GEO DataSets

(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) Background: α-catulin may functions as an oncoprotein, sustaining proliferation by preventing cellular senescence and promoting cancer cell migration. In this study, we investigated the mechanism of α-catulin in cancer cell migration and metastasis in lung cancer. Method: α-catulin mRNA expression was isolated from A549/AS2neo (control) and A549/AS2neo-α-catulin stable cells. The Phalanx Human OneArray microarray analysis was performed to identify α-catulin downstream genes. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13287

1 Sample

Download data: GPR, 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

(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

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) We demonstrate that AK4 down-regulation shRNAs significantly reduced cell migration and invasion in highly invasive lung cancer cell lines in vitro, as well as in lung metastases in vivo We used microarrays to analyze the AK4 regulated gene expression underlying invasion-metastasis cascade.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

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) Using a multiorgan metastasis model of human NSCLC cells (ACC-LC319/bone2) in NK cell-depleted SCID mice, we attempted to identify genes involved in the organ-selective nature of lung cancer-metastasis process, especially bone metastasis. Genome-wide gene expression profile of 15 metastatic lesions from three organs (bone, lung and liver) in this mouse model revealed lot of genes that seemed to reflect the organ specificity of metastatic cells. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6480

19 Samples

Download data: TXT

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Mus musculus

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL21626 GPL18573

20 Samples

Download data

(Submitter supplied) We report the RNA-sequencing results from small cell lung cancer lung tumors from lox-stop-lox Cas9 mice that were injected with sgControl RPP CMV Cre adenovirus or sgKdm5a RPP CMV Cre adenovirus. Mice were enrolled in a survival study where at their endpoint, tumors were harvested and subjected to RNA-sequencing analysis. RPP-sgRb1, sgTrp53, sgRbl2. sgControl=C0111

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21626

16 Samples

Download data: XLSX

(Submitter supplied) We report the RNA-sequencing results after CRISPR inactivation of KDM5A compared to a non-targeting sgRNA 14 days after lentiviral infection of GLC16 cells

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

4 Samples

Download data: XLSX

(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) We demonstrate that ALDOA down-regulation shRNAs significantly reduced cell migration and invasion in highly invasive lung cancer cell lines in vitro, as well as in lung metastases in vivo We used microarrays to analyze the ALDOA regulated gene expression underlying invasion-metastasis cascade.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

4 Samples

Download data: CEL

(Submitter supplied) Molecular comparison between control 4T1 cells with MMP3-low 4T1 cells

Organism:

Mus musculus

Type:

Expression profiling by array

Platform:

GPL6887

6 Samples

Download data: TXT

(Submitter supplied) Background: The oxidative DNA demethylase ALKBH3 targets single-stranded DNA (ssDNA) in order to perform DNA alkylation damage repair. ALKBH3 becomes up-regulated during tumorigenesis and is necessary for proliferation. However, the underlying molecular mechanism remains to be understood. Methods: To further elucidate the function of ALKBH3 in cancer, we performed ChIP-seq to investigate the genomic binding pattern of endogenous ALKBH3 in PC3 prostate cancer cells coupled with microarray experiments to examine the expression effects of ALKBH3 depletion. more...

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL9052

2 Samples

Download data: TXT, WIG

(Submitter supplied) Background: The oxidative DNA demethylase ALKBH3 targets single-stranded DNA (ssDNA) in order to perform DNA alkylation damage repair. ALKBH3 becomes up-regulated during tumorigenesis and is necessary for proliferation. However, the underlying molecular mechanism remains to be understood. Methods: To further elucidate the function of ALKBH3 in cancer, we performed ChIP-seq to investigate the genomic binding pattern of endogenous ALKBH3 in PC3 prostate cancer cells coupled with microarray experiments to examine the expression effects of ALKBH3 depletion. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13497

4 Samples

Download data: TXT