Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

7 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

DNA copy number variation from human Wilms' Tumor samples

ABSTRACT: Genome-wide DNA copy number was studied to determine whether the Wilms' tumor samples generally show normal copy number variation comparing to the colon tumor samples We used custom Nimblegen microarrays to determine the genome-wide DNA copy number in human Wilms' Tumor samples We isolated genomic DNA from human Wilms' tumor tissues and hybridized to custom-designed Nimblegen microarrays (CHARM arrays).

ORGANISM(S): Homo sapiens

SUBMITTER: Yun Liu

PROVIDER: E-GEOD-29374 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

DNA methylation data from human liver, frontal cortex, spleen and colon

Project description:DNA methylation data from human tissues: 5 samples each of normal liver, frontal cortex, spleen and colon. 5 samples of colon tumor. Genomic DNA was isolated and hybridized to custom-designed Nimblegen microarrays (CHARM human array v1). 4 normal tissues and 1 colon tumor

2010-08-28 | E-GEOD-23841 | biostudies-arrayexpress

DNA methylation data from mouse iPS cells, ES cells, and ntES cells

Project description:Genome-wide DNA methylation was studied to determine whether iPS cells retain epigenetic memory at loci associated with its tissue of origin. We used custom Nimblegen microarrays to determine the genome-wide DNA methylation in mouse iPS cells. We isolated genomic DNA from mouse stem cells and hybridized to custom-designed Nimblegen microarrays (Me and CHARM arrays).

2010-07-19 | E-GEOD-22851 | biostudies-arrayexpress

DNA methylation data from human keratinocyte-derived iPS cells (N9) and ES cells

Project description:Genome-wide DNA methylation of early and late passaged keratinocyte-derived iPS cells were compared to ES cells. We used custom Nimblegen microarrays to determine the genome-wide DNA methylation in human keratinocyte-derived iPS cells and ES cells We isolated genomic DNA from human stem cells and somatic cells and hybridized to custom-designed Nimblegen microarrays (CHARM arrays).

2011-11-29 | E-GEOD-31742 | biostudies-arrayexpress

DNA methylation data from human iPS cells, ES cells, cord blood, and keratinocytes

Project description:Genome-wide DNA methylation was studied to determine whether iPS cells retain epigenetic memory at loci associated with its tissue of origin. We used custom Nimblegen microarrays to determine the genome-wide DNA methylation in human iPS cells, ES cells, and somatic cells We isolated genomic DNA from human stem cells and somatic cells and hybridized to custom-designed Nimblegen microarrays (CHARM arrays).

2011-11-29 | E-GEOD-27134 | biostudies-arrayexpress

DNA methylation data from AML12 cells during EMT

Project description:We investigated genome-wide DNA methylation during EMT in AML12 cells using comprehensive high throughput arrays for relative methylation (CHARM). We used custom Nimblegen microarrays. We isolated genomic DNA from cells at different timepoints post-TGF-β stimulation and hybridized to custom-designed Nimblegen microarrays (CHARM arrays). AML12 cells from 4 representative experiments were collected and used for the genome-wide DNA methylation analysis.

2011-07-03 | E-GEOD-27968 | biostudies-arrayexpress

DNA methylation data from newly emerged queens, newly emerged workers, adult nurses, adult foragers and adult reverted nurses Honeybees (Apis mellifera)

Project description:We investigated genome-wide DNA methylation of newly emerged queens, newly emerged workers, adult nurses, adult foragers and adult reverted nurses using comprehensive high throughput arrays for relative methylation (CHARM) We used custom Nimblegen microarrays We isolated genomic DNA from newly emerged queens, newly emerged workers, adult continuous nurses, adult continuous foragers and adult reverted nurses hybridized to custom-designed Nimblegen microarrays (CHARM arrays). Multiple brains were pooled for each sample and used for the genome-wide DNA methylation analysis.

2012-09-16 | E-GEOD-36650 | biostudies-arrayexpress

Measuring cell-type specific differential methylation in human brain tissue

Project description:We investigated genome-wide DNA methylation of NeuN+ and NeuN- fractions in three brain regions using comprehensive high throughput arrays for relative methylation (CHARM). We isolated genomic DNA from cell-sorted post-mortem brains using NeuN antibody and hybridized to Nimblegen microarrays (091020_HG19_CHARM_HX1 arrays).

2013-08-08 | E-GEOD-48610 | biostudies-arrayexpress

DNA methylation data from human iPS cells and fibroblasts

Project description:DNA methylation is often inversely correlated with gene expression. We used custom Nimblegen microarrays to determine the relationship between DNA methylation and gene expression in 6 iPS cell lines and the fibroblasts from which they were derived. We isolated genomic DNA from iPS cells and fibroblasts and hybridized to custom-designed Nimblegen microarrays (CHARM arrays).

2009-10-31 | E-GEOD-18227 | biostudies-arrayexpress

Genome-wide array comparative genomic hybridization (aCGH) profiling of copy number variations (CNVs) in various dog breeds in comparison to a reference sample

Project description:This study used the NimbleGen dog whole genome CGH 2.1M tiling array to assay copy number variants in the dog genome in multiple breeds and wolf. 53 samples of genomic DNA were hybridized to a reference sample. The dataset comprises 2 samples from each of 15 dog breeds, 10 samples from each of 2 dog breeds and 3 samples from gray wolf.

2012-08-21 | E-GEOD-40210 | biostudies-arrayexpress

DNA methylation data from a separate set of human iPS cells and fibroblasts, and ES cells

Project description:We used custom Nimblegen microarrays to determine the DNA methylation profiles of iPS cells, ES cells, and fibroblasts. We isolated genomic DNA from iPS cells, ES cells, and fibroblasts and hybridized to custom-designed Nimblegen microarrays (CHARM arrays).

2010-10-20 | E-GEOD-24820 | 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