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GenomicsDNA accessibility profile of three C. elegans tissues during development
We show there is minimal genome-wide chromatin rearrangements (as measured by DNA accessibility) during tissue differentiation in C. elegans transgenic expression of E. coli DAM (DNA Adenine Methyltransferase) from tissue-specific promoters followed by mapping of methylated sites using a procedure t...
ORGANISM(S): Caenorhabditis elegans 
2011-04-16 | E-GEOD-23042 | biostudies-arrayexpress
GenomicsPartitioning the C. elegans genome by nucleosome modification, occupancy, and positioning
We have characterized two post-translational histone modifications in C. elegans on a genomic scale. Micrococcal nuclease digestion and immunoprecipitation were used to obtain distinct populations of single nucleosome cores, which were analyzed using massively parallel DNA sequencing to obtain pos...
ORGANISM(S): Caenorhabditis elegans 
2009-08-31 | E-GEOD-17284 | biostudies-arrayexpress
TranscriptomicsC. elegans piRNAs are processed from capped-small RNAs transcribed at promoters throughout the genome
Piwi-interacting (pi) RNAs are a class of germline-expressed small RNAs that have been linked to epigenetic programming in metazoa. C. elegans piRNAs known as 21U-RNAs are defined by more than 15,000 genome-encoded species. To explore the origin of 21U-RNAs we employed methods to enrich the 5' ends ...
ORGANISM(S): Mus musculus 
2012-12-22 | E-GEOD-40053 | biostudies-arrayexpress
TranscriptomicsTranscriptome analysis reveals global regulation in response to CO2 supplementation in oleaginous microalga Coccomyxa subellipsoidea C-169
The microalga Coccomyxa subellipsoidea C-169 possesses some features that may be valuable for lipid production, and, as demonstrated in this study, can be greatly induced to produce a high amount of fatty acid by CO2 supplementation. Here we have compared the transcriptome of air group (AG, cells cu...
ORGANISM(S): Coccomyxa subellipsoidea C-169 
2016-05-17 | E-GEOD-76638 | biostudies-arrayexpress
TranscriptomicspiRNAs initiate an epigenetic memory of non-self RNA in the C. elegans germline.
Organisms exhibit a fascinating array of gene-silencing pathways, which have evolved in part, to confront invasive nucleic acids such as transposons and viruses. A key question raised by the existence of these pathways is how do they distinguish M-bM-^@M-^\selfM-bM-^@M-^] from M-bM-^@M-^\non-selfM-b...
ORGANISM(S): Caenorhabditis elegans 
2012-07-17 | E-GEOD-38724 | biostudies-arrayexpress
TranscriptomicsIdentification of C/EBPβ Target Genes in ALK+ Anaplastic Large Cell Lymphoma (ALCL) by Gene Expression Profiling and Chromatin Immunoprecipitation
C/EBPβ (CCAAT enhancer binding protein) is a transcription factor that plays a crucial role in survival and transformation of ALK+ anaplastic large cell lymphoma (ALCL). The aim of this study was to identify the downstream targets of C/EBPβ responsible for ALK-mediated oncogenesis. C/EBPβ was knocke...
ORGANISM(S): Homo sapiens 
2013-07-10 | E-GEOD-23368 | biostudies-arrayexpress
GenomicsAmplification of siRNA in Caenorhabditis elegans generates a transgenerational sequence-targeted histone H3 lysine 9 methylation footprint
Exogenous double-stranded RNA (dsRNA) has been shown to exert homology-dependent effects at the level of both target mRNA stability and chromatin structure. Using C. elegans undergoing RNAi as an animal model, we have investigated the generality, scope, and longevity of chromatin-targeted dsRNA effe...
ORGANISM(S): Caenorhabditis elegans 
2012-01-06 | E-GEOD-32631 | biostudies-arrayexpress
TranscriptomicsEndo-siRNAs in C. elegans spermatogenesis and their requirement for the RdRP RRF-3
Short interfering RNAs (siRNAs) are a class of regulatory effectors that enforce gene silencing though formation of RNA duplexes. While progress has been made in identifying the capabilities of siRNAs in silencing of foreign RNA and transposable elements, siRNA functions in endogenous gene regulatio...
ORGANISM(S): Caenorhabditis elegans 
2010-01-13 | E-GEOD-18429 | biostudies-arrayexpress
UnknownAPOE Polymorphism Is Associated with C-reactive Protein Levels but Not with White Blood Cell Count: Dong-gu Study and Namwon Study.
Not available
S-EPMC4479937 | biostudies-literature
GenomicsIdentification of N6-adenine methylation in C. elegans DNA
In mammalian cells, DNA methylation on the 5th position of cytosine (5mC) plays an important role as an epigenetic mark. However, DNA methylation was considered to be absent in C. elegans because of the lack of detectable 5mC as well as homologs of the cytosine DNA methyltransferases. Here, using mu...
ORGANISM(S): Caenorhabditis elegans 
2015-05-05 | E-GEOD-66504 | biostudies-arrayexpress
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