Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

10 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

TET2 loss-of-function mutations associate with a DNA hypermethylation signature in diffuse large B-cell lymphoma

ABSTRACT: This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

ORGANISM(S): Homo sapiens

SUBMITTER: Vasu Punj

PROVIDER: E-GEOD-37365 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Publications

Genome-wide profiling identifies a DNA methylation signature that associates with TET2 mutations in diffuse large B-cell lymphoma.

Asmar Fazila F Punj Vasu V Christensen Jesper J Pedersen Marianne T MT Pedersen Anja A Nielsen Anders B AB Hother Christoffer C Ralfkiaer Ulrik U Brown Peter P Ralfkiaer Elisabeth E Helin Kristian K Grønbæk Kirsten K

Haematologica 20130705 12

The discovery that the Ten-Eleven Translocation (TET) hydroxylases cause DNA demethylation has fundamentally changed the notion of how DNA methylation is regulated. Clonal analysis of the hematopoetic stem cell compartment suggests that TET2 mutations can be early events in hematologic cancers and recent investigations have shown TET2 mutations in diffuse large B-cell lymphoma. However, the detection rates and the types of TET2 mutations vary, and the relation to global methylation patterns has ...[more]

PMID: 23831920

Similar Datasets

TET2 loss-of-function mutations associate with a DNA hypermethylation signature in diffuse large B-cell lymphoma (DNA methylation)

Project description:Genome wide DNA methylation profiling of patient samples with TET2 mutations and Wild type TET2 status . The Illumina Infinium HumanMethylation 450_15017482_v.1.1 was used to obtain DNA methylation profiles across approximately 482,421 CpGs in fresh frozen lymphoma samples. Samples include 19 TET2 wild type and 12 TET2 mutant samples. Bisulphite converted DNA from the 31 samples were hybridised to the Illumina Infinium HM450K Human Methylation Beadchip v1.2

2013-10-10 | E-GEOD-37362 | biostudies-arrayexpress

Promoter DNA methylation dynamics of human hematopoietic progenitor cells during differentiation and aging

Project description:Array-based analysis of genome-wide DNA methylation changes in human CD34+ hematopoietic progenitor cells during myeloid differentiation and aging.

2011-03-17 | E-MTAB-487 | biostudies-arrayexpress

rius_et_al

Project description:array-based analysis of genome-wide DNA methylation changes induced by the demethylating drugs 5-azacytidine and CP-4200 on U937 cells for 72 hours

2013-07-24 | E-MTAB-1529 | biostudies-arrayexpress

rius_et_al

Project description:array-based analysis of genome-wide DNA methylation changes induced by the demethylating drugs 5-azacytidine and CP-4200 on HCT116 cells for 72 hours

2013-06-01 | E-MTAB-702 | biostudies-arrayexpress

Methylation profiling by array of human HCT116 and HL60 cells treated with the demthylating drugs azacytidine and decitabine

Project description:Array-based analysis of genome-wide DNA methylation changes induced by the demethylating drugs azacytidine and decitabine on HCT116 and HL60 cells for 24 hours

2010-12-01 | E-MTAB-417 | biostudies-arrayexpress

Methyl-array of breast cancer cell lines with different metastatic potential

Project description:Methylation status of breast cancer cell lines 4T1, D2A1, D2.0R and 4T1 cell lines treated with the demethylating agent decitabine were assess using methylarray to identify whether the baseline degree of genomic DNA methylation is correlating with the cell line's metastatic potential.

2023-10-17 | E-MTAB-13432 | biostudies-arrayexpress

Methylation profiling by array of subcutaneous fat derived from 856 TwinsUK participants

Project description:Epigenetic changes such as DNA methylation variation are known to play a role in gene regulation and common disease susceptibility. Little is known about the genome-wide frequency, localization and function of such changes and how they are regulated by genetic and environmental factors. We have utilized the MuTHER resource and generated methylation profiles across multiple tissues conducted in a large set of female individuals that allows systematic dissection of genetic and non-genetic effects on DNA methylation. DNA methylation was quantified in subcutaneous fat and skin derived from 648 TwinsUK participants using the Infinium HumanMethylation450 BeadChips. Data from transcription profiling of skin, adipose fat and lymphoblastoid cell lines (LCLs) from the same set of TwinsUK participants have been deposited in ArrayExpress under accession number E-TABM-1140 (https://www.ebi.ac.uk/arrayexpress/experiments/E-TABM-1140).

2013-10-01 | E-MTAB-1866 | biostudies-arrayexpress

Methylation data as part of an Integrated analysis of oligodendroglial tumours

Project description:A Cartes d'Identite des Tumeurs (CIT) project from the french Ligue Nationale Contre le Cancer (http://cit.ligue-cancer.net: Oligodendroglial tumours (OT) are a heterogeneous group of gliomas. Three molecular subgroups are currently distinguished based on the IDH mutation and the 1p/19q co-deletion. Here we performed an integrated analysis of the transcriptome, genome and methylome of 156 OT. Beyond the 3 well-known molecular classes, our multi-omics classification revealed 3 subgroups within 1p/19q co-deleted tumours, associated with different expression patterns of oligodendroglial progenitor cell (OPC), astrocytic, oligodendrocytic and neuronal lineage genes. The validity of these 3 subgroups was confirmed on public datasets. The OPC-like group was associated with a more aggressive histological and genomic profile and with MYC activation that occurred through various alterations including MYC locus genomic gain, MYC exon 3 hypo-methylation and down-regulation of microRNA-34b/c. In the lower grade glioma TCGA dataset, the OPC-like group was associated with a poorer outcome independently from histological grade. Our study unravels previously unrecognized heterogeneity among 1p/19q co-deleted tumours.

2016-03-11 | E-MTAB-3903 | biostudies-arrayexpress

Methylation profiling of human colorectal carcinoma cells after inhibition of DNMT3B

Project description:Array-based analysis of genome-wide DNA methylation changes in colorectal carcinoma cells after inhibition of DNA methyltransferase 3B (DNMT3B)

2012-03-01 | E-MTAB-719 | biostudies-arrayexpress

Methylation profiling by array of 108 clear cell renal cell carcinoma

Project description:A Cartes d'Identite des Tumeurs (CIT) project from the French Ligue Nationale Contre le Cancer (<a href=\\ttp://cit.ligue-cancer.net/\\ target=\\_blank\\>http://cit.ligue-cancer.net</a>). Selecting patients with metastatic clear-cell renal cell carcinoma (m-ccRCC) who might benefit from treatment with targeted tyrosine kinase inhibitors (TKIs) is a challenge. Our aim was to identify molecular markers associated with outcome in m-ccRCC patients treated with sunitinib.\

2016-02-26 | E-MTAB-3274 | 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