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MetabolomicsDiversity in DNA: Identification of methylated deoxyadenosines in higher eukaryotes
Since the discovery that cytosine deoxynucleotides could be methylated (dC5m), not much is known in higher eukaryotes about modifications affecting other deoxynucleotides. Here, we now report that we detected N-6-methyl-deoxyadenosine (dA6m) not only in frog DNA, but also in other species including ...
2015-11-16 | MTBLS276 | MetaboLights
TranscriptomicsHistone H3 Lysine 4 mono-, di- and trimethyl and CTCF in CD4+CD25+CD45RA+ regulatory and conventional CD4+CD25- T-cells
Analysis of Histone H3 Lysine 4 mono-, di- and trimethyl and the boundary protein CTCF in CD4+CD25+CD45RA+ regulatory T-cells and conventional CD4+CD25- T-cells. To investigate regulatory functions or potential new transcription start sites in Treg and Tconv cells, we investigated the associated hi...
ORGANISM(S): Homo sapiens 
2010-05-19 | E-GEOD-14234 | biostudies-arrayexpress
GenomicsStress-induced signaling to the nucleosome in serum deprived mouse fibroblasts.
We have employed chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) to analyze changes in chromatin architecture as well as the occupancy of two RNA Polymerase II (RNAPII) isoforms, initiation-competent (RNAPIIS5ph) as well as elongation-competent (RNAPIIS2ph) upon stres...
ORGANISM(S): Mus musculus 
2014-08-12 | E-GEOD-55774 | biostudies-arrayexpress
GenomicsA comparative epigenomics approach reveals REST as a mediator of Polycomb reprogramming during neuronal differentiation
Transcription factors (TFs) in concert with chromatin pathways stably reset transcriptional programs during differentiation. Yet we know little how local sites of chromatin reprogramming are specified and how the estimated 3000 TF encoded in mammalian genomes contribute to chromatin dynamics. To ide...
ORGANISM(S): Mus musculus 
2012-09-04 | E-GEOD-27148 | biostudies-arrayexpress
TranscriptomicsPromoter proximal pausing in response to stress in serum deprived mouse fibroblasts.
We have employed short-capped RNA sequencing (sc-RNA-seq) in order to identify genes whose expression is regulated by promoter proximal pausing of RNA Polymerase II (RNAPI) in response to stress stimulation. We used serum-deprived mouse Swiss 3T3 fibroblasts, either untreated (control) or treated wi...
ORGANISM(S): Mus musculus 
2014-08-12 | E-GEOD-55775 | biostudies-arrayexpress
UnknownEpigenetic modifications affect the rate of spontaneous mutations in a pathogenic fungus.
Not available
S-EPMC8497519 | biostudies-literature
TranscriptomicsTranscriptional response to stress in serum deprived mouse fibroblasts in the presence of MSK1/2 inhibitor.
We have employed gene expression profiling in order to identify targets of transcriptional response to stress in resting mouse Swiss 3T3 fibroblasts, either untreated (control) or treated with anisomycin for 3 or 6 hours to induce the p38/MAP kinase pathway. In order determine transcriptional effec...
ORGANISM(S): Mus musculus 
2014-08-12 | E-GEOD-58746 | biostudies-arrayexpress
TranscriptomicsHigh-Resolution Profiling of Drosophila Replication Start Sites Reveals a DNA Shape and Chromatin Signature of Metazoan Origins
At every cell cycle, faithful inheritance of metazoan genomes requires the concerted activation of thousands of DNA replication origins. However, which genetic and chromatin features define metazoan replication start sites remains largely unknown. Here, we delineate the origin repertoire of the Dros...
ORGANISM(S): Drosophila melanogaster 
2015-04-23 | E-GEOD-65692 | biostudies-arrayexpress
TranscriptomicsTranscriptional response to stress in serum deprived mouse fibroblasts [RNA-Seq]
We have employed gene expression profiling in order to identify targets of transcriptional response to stress in resting mouse Swiss 3T3 fibroblasts, either untreated (control) or treated with anisomycin to induce the p38/MAP kinase pathway. Serum starved (72 h 0.2% FCS) mouse 3T3 cells were treated...
ORGANISM(S): Mus musculus 
2014-08-12 | E-GEOD-55776 | biostudies-arrayexpress
UnknownOn the Validation of Protein Force Fields Based on Structural Criteria.
Not available
S-EPMC11103706 | biostudies-literature
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