Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

36 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

DNA methylation profile in well-differentiated cancer uncoves another source of diagnostic and prognostic markers

ABSTRACT: By characterizing at the genome-wide level the DNA methylation patterns of the largest series of well-differentiated thyroid tumors described to date, we provide novel insights into the biology underlying on the one hand the histological heterogeneity, and on the other differential patient outcomes of this disease. We describe distinct subtype- and mutational-specific methylation profiles as well as novel markers associated with recurrence-free survival, which could provide an improved classification of patients. Bisulphite converted DNA from the 83 primary thyroid tumor samples and 8 adjacent normal tissue samples were hybridized to the Illumina Infinium 27k Human Methylation Beadchip v1.2

ORGANISM(S): Homo sapiens

SUBMITTER: Mercedes Robledo

PROVIDER: E-GEOD-51090 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

DNA methylation profile in well-differentiated cancer uncoves another source of diagnostic and prognostic markers

Project description:By characterizing at the genome-wide level the DNA methylation patterns of the largest series of well-differentiated thyroid tumors described to date, we provide novel insights into the biology underlying on the one hand the histological heterogeneity, and on the other differential patient outcomes of this disease. We describe distinct subtype- and mutational-specific methylation profiles as well as novel markers associated with recurrence-free survival, which could provide an improved classification of patients.

2014-07-31 | GSE51090 | GEO

Prognostic classifier based on genome-wide DNA methylation profiling in well differentiated thyroid tumors

Project description:Methylome analysis of different histological thyroid lesions and clinical features, aiming to better understand the DNA methylation deregulation of TC and to identify a prognostic epigenetic signature in well differentiated thyroid carcinomas.

2017-10-20 | GSE97466 | GEO

Diagnostic and prognostic utility of a unique epigenetic prognostic PHYMA signature in prostate cancer

Project description:Genome wide DNA methylation profiling of normal and Prostate cancer samples. The Illumina GoldenGate Methylation Cancer Panel I with 1,505 CpG sites selected from 807 genes was used to obtain DNA methylation profiles. Samples included 24 normals and 87 tumors. Bisulphite converted DNA from the 111 samples were hybridised to the Illumina Illumina GoldenGate Methylation array.

2014-03-13 | E-GEOD-39603 | biostudies-arrayexpress

Comprehensive DNA methylation profiling identifies novel diagnostic biomarkers for thyroid cancer

Project description:DNA methylation markers in thyroid tumor We used Illumina HumanMethylation EPIC bead array containing over the 850,000 CpG sites in 34 thyroid normal and tumor samples to identify thyroid subtype-specfic DNA methylation markers.

2020-01-01 | GSE121377 | GEO

DNA methylation profiling in pheochromocytoma and paraganglioma reveals diagnostic and prognostic markers

Project description:A Cartes d'Identite des Tumeurs (CIT) project from the french Ligue Nationale Contre le Cancer (http://cit.ligue-cancer.net):we explored DNA methylation patterns associated with PPGL malignancy using two large and well characterized cohorts of PPGL collected through a multi-institutional collaboration through the European Network for the Study of Adrenal Tumors (ENS@T). Bisulfite converted DNA from fresh frozen paragangliomas and adrenal medulla samples were hybridized to Illumina Infinium 27k Human Methylation

2015-05-11 | E-GEOD-62082 | biostudies-arrayexpress

Integrative analysis of DNA methylation and gene expression identified follicular thyroid cancer-specific diagnostic biomarkers [Expression]

Project description:The diagnosis of follicular thyroid carcinoma (FTC) prior surgical resection remains a challenge, as routine screening methods, such as ultrasound or even FNAB, could not diagnose FTC preoperatively. Here, we performed an integrative analysis of DNA methylation and RNA assays data from our own cohort (14 Follicular thyroid carcinoma vs 16 Benign thyroid lesion) to identify thyroid cancer-specific DNA methylation markers. We first identified differentially methylated and expressed genes and examined their correlations. Candidate DNA methylation sites were selected and further verified in validation set. Among all candidate methylation sites, cg06928209 was the most promising site as a molecular marker for early diagnosis, with a sensitivity of 90%, a specificity of 80% and an AUC of 0.77. Overall, our study demonstrates the potential use of methylation markers in FTC diagnosis and may boost the development of new epigenetic therapies.

2022-03-05 | GSE197852 | GEO

Integrative analysis of DNA methylation and gene expression identified follicular thyroid cancer-specific diagnostic biomarkers [Methylation]

2022-03-05 | GSE197860 | GEO

Diagnostic and prognostic utility of a unique epigenetic prognostic PHYMA signature in prostate cancer

2014-03-13 | GSE39603 | GEO

Intra-gene DNA methylation variability is a technically and clinically independent prognostic marker in women’s cancers

Project description:Differences in DNA methylation (DNAm) levels are amongst the earliest changes in human carcinogenesis, and are a hallmark of cancer, offering the potential for novel strategies to predict cancer biology and outcome. Hence, DNAm markings might provide a valuable lead for the development of DNA-based cancer biomarkers in tissue and bodily fluids. The Illumina Infinium 450k Human DNA methylation Beadchip was used to obtain DNA methylation profiles across approximately 480,000 CpGs in a total of 221 samples, including 171 serous, 18 endometrioid, 14 clear cell, 9 mucinous and 9 other histological cancer subtypes. Bisulphite converted DNA from the 221 samples were hybridized to the Illumina Infinium 450k Human Methylation Beadchip

2015-08-13 | E-GEOD-72021 | biostudies-arrayexpress

Expression profiling identifies deregulated pathways and top diagnostic markers in papillary thyroid carcinoma

Project description:Expression microarray was used to compare 57 PTC with a reference sample (pool of 9 adjacent normal thyroid tissue) and 4 PTC against 4 matched adjacent normal thyroid tissue. A quality control filter was applied based on Feature Extraction flags (empty spaces replacing values) Experiment condition, 61 PTC and 4 adjacent normal thyroid tissue samples obtained from total thyroidectomies were laleled with Cy3 and a pool of 9 adjacent normal thyroid tissue was labeled with Cy5. Samples Cy3 and Cy5 were mixed and hybridized at slide glasses Agilent 8x60k platform.

2014-11-01 | E-GEOD-50901 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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