GEO DataSets

(Submitter supplied) To further explore the underlying mechanism of PNO1 knockdown on suppression of CRC cell growth in vivo and in vitro, Affymetrix human GeneChip primeview arrays were performed to determine the global gene expression in HCT116 cells after transduction lentivirus encoding PNO1 shRNA (n=3) or control shRNA (n=3).

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL15207

6 Samples

Download data: CEL

(Submitter supplied) To evaluate the effect on gene expression by p53 family members and AKR1B10, we overexpressed p53 family members in H1299 cells or knocked down AKR1B10 in HCT116 cells and evaluated the gene expression by microarray analysis.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL14550

8 Samples

Download data: TXT

(Submitter supplied) KH-type splicing regulatory protein (KHSRP) is a multifunctional nucleic acid binding protein. KHSRP regulates transcription, mRNA decay and translation, and miRNA biogenesis that influence distinct functions associated with cancer cell biology, such as inflammation and cell-fate determination. Our study uncovered novel mechanistic-based data on the tumor-promoting effects of KHSRP in colorectal cancer. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL17586

6 Samples

Download data: CEL

(Submitter supplied) HeLa cells transfected with an empty vector or a TIPE1 lentiviral vector were collected for gene expression detection. Some of them, for instance, the expression of genes induced by p53 was dramatically decreased. We used microarrays to detail the gene expression after transfection with TIPE1 and identified distinct classes of changed genes during this process.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL15207

2 Samples

Download data: CEL

(Submitter supplied) The process utilized by cancer cells for adapting to cellular stress is a key point for carcinogenesis. Alternative pre-mRNA splicing induced post-transcriptional gene expression regulation is one of the pathways for tumors maintaining proliferation rates accompanying the malignant phenotype under stress. However, the protein post-translational modification, especially protein acetylation on pre-mRNA splicing processes under stress is unknown. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20301

6 Samples

Download data: TXT

(Submitter supplied) Genome-wide association studies of tumor samples have identified a large number of lncRNAs associated with various types of cancer including colorectal cancer. To elucidate the mechanism by which CASC9 regulates colorectal cancer cell growth, RNA-sequencing was performed to analyze the gene expression profile affected by CASC9 knockdown. A total of 249 significantly upregulated genes and 491 significantly downregulated genes (absolute fold change ≥ 2, P < 0.05) were found in CASC9 knockdown HCT-116 cells.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20795

6 Samples

Download data: TXT

(Submitter supplied) By integrating genome-wide copy number alteration, RNA-seq and proteomics data from 589 colorectal cancer (CRC) patients, we revealed that chromosome 8q24.21 amplification is negatively correlated with p53 protein stability. Using siRNA and CRISPR activation screening, we pinpointed a novel long noncoding gene (PiHL, P53 inHibiting LncRNA) from 8q24.21 as a p53 negative regulator. PiHL is drastically upregulated in CRC and is an independent predictor of CRC poor prognosis. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21290

6 Samples

Download data: XLS

(Submitter supplied) Dysregulated miRNA in human colorectal cancer (CRC) were identified through comparison between 4 CRC tumors and their adjacent normal tissues by miRNA array. Histologically-confirmed CRC were included in this study. CRC tissues and paired adjacent normal tissues were obtained from the resected surgical specimens. The adjacent normal tissue is composed of normal colonic mucosa located at approximately 10 cm away from the cancer tissue. more...

Organism:

Homo sapiens

Type:

Expression profiling by RT-PCR

Platform:

GPL16850

8 Samples

Download data: TXT

(Submitter supplied) Although the 14-3-3σ gene was initially identified as a p53 target gene in colorectal cancer (CRC) cells it remained unknown whether it represents a suppressor of intestinal tumorigenesis. Deletion of 14-3-3σ in ApcMin mouse model of intestinal cancer resulted in an increased number and size of adenomas in the small and large intestine. Consequently, the median survival of these mice was shortened. 14-3-3σ-deficient adenomas displayed an increase in proliferation and decreased apoptosis, as well as increased dysplasia. Global expression profiling of adenomas revealed that loss of 14-3-3σ promoted the acquisition of a mesenchymal-like signature, which was associated with poor, relapse-free survival of CRC patients. In addition, numerous cytokines were up-regulated in 14-3-3σ-deficient adenomas, indicating a role of 14-3-3σ in regulating tumor/stroma interactions. Taken together, these results provide genetic proof of a tumor suppressor function of 14-3-3σ in the intestine.

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13112

8 Samples

Download data: XLSX

(Submitter supplied) Cell proliferation assay and flow cytometric analysis were used to examine the effects of SCS treatment on viability and apoptosis of colon cancer cell HT-29 cells and normal colonic epithelial cell NCM460 cells. Transcriptomic and proteomic studies were used to identify the main targets of SCS. SCS showed little effect on the gene expression profile of NCM460 cells whereas188 genes and 10 proteins were differentially regulated in HT-29 cells after SCS treatment. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20795

4 Samples

Download data: TXT

(Submitter supplied) To determine the glycolysis promoting effect of F. nucleatum and its underlying mechanisms, we performed RNA-seq to compare the gene expression profiles of DLD-1 cultured with or without F. nucleatum.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

6 Samples

Download data: XLS

(Submitter supplied) To investigate the function of ID4 in colon cancer cells, we collected total RNA from both HCT116-SC and HCT116-shID4 and examined mRNA expression profile, comprehensively.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

2 Samples

Download data: XLS

(Submitter supplied) The bifunctional enzyme 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase-4 (PFKFB4) controls metabolic flux through allosteric regulation of glycolysis. Here we show that p53 regulates the expression of PFKFB4 and that p53-deficient cancer cells are highly dependent on the function of this enzyme. We found that p53 down-regulates PFKFB4 expression by binding to its promoter and mediating transcriptional repression via histone deacetylases. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL18573

12 Samples

Download data: TXT

(Submitter supplied) In this study, we compared expression profiles between colorectal cancer cell line HCT116 with and without DUSP4 knockdown.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL13497

4 Samples

Download data: TXT

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

Organism:

Homo sapiens

Type:

Expression profiling by array; Genome variation profiling by SNP array; SNP genotyping by SNP array

Platforms:

GPL6801 GPL570 GPL10558

80 Samples

Download data: CEL, IDAT

(Submitter supplied) We integrated the copy number data with gene expression data from the same HCC samples, and identified fifteen putative driver genes with recurrently genomic aberrations and their associated modules in HCC. We further confirmed empirically that three putative driver genes (MYH10, CEP104 and RRS1) play significant roles in tumor initiation and progression of HCC. Notably, we demonstrated that RRS1 regulates the MDM2-P53 pathway and promotes tumor progression by retaining RPL11 in the nucleolus in HCC. more...

Organism:

Homo sapiens

Type:

Genome variation profiling by SNP array; SNP genotyping by SNP array

Platform:

GPL6801

62 Samples

Download data: CEL, TXT

(Submitter supplied) We integrated the copy number data with gene expression data from the same HCC samples, and identified fifteen putative driver genes with recurrently genomic aberrations and their associated modules in HCC. We further confirmed empirically that three putative driver genes (MYH10, CEP104 and RRS1) play significant roles in tumor initiation and progression of HCC. Notably, we demonstrated that RRS1 regulates the MDM2-P53 pathway and promotes tumor progression by retaining RPL11 in the nucleolus in HCC. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

6 Samples

Download data: IDAT

(Submitter supplied) We integrated the copy number data with gene expression data from the same HCC samples, and identified fifteen putative driver genes with recurrently genomic aberrations and their associated modules in HCC. We further confirmed empirically that three putative driver genes (MYH10, CEP104 and RRS1) play significant roles in tumor initiation and progression of HCC. Notably, we demonstrated that RRS1 regulates the MDM2-P53 pathway and promotes tumor progression by retaining RPL11 in the nucleolus in HCC. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

6 Samples

Download data: CEL

(Submitter supplied) We integrated the copy number data with gene expression data from the same HCC samples, and identified fifteen putative driver genes with recurrently genomic aberrations and their associated modules in HCC. We further confirmed empirically that three putative driver genes (MYH10, CEP104 and RRS1) play significant roles in tumor initiation and progression of HCC. Notably, we demonstrated that RRS1 regulates the MDM2-P53 pathway and promotes tumor progression by retaining RPL11 in the nucleolus in HCC. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

6 Samples

Download data: CEL

(Submitter supplied) Colorectal cancer is one of the most common cancers worldwide with increasing incidence, the presence of metastasis is one of the major causes for poor outcome. BEX2 has been reported to be involved in tumor development in several types of cancer, but is poorly understood in metastatic colorectal cancer. Here we demonstrated that knockout of BEX2 resulted in the enhancement of the migratory and metastatic potential of colorectal cancer cells in vivo and in vitro, re-expression of BEX2 in knockout cells could reverse the migratory enhancement. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL21290

3 Samples

Download data: TXT