Filters
Technology
Platform
Caenorhabditis elegans
82 Downloadable Samples
NextSeq 500
Description
We have used FACS to isolate fluorescent cells at multiple time points from synchronized embryos containing early and highly specific tissue/lineage markers. We then carried out RNA-seq, and observe dramatic differences in gene expression levels both between cell-types, and over time within the same population. Furthermore, we observe differential transcript usage between cell-types and over time, including differential promoter and differential exon usage that leads to additional differences between cell types.
Publication Title
No associated publication
Sample Metadata Fields
Sex, Age, Specimen part, Disease
View Samples- Homo sapiens
- 6 Downloadable Samples
Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)
Description
Human umbilical vein endothelial cells (HUVECs) were transduced with either MIY-N1IC (Notch1 intracellular domain) or MIY vector control. The cells were sorted for YFP, and RNA was extracted using Trizol (Invitrogen) and analyzed by the Affymetrix Human Genome U133 Plus 2.0 Array. Results were analyzed using the GCRMA algorithm to identify genes with a minimum of 2-fold induction or reduction. This global gene expression study was used to identify Notch targets in the endothelium.
Publication Title
Notch initiates the endothelial-to-mesenchymal transition in the atrioventricular canal through autocrine activation of soluble guanylyl cyclase.
Sample Metadata Fields
Specimen part
View Samples- Danio rerio
- 20 Downloadable Samples
- IlluminaGenomeAnalyzerIIx
Description
This project aims at an initial characterization of changes in gene expression in zebrafish with advancing age. Transcript levels are determined in several tissues of zebrafish with differing ages using RNA-seq. Differentially expressed genes are determined to pinpoint genes that are differently regulated in young and old zebrafish. Results will be compared with other species to identify common pathways of ageing.
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples
SRP000931- Homo sapiens
- 14 Downloadable Samples
- IlluminaGenomeAnalyzerII
Description
Paired end sequencing of cDNA isolated from individual melanoma samples via the Illumina sequencing platform to identify genetic aberrations that may play a role in melanoma genesis.
Publication Title
Integrative analysis of the melanoma transcriptome.
Sample Metadata Fields
No sample metadata fields
View Samples- Escherichia coli
- 9 Downloadable Samples
- Illumina Genome Analyzer II
Description
The goal was to establish a robust and scalable RNA-seq process applicable to cultured bacteria as well as to complex community transcriptomes. To this end, we evaluated rRNA depletion methods and chose a protocol that eliminates rRNA reads efficiently and robustly, and largely irrespective of the quality of the RNA input sample.
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Cell line
View Samples- Homo sapiens
- 8 Downloadable Samples
- IlluminaGenomeAnalyzerIIx
Description
Transcriptome of human HL-60 and HEK-293 cells depending on culture cell density
Publication Title
No associated publication
Sample Metadata Fields
No sample metadata fields
View Samples SRP052182- Anopheles gambiae
- 7 Downloadable Samples
- Illumina HiSeq 2000
Description
Transcriptome sequencing of arthropod cell lines
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease, Cell line
View Samples SRP052081- Anopheles gambiae
- 7 Downloadable Samples
- Illumina HiSeq 2000
Description
Transcriptome sequencing of arthropod cell lines
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease, Cell line
View Samples SRP052130- Anopheles gambiae
- 7 Downloadable Samples
- Illumina HiSeq 2000
Description
Transcriptome sequencing of arthropod cell lines
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease, Cell line
View Samples SRP052102- Anopheles gambiae
- 7 Downloadable Samples
- Illumina HiSeq 2000
Description
Transcriptome sequencing of arthropod cell lines
Publication Title
No associated publication
Sample Metadata Fields
Specimen part, Disease, Cell line
View Samples