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Homo sapiens
4 Downloadable Samples
IlluminaHiSeq2000
Description
Several studies have shown that long non-coding RNAs (lncRNAs) may play anessential role in Epithelial-mesenchymal transition (EMT), which is an important step in tumor metastasis, however, little is known about the global change of lncRNA transcriptome during EMT. To investigate how lncRNA transcriptome alteration contributes to EMT progression regulation, we performed a whole-transcriptome strand-specific RNA deep sequencing of MCF10A induced EMT by TGF-ß. Deep sequencing results showed that the long RNA (>=200-nt) transcriptome of MCF10A was undergone a global changed in EMT, and this alteration was determined as early as 8h after being induced using TGF-ß. 8703 linear novel genes with ambiguous protein-coding potential were identified, 512 of which were further determined to be novel lncRNAs. After analyzing the expression of 5473 known and novel lncRNAs, as well as 2208 known and novel circRNAs during EMT, we found a large numbers of lncRNAs might be involved in the regulation of EMT. Intriguingly, we identified 216 gene clusters constituted by lncRNAs and/ornovel genes in “gene desert” region. The expressions of all genes in these clusters were changed concurrently during EMT, indicating that these clusters might play important role in EMT. Our study reveals a global reprogramming of lncRNAs transcriptome in EMT and provides clues to the study of the molecular mechanism of EMT.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
No sample metadata fields
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- Mus musculus
- 2 Downloadable Samples
Affymetrix Mouse Genome 430 2.0 Array (mouse4302)
Description
mRNAs expression profile of MEFs comparing AK156230 knockdown cells with control cells. The microarray with coverage of 45038 mouse mRNAs.
Publication Title
No associated publication
Alternate Accession IDs
Sample Metadata Fields
Specimen part
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SRP168448- Mus musculus
- 12 Downloadable Samples
- Illumina HiSeq 3000
Description
The expression of lncRNAs in the hypothalamic neuronal stem cells of young mice and aged mice.The expression pattern of mRNAs in the hypothalamic neuronal stem cells of aged Hnscr null mice and littermate wild-type mice.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
View Samples- Homo sapiens
- 16 Downloadable Samples
- Affymetrix Human Genome U133 Plus 2.0 Array (hgu133plus2)
Description
Gastric cancer (GC) is one of the most common cancer worldwide. Specific and reliable molecular markers are limited; it is critical to identify new biomarkers for GC to aid in early diagnosis, treatment strategy, and prognosis evaluation. Microarray technology makes it possible to measure the expression levels of thousands of genes, and identifying meaningful and useful molecular targets from these large data.
Publication Title
Downregulation of ALDOB is associated with poor prognosis of patients with gastric cancer.
Alternate Accession IDs
Sample Metadata Fields
Specimen part
View Samples- Rattus norvegicus
- 9 Downloadable Samples
- Affymetrix Rat Genome 230 2.0 Array (rat2302)
Description
To explored the mechanism of pharmacokinetic perturbation in chronic unpredicted mild stress (CUMS) resulting depression, CUMS-induced depression animal model with spontaneous diabetic GK rats were established.
Publication Title
Impact of chronic unpredicted mild stress-induced depression on repaglinide fate via glucocorticoid signaling pathway.
Alternate Accession IDs
Sample Metadata Fields
Sex, Specimen part
View Samples- Mus musculus
- 12 Downloadable Samples
Description
The goal of this study was to asses genome wide cross talk between Glucocorticoid Receptor (GR) and Peroxisome Proliferator Activated Receptor Alpha (PPARA) on the level of DNA binding (ChIP-seq) and gene expression (RNA-seq) in primary mouse hepatocytes.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 188 Downloadable Samples
Description
Individual CD27+ CD38+ individual human B cells were analyze with a new RNAseq protocol that captures the 5'' end of transcripts
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
No sample metadata fields
View Samples- Drosophila melanogaster
- 71 Downloadable Samples
- Illumina HiSeq 2500
Description
Here, we characterize differential expression patterns associated with two chromosomal inversions found in natural Drosophila melanogaster populations. To isolate the impacts of genome structure, we engineered synthetic chromosomal inversions on controlled genetic backgrounds with breakpoints that closely match each natural inversion.
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Sex, Age, Specimen part
View Samples- Saccharomyces cerevisiae
- 10 Downloadable Samples
- Illumina HiSeq 2000
Description
Transcriptomic profiling of chemical exposure reveals roles of Yap1 in protecting yeast cells from oxidative and other types of stresses
Publication Title
No associated publication
Alternate Accession IDs
None
Sample Metadata Fields
Disease, Cell line
View Samples