Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

DNA methylation in human DIP2C knockout cancer cells

ABSTRACT: Aim: The disco-interacting protein 2 homolog C (DIP2C) gene is an uncharacterized gene found mutated in breast and lung cancers. We want to understand the role of DIP2C in tumor development. Methods: We engineered human DIP2C knockout cell systems by genome editing, and studied these to identify cellular processes affected by gene knockout. We used the Illumina HumanMethylation 450k beadchip array to identify methylation sites affected by the loss of DIP2C. Results: Inactivation of DIP2C triggered changes in cell morhpology, growth, gene expression and DNA methylation. Differential methylation at promoters was found inversly correlated with gene expression changes.

ORGANISM(S): Homo sapiens

PROVIDER: GSE86402 | GEO | 2017/07/31

SECONDARY ACCESSION(S): PRJNA341690

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Gene regulation of candidate cancer gene DIP2C

Project description:Purpose: The disco-interacting protein 2 homolog C (DIP2C) gene is an uncharacterized gene found mutated in breast and lung cancers. We want to understand the role of DIP2C in tumor development. Methods: We engineered human DIP2C knockout cell systems by genome editing, and then use next-generation sequencing to identify the genes affected by the loss of DIP2C. Results: Inactivation of DIP2C triggers substantial gene expression changes, cellular senescence and epithelial to mesenchymal transition in cancer cells.

2017-07-31 | GSE80746 | GEO

Methylome analysis reveals alterations in DNA methylation in the regulatory regions of left ventricle development genes in human dilated cardiomyopathy (methylation)

Project description:Alterations in DNA methylation and gene expression have been implicated in the development of human dilated cardiomyopathy (DCM). In this study, we analyzed DNA methylomes (Infinium 450K HumanMethylation BeadChip) and characterize differentially methylated probes between the left and right ventricles

2016-08-15 | GSE81337 | GEO

Comparison of genome-wide DNA methylation profiles of human fetal tissues conceived by in vitro fertilization and natural conception

Project description:Genome wide DNA methylation profiling of fetal tissue from elective terminations of pregnancy and multifetal pregnancy reduction. The Illumina Infinium HumanMethylation 450k BeadChip array was used to obtain DNA methylation profiles across approximately 453,093 CpGs in fetal tissue samples.

2021-08-03 | GSE159769 | GEO

DNA methylation data from 12 normal and 10 chronic periodontitis patients from site OCI

Project description:Microarray methylation (Infinium¨HumanMethylation 450 BeadChip from Illumina) was performed on 12 normal and 10 chronic periodontitis (CP) patients Bisulphite converted DNA from the 22 samples were hybridised to the Illumina Infinium 450k Human Methylation Beadchip

2015-07-29 | E-GEOD-59932 | biostudies-arrayexpress

DNA methylation data from 11 normal and 9 chronic periodontitis patients from site USC

Project description:Microarray methylation (Infinium®HumanMethylation 450 BeadChip from Illumina) was performed on 11 normal and 9 chronic periodontitis (CP) patients Bisulphite converted DNA from the 20 samples were hybridised to the Illumina Infinium 450k Human Methylation Beadchip

2015-07-29 | E-GEOD-59939 | biostudies-arrayexpress

DNA methylome analysis in infants from The Gambia / Aflatoxin / Seasonality study

Project description:Genome wide DNA methylation profiling in infant's blood from a mother/child cohort in The Gambia. The main variables of the analyses were the intra-uterine exposure to aflatoxin B1 (AFB1) and the season of conception. The Illumina Infinium HumanMethylation 450k Beadchip was used to obtain DNA methylation profiles across approximately 450,000 CpGs in whole peripheral blood obtained at 3-6 months of age. A total of 124 samples were analysed, including 3 technical replicates. Bisulphite converted DNA from the 124 samples were hybridised to the Illumina Infinium HumanMethylation 450k Beadchip

2015-04-18 | E-GEOD-59592 | biostudies-arrayexpress

Epigenome analysis of human blood and saliva samples

Project description:Genome-wide DNA methylation profiling of human blood and saliva samples. The Illumina Infinium HumanMethylation 450k BeadChip was used to obtain DNA methylation profiles across approximately 480,000 CpGs in blood and saliva samples provided from 22 persons, and saliva samples from 3 persons.

2020-03-31 | GSE130153 | GEO

Stability of the CpG island methylator phenotype during glioblastoma progression.

Project description:The Illumina HumanMethylation 450 BeadChip was used on 20 matched pairs of early and late secondary gliomas to assess the changes in DNA methylation during progression. Bisulphite converted DNA from the 40 samples were hybridised to the Illumina Infinium 450k Human Methylation Beadchip.

2014-07-18 | E-GEOD-58298 | biostudies-arrayexpress

Endometrial methylome of patients without endometriosis

Project description:Alterations in endometrial DNA methylation profile have been proposed as one potential mechanism initiating the development of endometriosis. However, the normal endometrial methylome is influenced by the cyclic hormonal changes and the menstrual cycle phase-dependent epigenetic signature should be considered when studying endometrial disorders. So far, no studies have been performed to evaluate the menstrual cycle influences and endometriosis-specific endometrial methylation pattern at the same time. Therefore, we used Infinium HumanMethylation 450K BeadChip arrays to explore DNA methylation profiles of endometrial tissues from various menstrual cycle phases. Infinium HumanMethylation 450K BeadChip arrays were used to explore DNA methylation profiles of endometrial tissues from mid secretory cycle phase from 17 patients without endometriosis

2016-02-15 | E-GEOD-73949 | biostudies-arrayexpress

Endometrial methylome of patients with endometriosis

Project description:Alterations in endometrial DNA methylation profile have been proposed as one potential mechanism initiating the development of endometriosis. However, the normal endometrial methylome is influenced by the cyclic hormonal changes and the menstrual cycle phase-dependent epigenetic signature should be considered when studying endometrial disorders. So far, no studies have been performed to evaluate the menstrual cycle influences and endometriosis-specific endometrial methylation pattern at the same time. Therefore, we used Infinium HumanMethylation 450K BeadChip arrays to explore DNA methylation profiles of endometrial tissues from various menstrual cycle phases. Infinium HumanMethylation 450K BeadChip arrays were used to explore DNA methylation profiles of endometrial tissues from various menstrual cycle phases from 24 patients with endometriosis

2016-02-15 | E-GEOD-73948 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data