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E-MEXP-2378
Arabidopsis thaliana
18 Downloadable Samples
Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
Microarray experiments were performed using Arabidopsis wild type plants (Col-0) and srk2cf double knockout mutants to investigate functions of two osmotic stress-activated protein kinases, SRK2C and SRK2F. Transcription profiles of wild type and mutants were compared under abscisic acid (ABA) treatment for 0, 1 and 4 h.
Publication Title
Two closely related subclass II SnRK2 protein kinases cooperatively regulate drought-inducible gene expression.
Sample Metadata Fields
Age, Time
View Samples- Arabidopsis thaliana
- 18 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
Microarray experiments were performed using Arabidopsis wild type plants (Col-0) and srk2cf double knockout mutants to investigate functions of two osmotic stress-activated protein kinases, SRK2C and SRK2F. Transcription profiles of wild type and mutants were compared under drought stress for 0, 1 and 4 h.
Publication Title
Two closely related subclass II SnRK2 protein kinases cooperatively regulate drought-inducible gene expression.
Sample Metadata Fields
Age, Time
View Samples- Arabidopsis thaliana
- 6 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
Comparing the gene expression patterns between wild type plant (Col-0) and MYB Over-expression plants.
Publication Title
Omics-based identification of Arabidopsis Myb transcription factors regulating aliphatic glucosinolate biosynthesis.
Sample Metadata Fields
No sample metadata fields
View Samples- Glycine max
- 12 Downloadable Samples
Illumina HiSeq 2000
Description
Soybean transcript fluctuations were observed in response to Rhizoctonia solani AG-1 IA causing Rhizoctonia foliar blight. The overall goal was to observe the general transcriptome fluctuations using RNAseq Illumina HiSeq analysis.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease
View Samples- Homo sapiens
- 70 Downloadable Samples
- IlluminaHiSeq2000
Description
The FANTOM5 promoter expression atlas provides a rich source of expression and functional annotation of human and mouse cell-type specific transcriptomes with wide applications in biomedical research.
Publication Title
An atlas of human long non-coding RNAs with accurate 5' ends.
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 8 Downloadable Samples
- IlluminaGenomeAnalyzerIIx
Description
Recent research hints at an underappreciated complexity in pre-miRNA processing and regulation. Global profiling of pre-miRNA and its potential to increase understanding of the pre-miRNA landscape is impeded by overlap with highly-expressed classes of other non-coding RNA. Here we present a dataset excluding these RNA before sequencing through locked nucleic acids (LNA), greatly increasing pre-miRNA sequence counts with no discernable effects on pre-miRNA or mature miRNA sequencing. Analysis of profiles generated in total, nuclear, and cytoplasmic cell fractions reveals pre-miRNAs are subject to a wide range of regulatory processes involving loci-specific 3'- and 5'-end variation entailing complex cleavage patterns with co-occurring polyuridylation. Additionally, examination of nuclear-enriched flanking sequences of pre-miRNA, particularly those derived from polycistronic miRNA transcripts, provides insight into miRNA and miRNA-offset (moRNA) production. Our findings point to particularly intricate regulation of the let-7 family, introduce novel and unify known forms of pre-miRNA regulation and processing, and shed new light on the byproducts of miRNA processing pathways. none provided
Publication Title
pre-miRNA profiles obtained through application of locked nucleic acids and deep sequencing reveals complex 5'/3' arm variation including concomitant cleavage and polyuridylation patterns.
Sample Metadata Fields
No sample metadata fields
View Samples- Mus musculus
- 36 Downloadable Samples
- Illumina MouseWG-6 v2.0 expression beadchip
Description
Bmdm cells were differentiated for 10 days and harvested and culture in six well plate followed by cytokine stimulation after 24 hrs cells were infected with mycobacterium tuberculosis to identify the host factors involved in infection.
Publication Title
IL-4Rα-dependent alternative activation of macrophages is not decisive for Mycobacterium tuberculosis pathology and bacterial burden in mice.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 36 Downloadable Samples
- Illumina MouseWG-6 v2.0 expression beadchip
Description
This SuperSeries is composed of the SubSeries listed below.
Publication Title
Batf2/Irf1 induces inflammatory responses in classically activated macrophages, lipopolysaccharides, and mycobacterial infection.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 24 Downloadable Samples
- Illumina MouseWG-6 v2.0 expression beadchip
Description
Bmdm cells were differentiated for 10 days and harvested and culture in six well plate followed by cytokine stimulation
Publication Title
Batf2/Irf1 induces inflammatory responses in classically activated macrophages, lipopolysaccharides, and mycobacterial infection.
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 12 Downloadable Samples
- Illumina MouseWG-6 v2.0 expression beadchip
Description
Bmdm cells were differentiated for 10 days and harvested and culture in six well plate followed by transfection with Batf2 ShRNA.
Publication Title
Batf2/Irf1 induces inflammatory responses in classically activated macrophages, lipopolysaccharides, and mycobacterial infection.
Sample Metadata Fields
Sex, Specimen part
View Samples