Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Methylation in Taiwanese HCC tumor and adjacent tissues

ABSTRACT: We analyzed tumor and adjacent non-tumor tissues from 62 Taiwanese HCC cases using Illumina HumanMethylation 27 chips. After Bonferroni adjustment, a total of 2,324 CpG sites significantly differed in methylation level, with 684 CpG sites significantly hypermethylated and 1,640 hypomethylated in tumor compared to non-tumor tissues. Array data were validated with pyrosequencing in a subset of 5 of these genes; correlation coefficients ranged from 0.92 to 0.97.

ORGANISM(S): Homo sapiens

PROVIDER: GSE37988 | GEO | 2012/05/16

SECONDARY ACCESSION(S): PRJNA167029

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Methylation in Taiwanese HCC tumor and adjacent tissues

Project description:We analyzed tumor and adjacent non-tumor tissues from 62 Taiwanese HCC cases using Illumina HumanMethylation 27 chips. After Bonferroni adjustment, a total of 2,324 CpG sites significantly differed in methylation level, with 684 CpG sites significantly hypermethylated and 1,640 hypomethylated in tumor compared to non-tumor tissues. Array data were validated with pyrosequencing in a subset of 5 of these genes; correlation coefficients ranged from 0.92 to 0.97. 62 tumor and 62 adjacent non tumor tissues

2012-05-15 | E-GEOD-37988 | biostudies-arrayexpress

Taiwanese-style pickle

Project description:Taiwanese-style pickle Raw sequence reads

| PRJNA933389 | ENA

Copy Number Variants at Chromosome 10q11.21, 12p12.1 and 21q22.11 May Be Associated with Hyperlipidemia in Taiwanese Patients

Project description:Affymetrix SNP array analysis was performed on DNA extracted from whole blood samples of 7 Taiwanese patients with hyperlipidemia. Three copy number variant (CNV) regions associated significantly with hyperlipidemia were identified through genomic segmentation analysis (P<0.001). 7 male Taiwanese hyperlipidemia patients.

2015-05-01 | E-GEOD-38149 | biostudies-arrayexpress

Molecular subtyping of Triple negative Breast Cancer from Taiwanese

Project description:'Precision medicine' is a concept that by utilizing modern molecular diagnostics, an effective therapy is accurately applied for each cancer patient to improve their survival rates. The aim of this study was to compare the molecular subtypes of triple negative breast cancer (TNBC) between Taiwanese and other datasets.

2017-06-13 | GSE95700 | GEO

Gene Expression Signature of Microcalcification among Taiwanese Breast Cancer

Project description:Microcalcification is one of the most common radiological and pathological features of breast ductal carcinoma in situ (DCIS), and to a lesser extent, invasive ductal carcinoma. We evaluated transcriptional profiles associated with ectopic mammary mineralization. We evaluated the transcriptional profiles associated with breast cancer microcalcification for Taiwanese breast cancer and a gene expression signature was derived.

2020-10-05 | GSE146558 | GEO

Exploring genome-wide DNA methylation profiles altered in hepatocellular carcinoma using Infinium HumanMethylation 450 BeadChips

2014-01-30 | GSE54503 | GEO

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

Copy Number Variants at Chromosome 10q11.21, 12p12.1 and 21q22.11 May Be Associated with Hyperlipidemia in Taiwanese Patients

2015-05-01 | GSE38149 | GEO

Concordance of PAM50 molecular subtyping between oligonucleotide microarray and NanoString nCounter assay for Taiwanese breast cancer

Project description:Five molecular subtypes have been identified according to intrinsic genes transcription. Microarrays have been adopted for molecular subtyping in addition to the original NanoString nCounter assay. This study aimed to evaluate subtyping consistency among Taiwanese breast cancers. Our study showed that fundamental discrepancy exists between distinct gene expression measuring approaches, and cross platform equivalence should not be overemphasized with too much extrapolation.

2021-09-01 | GSE162228 | GEO

Exploring genome-wide DNA methylation profiles altered in hepatocellular carcinoma using Infinium HumanMethylation 450 BeadChips

Project description:We examine genome-wide DNA methylation profiles in 66 pairs of HCC tumor and adjacent non-tumor tissues. After Bonferroni adjustment, a total of 130,512 CpG sites significantly differed in methylation level in tumor compared to non-tumor tissues, with 28,017 CpG sites hypermethylated and 102,495 hypomethylated in tumor tissues. Most (60.1%) significantly hypermethylated CpG sites are located in CpG islands. These results demonstrate the significance of aberrant DNA methylation in HCC tumorigenesis. Bisulfite modification of 1µg DNA was conducted using an EZ DNA Methylation Kit (Zymo Research, Irvine, CA) according to the manufacturer’s procedure. The Infinium Methylation 450K assay was performed according to Illumina’s standard protocol. Six HCC tumor/adjacent non-tumor tissue pairs were processed on the same chip to avoid chip-to-chip variation.

2014-01-30 | E-GEOD-54503 | 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