GEO DataSets

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

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL23227 GPL18573

20 Samples

Download data: BW

(Submitter supplied) To identify novel regulators and therapeutic targets of β-catenin-driven colorectal cancer development, genome-scale CRISPR-cas9 screens of Wnt/β-catenin were conducted and identified KMT2A as a key player of β-catenin-driven CRC progression. RNA-seq data was integrated with CHIP-seq and other experiments to assess the effect of KMT2A knockout on the transcriptomic profiling of CRC cells.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23227

9 Samples

Download data: CSV

(Submitter supplied) Using genome-scale CRISPR-Cas9 screening, our study revealed KMT2A as a critical regulator of β-catenin-driven CRC progression. To determine the role of KMT2A in β-catenin-mediated transcription, control and KMT2A-ablated DLD1 and SW480 colorectal cancer (CRC) cells were subjected to CHIP-seq analysis using anti-β-catenin and anti-H3K4me3 antibodies. Data obtained from the CHIP-seq experiments indicated a key role of KMT2A in β-catenin binding on active promoters.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL18573

11 Samples

Download data: BW

(Submitter supplied) Background & Aims. Sporadic colorectal cancers arise from mutations in APC, producing oncogenic β-catenin/TCF-dependent transcriptional reprogramming. The tumor suppressor axis regulated by the intestinal epithelial receptor, GUCY2C, is among the earliest pathways silenced in tumorigenesis. Retention of the receptor, but loss of its paracrine ligands, guanylin and uroguanylin, is an evolutionarily conserved feature of colorectal tumors, arising in the earliest dysplastic lesions. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL18573 GPL24676

34 Samples

Download data: BED, BW, NARROWPEAK, XLSX

(Submitter supplied) Colorectal cancer (CRC) is the second leading cause of cancer mortality worldwide. However, the molecular mechanisms underlying CRC progression remain to be further defined to improve patient outcomes. In this study, we found that KCTD9, a member of the potassium channel tetramerization domain-containing (KCTD) gene family, was commonly downregulated in CRC tissues and that KCTD9 expression was negatively correlated with the clinical CRC stage. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL11154

3 Samples

Download data: XLS

(Submitter supplied) The aim of this study is to identify EBP50 binding sequence.

Organism:

Homo sapiens

Type:

Genome binding/occupancy profiling by genome tiling array

Platforms:

GPL8169 GPL8170

2 Samples

Download data: TXT

(Submitter supplied) Stabilized Alpha-Helix peptides of BCL9 HD2 (SAH-BCL9) block BCL9 and B9L interactions with beta-catenin and specifically downregulate Wnt target gene expression.

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL570

6 Samples

Download data: CEL

(Submitter supplied) The impact of Mll1 removal on intestinal stem cells expressing an oncogenic form of beta-catenin (beta-cateninGOF) was analysed in 4 pairs of sorted intestinal stem cells of Lgr5-CreERT2; beta-cateninGOF;Mll1+/- (control) and Lgr5-CreERT2; beta-cateninGOF;Mll1-/- (knockout) at 10 days after tamoxifen-induced mutagenesis. Using 75-base-pair reads, around 30 million reads per sample with comparable unique mapped reads (73-78%) were obtained. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19057

8 Samples

Download data: TSV

(Submitter supplied) Unrestrained transcriptional activity of β-CATENIN and its binding partner TCF7L2 frequently underlies colorectal tumor initiation and is considered an obligatory oncogenic driver throughout intestinal carcinogenesis. Yet, the TCF7L2 gene carries inactivating mutations in about 10 % of colorectal tumors and is non-essential in colorectal cancer (CRC) cell lines. To determine whether CRC cells acquire TCF7L2-independence through cancer-specific compensation by other T-cell factor (TCF)/lymphoid enhancer‑binding factor (LEF) family members, or rather lose addiction to β-CATENIN/TCF7L2-driven gene expression altogether, we generated multiple CRC cell lines entirely negative for TCF/LEF or β-CATENIN expression. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

24 Samples

Download data: TXT

(Submitter supplied) The transcription factor SNAIL1 is a master regulator of epithelial-to-mesenchymal transition, a process entailing massive gene expression changes. To better understand SNAIL1-induced transcriptional reprogramming we performed time-resolved transcriptome analysis upon conditional SNAIL1 expression in colorectal cancer cells. Bioinformatic analyses indicated that SNAIL1 strongly affected Wnt/β-Catenin pathway activity. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL10558

27 Samples

Download data: TXT

(Submitter supplied) Genetic and epigenetic defects in Wnt/?-catenin signaling play important roles in colorectal cancer progression. Here we identify DACT3, a member of the DACT (Dpr/Frodo) gene family, as a negative regulator of Wnt/ß-catenin signaling that is transcriptionally repressed in colorectal cancer. Unlike other Wnt signaling inhibitors that are silenced by DNA methylation, DACT3 repression is associated with bivalent histone modifications. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6104

60 Samples

Download data: TXT

(Submitter supplied) Genetic and epigenetic defects in Wnt/ß-catenin signaling play important roles in colorectal cancer progression. Here we identify DACT3, a member of the DACT (Dpr/Frodo) gene family, as a negative regulator of Wnt/ß-catenin signaling that is transcriptionally repressed in colorectal cancer. Unlike other Wnt signaling inhibitors that are silenced by DNA methylation, DACT3 repression is associated with bivalent histone modifications. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6104

12 Samples

Download data: TXT

(Submitter supplied) 24 colon normal and tumor pairs using Illumina BeadChip Human Ref8-v2. Genetic and epigenetic defects in Wnt/ß-catenin signaling play important roles in colorectal cancer progression. Here we identify DACT3, a member of the DACT (Dpr/Frodo) gene family, as a negative regulator of Wnt/ß-catenin signaling that is transcriptionally repressed in colorectal cancer. Unlike other Wnt signaling inhibitors that are silenced by DNA methylation, DACT3 repression is associated with bivalent histone modifications. more...

Organism:

Homo sapiens

Type:

Expression profiling by array

Platform:

GPL6104

48 Samples

Download data: TXT

(Submitter supplied) To identify potential mRNAs that are acetylated by NAT10, RIP with a NAT10 antibody and acRIP with a ac4C antibody were conducted in DLD-1 and SW480 cells

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL24676

6 Samples

Download data: TXT

(Submitter supplied) Transcriptional analysis of DLD-1 and SW480 cells with NAT10 knockdown.

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL23227

8 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to determine how IGF2BP1 affects non-transformed and colorectal cancer (CRC) cells' expression of the genes regulated by Wnt/β-catenin signaling. The study established that while the majority of upregulated genes in non-transformed cells were activated by Wnt ligand treatment independent of IGF2BP1, a subset of Wnt-induced genes was regulated by IGF2BP1, including 11 direct binding targets. more...

Organism:

Mus musculus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24247

12 Samples

Download data: TXT

(Submitter supplied) The purpose of this study was to determine how IGF2BP1 affects non-transformed and colorectal cancer (CRC) cells' expression of the genes regulated by Wnt/β-catenin signaling. The study established that while the majority of upregulated genes in non-transformed cells were activated by Wnt ligand treatment independent of IGF2BP1, a subset of Wnt-induced genes was regulated by IGF2BP1, including 11 direct binding targets. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16791

12 Samples

Download data: TXT

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

Organism:

Homo sapiens; Mus musculus; Mus

Type:

Expression profiling by high throughput sequencing

4 related Platforms

36 Samples

Download data: BED, TXT

(Submitter supplied) The purpose of this study was to determine how IGF2BP1 affects non-transformed and colorectal cancer (CRC) cells' expression of the genes regulated by Wnt/β-catenin signaling. The study established that while the majority of upregulated genes in non-transformed cells were activated by Wnt ligand treatment independent of IGF2BP1, a subset of Wnt-induced genes was regulated by IGF2BP1, including 11 direct binding targets. more...

Organism:

Mus

Type:

Expression profiling by high throughput sequencing

Platform:

GPL31136

6 Samples

Download data: BED, TXT

(Submitter supplied) The purpose of this study was to determine how IGF2BP1 affects non-transformed and colorectal cancer (CRC) cells' expression of the genes regulated by Wnt/β-catenin signaling. The study established that while the majority of upregulated genes in non-transformed cells were activated by Wnt ligand treatment independent of IGF2BP1, a subset of Wnt-induced genes was regulated by IGF2BP1, including 11 direct binding targets. more...

Organism:

Homo sapiens

Type:

Expression profiling by high throughput sequencing

Platform:

GPL24676

6 Samples

Download data: BED, TXT