Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cytosine methylation analysis of adult mixed phenotype acute leukemia (MPAL)

ABSTRACT: Cytosine methylation analysis of genomic DNA from 31 MPAL patients bone marrow samples was performed using Illumina’s Infinium MethylationEPIC Kit (EPIC) that covers approximately 850,000 CpG probes (Illumina, San Diego, CA).

ORGANISM(S): Homo sapiens

PROVIDER: GSE113545 | GEO | 2018/04/24

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Alterations of DNA Methylation Profile in Peripheral Blood of Children with Simple Obesity

Project description:Genome wide DNA methylation profiling of peripheral blood samples from 41 children with simple obesity and 31 normal controls. The Illumina Infinium MethylationEPIC BeadChip (Illumina 850k, San Diego, CA) was used to obtain DNA methylation profiles across greater than 850,000 CpG sites across the genome. Samples included 31 normal and 41 obesity peripheral blood.

2023-01-03 | GSE221864 | GEO

Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling [WGBS]

Project description:We performed a critical evaluation of the new Infinium MethylationEPIC BeadChip microarray. EPIC covers over 850,000 CpG sites, including >90% of the CpGs from the HumanMethylation450 (HM450) BeadChip and an additional 413,743 CpGs. Even though the additional probes improve the coverage of regulatory elements, including 58% of FANTOM5 enhancers, only 7% distal and 27% proximal ENCODE regulatory elements are represented. Detailed comparisons of regulatory elements from EPIC and whole-genome bisulphite sequencing data (WGBS) show that a single EPIC probe is not always informative for those distal regulatory elements showing variable methylation across the region. However, overall data from the EPIC array at single loci are highly reproducible across technical and biological replicates and demonstrate high correlation with HM450 and WGBS data. We show that the HM450 and EPIC arrays distinguish differentially methylated probes, but the absolute agreement depends on the threshold set for each platform.

2016-09-12 | GSE86832 | GEO

Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling [MethylationEPIC]

2016-09-12 | GSE86831 | GEO

Critical evaluation of the Illumina MethylationEPIC BeadChip microarray for whole-genome DNA methylation profiling [HumanMethylation450]

2016-09-12 | GSE86829 | GEO

DNA methylation profile of myeloid/natural killer cell precursor acute leukemia (MNKPL)

Project description:Genome-wide DNA methylation profiling was conducted using DNA isolated from MNKPL. The Illumina EPIC methylation Beadchip array which covers more than 850,000 CpG loci was used. Samples include 7 cases.

2022-05-18 | GSE197696 | GEO

Genome-wide methylation profiles of post-mortem tissue samples (human) 3

Project description:In this study, 60 post-mortem tissue samples comprising four tissue types (dermis, epidermis, and muscle) were collected from autopsies of 20 Koreans aged 18 to 78. 250 ng of genomic DNA (gDNA) was employed to generate DNA methylation profiles utilizing the Illumina Infinium MethylationEPIC BeadChip array (Illumina, San Diego, CA, USA) at Macrogen Inc. (Macrogen, Seoul, Korea).

2023-10-22 | GSE244995 | GEO

Genome-wide methylation profiles of post-mortem tissue samples (human) 2

Project description:In this study, 60 post-mortem tissue samples comprising four tissue types (kidney, liver, and lung) were collected from autopsies of 20 Koreans aged 18 to 78. 250 ng of genomic DNA (gDNA) was employed to generate DNA methylation profiles utilizing the Illumina Infinium MethylationEPIC BeadChip array (Illumina, San Diego, CA, USA) at Macrogen Inc. (Macrogen, Seoul, Korea).

2023-10-22 | GSE244994 | GEO

Genome-wide methylation profiles of post-mortem tissue samples (human) 1

Project description:In this study, 60 post-mortem tissue samples comprising three tissue types (blood, brain, and heart) were collected from autopsies of 20 Koreans aged 18 to 78. 250 ng of genomic DNA (gDNA) was employed to generate DNA methylation profiles utilizing the Illumina Infinium MethylationEPIC BeadChip array (Illumina, San Diego, CA, USA) at Macrogen Inc. (Macrogen, Seoul, Korea).

2023-10-22 | GSE244993 | GEO

Methylation profiling (450K and EPIC array) for sarcoma classification

Project description:Infinium® HumanMethylation450 BeadChip and EPIC arrays were run with the aim of using the methylation profiles (n=986 in total) for sarcoma subtype classification (Paper: Lyskjær et al, 2021, DNA methylation-based profiling of bone and soft tissue tumours: a validation study of the ‘DKFZ sarcoma Classifier’ ). 500ng of DNA from fresh frozen (FT) or formalin-fixed paraffin-embedded (FFPE) tumour samples were bisulfite converted using the Zymo EZ DNA methylation Gold kit (Zymo Research Corp. Irvine, USA) before hybridisation to the Infinium HumanMethylation450 or EPIC beadchip arrays (Illumina, San Diego, CA) by UCL Genomics. All bisulfite-converted FFPE samples were restored with the Infinium FFPE DNA Restore kit (Illumina).

2021-05-01 | E-MTAB-9875 | biostudies-arrayexpress

Single-cell RNA sequencing distinctly characterizes the wide heterogeneity in pediatric mixed phenotype acute leukemia

Project description:We analyzed over 40,000 cells from nine pediatric MPAL BM samples to generate a single-cell transcriptomic landscape of B/Myeloid (B/My) and T/Myeloid (T/My) MPAL blasts and associated microenvironment cells. Cell clusters were identified using principal component analysis and uniform manifold approximation and projection (UMAP). Supervised differentially expressed gene (DEG) analysis was performed to identify B/My and T/My MPAL blast-specific signatures. MPAL sample transcriptome profiles were compared with normal BM stem and immune cells to identify MPAL-specific dysregulation. We have for the first time described the single-cell transcriptomic landscape of pediatric MPAL and have demonstrated that B/My and T/My MPAL have unique scRNA-seq profiles distinct from each other with expected overlap with AML and their respective ALL subtype.

2023-09-27 | GSE236351 | GEO

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