differentially expressed and 56 of them were down-regulated in all the CMS lines. Co-expression network analysis suggested that many genes were significantly differentially expressed in the CMS lines. These down-regulated DEGs in the CMS lines were found to be involved in tapetum or cell wall formation and their suppressed expression might be related to male sterility. The present study will give some information for the nuclear gene regulation by different cytoplasmic genotypes and provide some candidate genes for pollen development in rice.
Publication Title
Comparative transcript profiling of alloplasmic male-sterile lines revealed altered gene expression related to pollen development in rice (Oryza sativa L.).
Alternate Accession IDs
Sample Metadata Fields
Specimen part
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