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TranscriptomicsDynamic binding of RBPJ is determined by Notch signalling status
Notch signalling plays crucial roles in mediating cell fate choices in all metazoans largely by specifying the transcriptional output of one cell in response to a neighbouring cell. The DNA-binding protein RBPJ is the principle effector of this pathway in mammals and together with the transcription ...
ORGANISM(S): Mus musculus 
2013-05-13 | E-GEOD-37184 | biostudies-arrayexpress
GenomicsSequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talk
Cross-talk between DNA methylation and histone modifications drives the establishment of composite epigenetic signatures and is traditionally studied using correlative rather than direct approaches. Here we present sequential ChIP-bisulfite-sequencing (ChIP- BS-seq) as an approach to quantitatively ...
ORGANISM(S): Homo sapiens 
2012-03-27 | E-GEOD-28254 | biostudies-arrayexpress
GenomicsPML-RARa/RXR alters the epigenetic landscape in Acute Promyelocytic Leukemia
Many different molecular mechanisms have been suggested to be associated with PML-RAR dependent transformation of haematopoietic progenitors. Here, we investigated the role of PML-RAR and RXR in the organization of epigenetic structures at a genome-wide level. We identified 2722 high confidence PML-...
ORGANISM(S): Homo sapiens 
2009-12-17 | E-GEOD-18886 | biostudies-arrayexpress
GenomicsGenome wide profiling of MBD2 binding
We show that in vivo MBD2 is mainly recruited to CpG island promoters that are highly methylated. We also report that MBD2 binds to a subset of CpG island promoters that are characterized by the presence of active histone marks and RNA polymerase II (Pol2). At such sites, MBD2 binds downstream of th...
ORGANISM(S): Homo sapiens 
2014-07-03 | E-GEOD-54693 | biostudies-arrayexpress
GenomicsComparative genome-wide DNA methylation analysis of colorectal tumor and matched normal tissues
In our study we applied a genome-wide DNA methylation analysis approach, MethylCap-seq, to map the differentially methylated regions in 24 tumor and matched normal colon samples. In total, 2687 frequently hypermethylated and 468 frequently hypomethylated regions were identified, which include potent...
ORGANISM(S): Homo sapiens 
2012-10-26 | E-GEOD-39068 | biostudies-arrayexpress
GenomicsTemporal uncoupling of the DNA methylome and transcriptional repression during embryogenesis
DNA methylation is a tightly regulated epigenetic mark associated with transcriptional repression. Next-generation sequencing of purified methylated DNA obtained from early Xenopus tropicalis embryos demonstrates that this genome is heavily methylated during blastula and gastrula stages. Although DN...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2011-06-23 | E-GEOD-23913 | biostudies-arrayexpress
UnknownTranscription of the rod-shaped viruses SIRV1 and SIRV2 of the hyperthermophilic archaeon sulfolobus.
Not available
S-EPMC524901 | biostudies-literature
TranscriptomicsTranscription profiling of endotoxin-stimulated human monocytic cells in presence and absence of host defense peptide LL-37
The objective of the study was to evaluate transcriptional response of endotoxin-stimulated human monocytic cells in presence and absence of host defense peptide LL-37. A functional genomics approach was used to establish a temporal transcriptional profile and identify differentially expressed gene...
ORGANISM(S): Homo sapiens 
2006-08-01 | E-FPMI-4 | biostudies-arrayexpress
UnknownThe archaeal TFIIEalpha homologue facilitates transcription initiation by enhancing TATA-box recognition.
Not available
S-EPMC1083817 | biostudies-literature
ProteomicsSoybean leaf cytosolic proteome analysis by CFMS
Soybean leaf cytosolic proteome was fractionized by SEC and analyzed by LC-MSMS.
ORGANISM(S): Glycine max 
2021-06-17 | PXD021452 | Pride
Cytosolic proteome Soybean Leaf Cfms 
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