Filters
Organism
Technology
Platform
SRP076058
Zea mays
6 Downloadable Samples
Illumina HiSeq 2000
Description
This study presented the differentially expressed genes post maize infected by Rhizoctonia solani.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part
View Samples SRP094817- Zea mays
- 2 Downloadable Samples
- Illumina HiSeq 3000
Description
Transposons in maize may be involved in the formation of circRNAs and further modulate phenotypic variation. To test our hypothesis, we performed circRNA-Seq(RNase R treated) on B73 seedlings(third leaves of V3 stage), and uncovered 1,572 high-confidence maize circRNAs, which show distinct genomic features compared to linear transcripts. Comprehensive analyses showed that LINE1-like elements (LLE) and their reverse complementary pairs (RCPLLEs) are significantly enriched in the flanking regions of circRNAs.
Publication Title
Circular RNAs mediated by transposons are associated with transcriptomic and phenotypic variation in maize.
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part, Disease
View Samples- Danio rerio
- 1 Downloadable Sample
- IlluminaHiSeq4000
Description
Identification of circular RNAs in zebrafish
Publication Title
Identification and characterization of circular RNAs in zebrafish.
Alternate Accession IDs
None
Sample Metadata Fields
No sample metadata fields
View Samples- Arabidopsis thaliana
- 6 Downloadable Samples
- Illumina HiSeq 2500
Description
Overexpression of the novel Arabidopsis gene At5g02890
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part
View Samples- Gallus gallus
- 8 Downloadable Samples
- Illumina Genome Analyzer II
Description
The transcriptome sequencing reveals the divergence of the genetic mechanism of reproductive traits in two Chinese native breeds. XH chicken was meat-type breed with low reproduction ability, with a 70~80% incidence of broodiness in population, with the duration of 15~30 d brooding, and with a production of 60~90 eggs per year. BEH chicken was layer-type breed with high reproduction ability, with a 10%~15% incidence of broodiness in population, with the duration of 7~20 d brooding, and with a production of 180 eggs per year.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part
View Samples- Arabidopsis thaliana
- 18 Downloadable Samples
Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
This SuperSeries is composed of the SubSeries listed below.
Publication Title
The response and recovery of the Arabidopsis thaliana transcriptome to phosphate starvation.
Alternate Accession IDs
Sample Metadata Fields
Age, Specimen part, Treatment
View Samples- Arabidopsis thaliana
- 18 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
Background: Over application of phosphate fertilizers in modern agriculture contaminates waterways and disrupts natural ecosystems. Nevertheless, this is a common practice among farmers, especially in developing countries as abundant fertilizers are believed to boost crop yields. The study of plant phosphate metabolism and its underlying genetic pathways is key to discovering methods of efficient fertilizer usage. The work presented here describes the first genome-wide resource on the molecular dynamics underpinning the response and recovery in roots and shoots of Arabidopsis thaliana to phosphate-starvation. Results: Genome-wide profiling revealed minimal overlap between root and shoot transcriptomes suggesting two independent phosphate-starvation regulons. Novel gene expression patterns were detected for over 1000 candidates and were classified as either initial, persistent, or latent responders. Comparative analysis to AtGenExpress identified novel cohorts of genes co-regulated across multiple stimuli. The hormone ABA displayed a dominant role in regulating many phosphate-responsive candidates. Analysis of co-regulation enabled the determination of primary versus redundant members of closely related gene families with respect to phosphate-starvation. Thus, among others, we show that PHO1 acts in shoot, whereas PHO1;H1 is likely the primary regulator in root. Conclusion: Our results uncover a much larger, staged responses to phosphate-starvation than previously described. To our knowledge, this work describes the highest resolution of genome-wide data on plant nutrient stress to date.
Publication Title
The response and recovery of the Arabidopsis thaliana transcriptome to phosphate starvation.
Alternate Accession IDs
Sample Metadata Fields
Age, Specimen part, Treatment
View Samples- Arabidopsis thaliana
- 18 Downloadable Samples
- Affymetrix Arabidopsis ATH1 Genome Array (ath1121501)
Description
The functions of miRNAs and their target mRNAs in Arabidopsis development have been widely documented, however, roles of stress responsive miRNAs and their targets are not as well understood. Using small RNA deep sequencing and ATH1 microarrays to profile mRNAs, we identified IAR3 (IAA-Ala Resistant 3) as a novel target of miR167a.
Publication Title
No associated publication
Alternate Accession IDs
Sample Metadata Fields
Specimen part, Treatment, Time
View Samples- Zea mays
- 12 Downloadable Samples
- Illumina HiSeq 2500
Description
This study analyzed the regulation of polyaspartic acid on the nitrate response of maize at transcriptional level.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Specimen part, Treatment
View Samples- Sus scrofa
- 1 Downloadable Sample
- Illumina HiSeq 2000
Description
Comparison of transcriptome profiling of Tibetan and Yorkshire pigs by RNA-Seq
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Age, Specimen part
View Samples