GEO DataSets

Analysis of embryonic fibroblasts lacking the retinoblastoma binding protein RBP2. RBP2 contains a histone demethylase signature motif, as well as other domains frequently found in transcriptional regulators. Results provide mechanistic insights into transcriptional regulation by RBP2.

Organism:

Mus musculus

Type:

Expression profiling by array, count, 2 genotype/variation sets

Platform:

GPL1261

Series:

GSE6945

4 Samples

Download data: CEL

(Submitter supplied) The roles of histone demethylase RBP2 in gene expression were assessed using gene expression profiling experiments with wild type and RBP2-/- primary MEFs. Several cytokine genes including SDF1 and Kit ligand were upregulated upon inactivation of RBP2. Keywords: mouse embryonic fibroblasts, gene expression profiling, microarray, Affymetrix Mouse Genome 430 2.0, cell type comparison

Organism:

Mus musculus

Type:

Expression profiling by array

Dataset:

GDS2731

Platform:

GPL1261

4 Samples

Download data: CEL

(Submitter supplied) The menin tumor suppressor protein (Men1) is deficient in many endocrine tumors and forms an active complex with MLL family histone methyltransferases. This Men1 complex promotes histone H3 lysine 4 trimethylation at target loci including homeobox genes and cyclin-dependent kinase inhibitor genes. The loss of Men1 may be tumorigenic because it leads to decreased histone H3 lysine 4 trimethylation resulting in expressional changes of specific genes. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6246

17 Samples

Download data: CEL

(Submitter supplied) Aberrations in epigenetic processes, such as histone methylation, can lead to cancer. Retinoblastoma Binding Protein 2 (RBP2)(also called JARID1A or KDM5A) can demethylate tri- and di-methylated lysine 4 in histone H3, which are epigenetic marks for transcriptionally active chromatin, whereas the MEN1 tumor suppressor promotes H3K4 methylation. Previous studies suggested that inhibition of RBP2 contributed to tumor suppression by pRB. more...

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL1261

8 Samples

Download data: CEL

(Submitter supplied) To identify genes whose expression was affected by RBP2, we performed gene expression microarray analysis in control and RBP2 depletion human lung cancer cell line. Two individual shRNA (RBP2 KD1 and RBP2 KD2) were used to limit potential off-target effects.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

6 Samples

Download data: CEL

(Submitter supplied) RBP2 (JARID1A/RBBP2) enrichment at proximal promoter regions in differentiating promonocytic U937 cells and in the osteosarcoma SAOS-2 cells Keywords: differentiation treatment, ChIP-on-chip analysis

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL6530

4 Samples

Download data: GPR

(Submitter supplied) H3K4me3 enrichment at proximal promoter regions Keywords: ChIP-on-chip data

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL6529

1 Sample

Download data: GPR

(Submitter supplied) Gene-expression changes in U937 cells undergoing monocytic differentiation with TPA treatment Keywords: differentiation treatment

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6491

6 Samples

Download data: GPR

(Submitter supplied) RBP2 is downstream of pRB pathway We used gene expression profiling experiments to investigate if gene expression changes in cells with RBP2 knockdown significantly overlap with gene expression changes in cells overexpressing pRB, consistent with the data that knockdown of RBP2 phenocopies reintroduction of pRB in SAOS-2 (RB-/-) cells Keywords: epistatic experiment

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL571

9 Samples

Download data: CEL

(Submitter supplied) We report the identification of genomic regions bound by RBP2 isoforms and define the functional categories that these regions represent. RBP2 modifies methylated lysine residues on histone tails. We found that RBP2 large isoform containing the recognition module for histone H3K4me3 and RBP2 small isoform lacking this module bind to to different regions in the human genome. Importantly, isoform-specific regions and overlapping regions belong to genes with different molecular functions. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL9052

5 Samples

Download data: BED, WIG

(Submitter supplied) The transcriptomic profiles of mouse embryonic fibroblasts (MEFs) were investigated using the next-generation RNA sequencing (RNA-Seq). The CLC Genomic Workbench software was used to screen the differentially expressed transcripts. A total of 49 genes with a significantly differential expression (false discovery rate (FDR) p<0.05, fold change >2) in the female group as compared with the male group.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

10 Samples

Download data: TXT

(Submitter supplied) To determine the roles of RBP2 in breast cancer metastasis, MDA-MD-231 cells were transfected with siRNAs against RBP2 or luciferase control, followed with gene expression microarray analysis and gene set enrichment analysis. These analyses revealed that RBP2 knockdown significantly decreased expression of genes linked to breast cancer metastasis to lung.

Organism:

Homo sapiens

Type:

Expression profiling by array

Dataset:

GDS5355

Platform:

GPL6947

9 Samples

Download data: TXT

Analysis of MDA-MD-231 breast cancer cell line transfected with siRNAs against RBP2. RBP2 is a histone demethylase (also known as JARID1A and KDM5A) associated with breast cancer metastasis. Results provide insight into roles of RBP2 in breast cancer metastasis.

Organism:

Homo sapiens

Type:

Expression profiling by array, transformed count, 3 protocol sets

Platform:

GPL6947

Series:

GSE49119

9 Samples

Download data