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ProteomicsTriazolinedione protein modification: from an overlooked off-target effect to a tryptophan-based bioconjugation strategy
Labelling of tyrosine residues in peptides and proteins has been reported to selectively occur via a 'tyrosine-click' reaction with triazolinedione reagents (TAD). However, we here demonstrate that TAD reagents are actually not selective for tyrosine and that tryptophan residues are in fact also lab...
ORGANISM(S): Homo sapiens (Human) 
2022-06-09 | PXD031607 | Pride
Site-selective protein modification Tad Tryptophan Protein modification 
ProteomicsM1BP cooperates with CP190 to activate transcription at TAD borders and promote chromatin insulator activity
Genome organization is driven by forces affecting transcriptional state, but the relationship between transcription and genome architecture remains unclear. Here, we identified the Drosophila transcription factor Motif 1 Binding Protein (M1BP) in physical association with the gypsy chromatin insulat...
ORGANISM(S): Drosophila melanogaster (Fruit fly) 
2021-06-07 | PXD026497 | Pride
Embryo Mass spectrometry Drosophila Nuclear extract Su(hw) 
GenomicsPervasive RNA Binding Protein Enrichment on TAD Boundaries Regulates TAD Organization [RNA-seq]
Pervasive RNA Binding Protein Enrichment on TAD Boundaries Regulates TAD Organization [RNA-seq]
PRJNA1161385 | ENA
GenomicsActive enhancers strengthen TAD insulation by bRNA mediated CTCF enrichment at the TAD boundaries
Active enhancers strengthen TAD insulation by bRNA mediated CTCF enrichment at the TAD boundaries
PRJNA749037 | ENA
TranscriptomicsFunctional genome analysis of Bifidobacterium breve UCC2003 reveals a major conserved host-colonization factor
Development of the human gut microbiota commences at birth with bifidobacteria being among the first colonizers of the sterile newborn gastrointestinal tract. To date the genetic basis of bifidobacterial colonization and persistence remains poorly understood. Transcriptomic analysis of the 2,422,684...
ORGANISM(S): Bifidobacterium breve UCC2003 
2011-07-01 | E-GEOD-27491 | biostudies-arrayexpress
GenomicsTAD Evolutionary and functional characterization reveals diversity in mammalian TAD boundary properties and function
TAD Evolutionary and functional characterization reveals diversity in mammalian TAD boundary properties and function
PRJNA812880 | ENA
TranscriptomicsInvariant TAD boundaries constrain cell type-specific looping interactions between promoters and distal elements around the CFTR locus.
Three-dimensional genome structure plays an important role in gene regulation. Globally chromosomes are organized into active and inactive compartments, while at the gene level looping interactions connect promoters to regulatory elements. Topologically Associating Domains (TADs), typically severa...
ORGANISM(S): Homo sapiens 
2016-01-07 | E-GEOD-75634 | biostudies-arrayexpress
TranscriptomicsCause and consequence of tethering a sub-TAD to different nuclear compartments
Detailed genomic contact maps have revealed that chromosomes are composed of developmentally stable topologically associated domains (TADs) and more flexible sub-TADs. These domains reside in active and inactive nuclear compartments, but cause and consequence of compartmentalization are largely u...
ORGANISM(S): Mus musculus 
2015-12-19 | E-GEOD-76174 | biostudies-arrayexpress
UnknownTAD-dependent sub-TAD is required for enhancer-promoter interaction enabling the β-globin transcription.
Not available
S-EPMC11698014 | biostudies-literature
GenomicsDifferential contribution of cis-regulatory elements to higher order chromatin structure and expression of the CFTR locus
Higher order chromatin structure establishes domains that organize the genome and coordinate gene expression. However, the molecular mechanisms controlling transcription of individual loci within a topological domain (TAD) are not fully understood. The cystic fibrosis transmembrane conductance reg...
ORGANISM(S): Homo sapiens 
2016-01-07 | E-GEOD-74709 | biostudies-arrayexpress
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