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SRP076235
Homo sapiens
49 Downloadable Samples
Illumina HiSeq 2000
Description
The goal was to capture the transcriptional activity due to over-expression of AKT, BAD, ERBB2, IGF1R, RAF1 and KRAS(G12V) genes .Overexpressions were validated using Western Blots. Illumina RNA-Seq technology was used to capture the downstream transcriptional activity. Reads were 101 base pairs long and single ended. An R open source package “Rsubread” was used to align and quantify the read using UCSC hg19 annotation. The integer-based gene counts were later normalized in TPM . Overall design: Profiles of gene expression, downstream of AKT, BAD, ERBB2, IGF1R, RAF1 and KRAS(G12V) over-expression, were generated in cells derived from breast and used to generate a gene-expression signatures.
Publication Title
Activity of distinct growth factor receptor network components in breast tumors uncovers two biologically relevant subtypes.
Sample Metadata Fields
Specimen part, Subject
View Samples- Homo sapiens
- 46 Downloadable Samples
- IlluminaHiSeq2000
Description
The goal was to capture the transcriptional activity due to over-expression of AKT, BAD, ERBB2, IGF1R, RAF1 and ERK1 genes.Over-expressions were validated using Western Blots. Illumina RNA-Seq technology was used to capture the downstream transcriptional activity. Reads were 101 base pairs long and single ended. An R open source package “Rsubread” was used to align and quantify the read using UCSC hg19 annotation. The integer-based gene counts were later normalized in TPM . Overall design: Profiles of gene expression, downstream of AKT, BAD, ERBB2, IGF1R, RAF1 and ERK over-expression, were generated in cells derived from breast and used to generate a gene-expression signatures.
Publication Title
Combating subclonal evolution of resistant cancer phenotypes.
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 12 Downloadable Samples
Affymetrix Human Gene 1.0 ST Array (hugene10st)
Description
JMJD2B is expressed in a high proportion of human breast tumors, and the expression levels significantly correlate with estrogen receptor (ER) positivity. To assess the effect of JMJD2B depletion on the ER signaling pathway, we performed genome-wide gene expression analysis using the Affymetrix Human Gene 1.0 ST array.
Publication Title
Histone demethylase JMJD2B functions as a co-factor of estrogen receptor in breast cancer proliferation and mammary gland development.
Sample Metadata Fields
Sex, Specimen part, Cell line, Treatment
View Samples- Mus musculus
- 24 Downloadable Samples
- NextSeq 500
Description
Comparison of global transcription profiles in mouse E12.5 embryonic lung from Shh-Cre;Sin3a flox/+ control with Shh-Cre;Sin3a flox/flox revealed a large change genes due to loss of Sin3a in early lung development. Overall design: Examination of 2 different transcriptomes in 2 genotypes with three replicates.
Publication Title
Sin3a regulates epithelial progenitor cell fate during lung development.
Sample Metadata Fields
Specimen part, Subject
View Samples- Homo sapiens
- 291 Downloadable Samples
- Affymetrix Human Genome U133A Array (hgu133a)
Description
Expression profiles of acute myeloid leukemia patient samples.
Publication Title
Identification of genes with abnormal expression changes in acute myeloid leukemia.
Sample Metadata Fields
No sample metadata fields
View Samples- Homo sapiens
- 64 Downloadable Samples
- Affymetrix Human Genome U133A Array (hgu133a)
Description
Acute myeloid leukemia (AML) is one of the most common and deadly forms of hematopoietic malignancies. We hypothesized that microarray studies could identify previously unrecognized expression changes that only occur only in AML blasts. We were particularly interested in those genes with increased expression in AML, believing that these genes may be potential therapeutic targets.
Publication Title
Identification of genes with abnormal expression changes in acute myeloid leukemia.
Sample Metadata Fields
Sex, Disease
View Samples