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TranscriptomicsDNA methylation profiling of ductal carcinoma in situ (DCIS)
Methylated genomic fragments from tumor DNA and matching normal control were enriched with the methylated-CpG island recovery assay (MIRA); amplified, labeled and hybridized on Agilent CpG island tiling oligo arrays. MIRA enriched samples from tumor were labeled with Cy5 while MIRA enriched DNA samp...
ORGANISM(S): Homo sapiens 
2010-05-05 | E-GEOD-14865 | biostudies-arrayexpress
TranscriptomicsGlobal methylation profiling of lymphoblastoid cell lines reveals epigenetic contributions to autism spectrum disorders
Autism is currently considered a multigene disorder with epigenetic influences. To investigate the contribution of DNA methylation to autism spectrum disorders, we have recently completed large-scale methylation profiling by CpG island microarray analysis of lymphoblastoid cell lines (LCL) derived ...
ORGANISM(S): Homo sapiens 
2010-04-27 | E-GEOD-21395 | biostudies-arrayexpress
TranscriptomicsGenomic mapping of 5-hydroxymethylcytosine in the human brain
Methylation at the 5-position of cytosine is a well-studied epigenetic pathway. In addition to 5-methylcytosine (5mC), substantial amounts of 5-hydroxymethylcytosine (5hmC) also referred to as the 6th DNA base, have been detected in certain tissues, most notably the brain. However, the genomic distr...
ORGANISM(S): Homo sapiens 
2011-03-01 | E-GEOD-27051 | biostudies-arrayexpress
TranscriptomicsMethylation profiling of lung squamous cell carcinomas vs surrounding normal tissue
Methylated genomic fragments from tumor and matching normal DNA were enriched with the methylated-CpG island recovery assay (MIRA); amplified, labeled and hybridized on Agilent CpG island tiling oligo arrays. Samples from tumor were labeled with Cy5 while the matching normal were labeled with Cy3 so...
ORGANISM(S): Homo sapiens 
2010-05-25 | E-GEOD-9622 | biostudies-arrayexpress
TranscriptomicsInvestigating the epigenetic effects of a prototype smoke-derived carcinogen in human cells
Global loss of DNA methylation and locus/gene-specific gain of DNA methylation are two distinct hallmarks of carcinogenesis. Aberrant DNA methylation is implicated in smoking-related lung cancer. In this study, we have comprehensively investigated the modulation of DNA methylation consequent to chro...
ORGANISM(S): Homo sapiens 
2010-04-29 | E-GEOD-21532 | biostudies-arrayexpress
TranscriptomicsDNA methylation in B cells
Using a methylated-DNA enrichment technique (MIRA) in combination with whole genome tiling arrays, we have characterized by MIRA-chip the entire B cell ‘methylome’ of an individual human at 100 base pair resolution. Methylated fragments in genomic DNA extracted from B cells were enriched with the M...
ORGANISM(S): Homo sapiens 
2008-12-31 | E-GEOD-13700 | biostudies-arrayexpress
TranscriptomicsCrosstalk between gene body DNA methylation, H3K9me3 and H3K36me3 chromatin marks and transcription [HuGene-1_0-st]
This is one of expressional parts of the study. These data were correlated to epigenetic marks and CG density of genes in analyzed cells. The whole study has a following summary: To elucidate possible roles of DNA methylation and chromatin marks in transcription, we performed epigenetic profiling of...
ORGANISM(S): Homo sapiens 
2011-03-31 | E-GEOD-26019 | biostudies-arrayexpress
TranscriptomicsGamma irradiation does not induce detectable changes in DNA methylation in exposed human cells
Ionizing radiation, released during accidents at nuclear power plants or after atomic bomb explosions, is a potentially serious health threat for the exposed human population. This type of high-energy radiation causes DNA damage including single- and double-strand breaks and induces chromosomal rear...
ORGANISM(S): Homo sapiens 
2012-11-29 | E-GEOD-39038 | biostudies-arrayexpress
TranscriptomicsUVB irradiation does not directly induce detectable changes of DNA methylation in human keratinocytes
Unprotected exposure to UVB radiation from the sun and the resulting DNA damage are thought to be responsible for physiological changes in the skin and for a variety of skin cancers, including basal cell and squamous cell carcinoma and malignant melanoma. Although the mutagenic effects of UVB have b...
ORGANISM(S): Homo sapiens 
2013-01-30 | E-GEOD-42943 | biostudies-arrayexpress
TranscriptomicsThe tumor suppressor Rassf1a prevents mouse liver tumorigenesis and regulates levels of the oncogenic kinase Tbk1 and of beta tubulin gene expression in the liver
The tumor suppressor gene RASSF1A (Ras association domain family protein 1A) coding for a microtubule stabilizing protein is epigenetically silenced in most human cancers. As a binding partner of the kinases MST1 and MST2, the mammalian orthologues of the Drosophila Hippo kinase, RASSF1A is a potent...
ORGANISM(S): Mus musculus 
2016-05-31 | E-GEOD-73911 | biostudies-arrayexpress
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