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DNA methylation analysis of colorectal cancer SW48/YB5 cell line treated with the HH1 compound

ABSTRACT: DNA methylation analysis of colorectal cancer SW48/YB5 cell line treated with the HH1 compound

PROVIDER: PRJNA414395 | ENA |

REPOSITORIES: ENA

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DNA methylation analysis of colorectal cancer SW48/YB5 cell line treated with the HH1 compound

Project description:YB5 is a colon cancer cell line derived from the SW48 colon cancer cell line and contains a DNA methylated and silenced CMV promoter driving expression of a GFP reporter. The cells were treated with 10 micromolar concentration of the HH1 compound or with DMSO as a control. Reduced representation bisulfite sequencing (RRBS) was performed after the treatment to analyze DNA methylation at CpG sites.

2018-07-31 | GSE104998 | GEO

ATAC-seq of YB5 cells treated with HH1

Project description:ATAC-seq was performed after YB5 cells were treated with DMSO or HH1

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Analysis of DNA methylation profiles in colorectal cancer cells treated with boswellic acids

Project description:Genome wide DNA methylation profiling of colorectal cancer cell lines treated with acetyl-11-keto-β-boswellic acid (AKBA) or 5-aza-2’-deoxycytidine (DAC). The Illumina Infinium 27k Human DNA methylation Beadchip v1.2 was used to obtain DNA methylation profiles across approximately 27,000 CpGs in the colorectal cancer cell line SW48. Samples included non-treated, AKBA-treated, and DAC-treated SW48 cells.

2012-12-01 | GSE32275 | GEO

Expression and DNA methylation of colon cancer cell lines

Project description:This SuperSeries is composed of the following subset Series: GSE34077: Colon Cancer cell line YB5 untreated cells vs YB5 treated 24h with Depsipeptide at 20 nM GSE34427: DNA methylation analysis of Colon Cancer cell line SW48 Refer to individual Series

2012-04-03 | E-GEOD-34429 | biostudies-arrayexpress

Analysis of DNA methylation profiles in colorectal cancer cells treated with boswellic acids

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RNA-seq of YB5 cells treated with HH1

Project description:RNA-seq was performed after YB5 cells were treated with DAC, HH1 or the combination of the two. RNA-seq was also perfomed after viral transduction using a TET-off dnCDK9 construct

2018-10-26 | GSE104837 | GEO

Effect of decitabine, carboplatin and their combination on gene expression in the YB5 colon cancer cell line.

Project description:YB5 cell line is a clonal derivative of the SW48 colon cancer cell line that contains a single copy of a green fluorescent protein (GFP) reporter silenced by CpG methylation at its CMV promoter. We treated the YB5 cells with decitabine (5-aza-2’-deoxycytidine), carboplatin and the combination of decitabine plus carboplatin and analyzed the effects of the drugs on gene expression.

2015-09-08 | GSE66279 | GEO

ATAC-seq of YB5 cells treated with HH1

Project description:ATAC-seq of YB5 cells treated with HH1

| PRJNA453383 | ENA

RNA-seq of YB5 cells treated with HH1

Project description:RNA-seq of YB5 cells treated with HH1

| PRJNA413957 | ENA

Gene expression of colorectal cancer cells treated with Celastrol or compound 19-048

Project description:As a terpenoids natural product isolated from the plant Thunder God Vine, Celastrol is widely studied for its pharmacological activities, including anti-tumor activities. However, the clinical application of Celastrol is strictly limited due to its severe side effects. Without identification and validation of the target protein of Celastrol, it is difficult to determine whether its anti-tumor activities and side effects are due to inhibition of the same protein. Using a new computational tool we have developed for target discovery, peroxiredoxin I (PRDX1) was identified as the ROS-manipulating target protein of Celastrol. High-resolution crystal structure revealed the unique binding mode of Celastrol with PRDX1, via covalent reaction to the catalytic Cys-173 residue of PRDX1. New derivative compound named 19-048 with improved potency against PRDX1 and selectivity towards PRDX2~PRDX6 were synthesized. Both Celastrol and compound 19-048 effectively suppressed the proliferation of colorectal cancer cells. While these anti-tumor efficacy was significantly diminished on xenograft nude mice bearing PRDX1 knock-down colorectal cancer cells. Several downstream genes of p53 were dramatically up-regulated in the presence of Celastrol and compound 19-048. Our findings reveal that the side effects of Celastrol could be reduced via structural modification, and PRDX1 inhibition is promising for the treatment of colorectal cancer.

2022-12-31 | GSE198630 | GEO

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