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TranscriptomicsRole of Histone Ubiquitylation and Deubiquitylation as Determined by the Analysis of an HTB1_K123R S. cerevisiae Strain
In Saccharomyces cerevisiae histone H2B is ubiquitylated at lysine 123. The SAGA complex component, Ubp8, is one of two proteases that remove this ubiquitin moiety. We analyzed gene expression in a strain containing a variant of histone H2B with lysine 123 converted to arginine to address the mechan...
ORGANISM(S): Saccharomyces cerevisiae 
2010-09-15 | E-GEOD-6316 | biostudies-arrayexpress
TranscriptomicsThe role of PCNA ubiquitylation during unperturbed genome replication in S.pombe
To establish if PCNA ubiquitylation affects the DNA replication kinetics of specific loci, we compared rates of DNA replication across the genome between rad18+ and rad18-delta cells using the BrdU-IP sequencing method. We mapped BrdU-incorporation at 300-bp resolution and subsequent informatics an...
ORGANISM(S): Schizosaccharomyces pombe 
2017-05-12 | E-GEOD-70033 | biostudies-arrayexpress
ProteomicsHuwe1-mediated ubiquitylation of Dvl defines a novel negative feedback loop in the Wnt signaling pathway
Wnt signaling plays a central role in development, adult tissue homeostasis and cancer. Several steps in the canonical Wnt/b-catenin signaling cascade are regulated by ubiquitylation, a protein modification that influences the stability, subcellular localization or protein-protein interactions of ta...
ORGANISM(S): Mus musculus (Mouse) 
2014-05-28 | PXD000781 | Pride
Dvl Wnt signaling Ubiquitylation 
TranscriptomicsdKDM2 couples histone H2A ubiquitylation to histone H3 demethylation during Polycomb group silencing.
Transcription regulation involves enzyme-mediated changes in chromatin structure. Here, we describe a novel mode of histone crosstalk during gene silencing, in which histone H2A monoubiquitylation is coupled to the removal of histone H3 Lys 36 dimethylation (H3K36me2). This pathway was uncovered thr...
ORGANISM(S): Drosophila melanogaster 
2011-12-13 | E-GEOD-34390 | biostudies-arrayexpress
TranscriptomicsGenome-Wide Microarray Analysis of Histone H2B Ubiquitylation mutant strains of Tetrahymena thermophila
Microarray analyses were performed to compare the gene expression profiles of wild-type and several mutant strains of the ciliated protozoan Tetrahymena thermophila. Elimination of H3K4 methylation (hht2-K4Q) and knockout of either of the ubiquitylation enzymes (delta-UBC2 and delta-BRE1) affects a ...
ORGANISM(S): Tetrahymena thermophila 
2010-06-20 | E-GEOD-18743 | biostudies-arrayexpress
ProteomicsVariation in auxin sensing guides AUX/IAA repressor ubiquitylation and destruction
Auxin is a drug-like small molecule and morphogen that triggers the formation of SCFTIR1/AFB-AUX/IAA co-receptor complexes leading to ubiquitylation and proteasome-dependent degradation of AUX/IAA transcriptional repressors in plants. Here, we systematically dissect auxin sensing by SCFTIR1-IAA6 and...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2017-06-14 | PXD004027 | Pride
Phytohormone Ubiquitylation Auxin Scf-type e3 ligase Ubiquitination Tir1/afbs Proteolysis Aux/iaa 
TranscriptomicsHistone H2B ubiquitylation and H3 lysine 4 methylation prevent ectopic silencing of euchromatic loci important for the cellular response to heat
In Saccharomyces cerevisiae, ubiquitylation of histone H2B signals methylation of histone H3 at lysine residues 4 (K4) and 79. These modifications occur at active genes but are believed to stabilize silent chromatin by limiting movement of silencing proteins away from heterochromatin domains. In the...
ORGANISM(S): Saccharomyces cerevisiae 
2011-12-02 | E-GEOD-27934 | biostudies-arrayexpress
ProteomicsGlobal ubiquitylation analysis of mitochondria in primary neurons following PINK1-dependent activation of Parkin
Dataset analyzed in "Global ubiquitylation analysis of mitochondria in primary neurons following PINK1-dependent activation of Parkin" paper. Experiment TMT-labeled neurons untreated vs 5h AO treatment: 1) Membrane Proteome: .raw files AO2445-AO2456 2) Ubiquitylome: .raw files AO2433-AO2438 Experi...
ORGANISM(S): Mus Musculus (ncbitaxon:10090) 
2021-06-16 | MSV000087639 | MassIVE
ModelsAmara2013 - PCNA ubiquitylation in the activation of PRR pathway
Mechanistic model of the Post-Replication Repair (PRR), the pathway involved in the bypass of DNA lesions induced by sunlight exposure and UV radiation. PRR acts through two different mechanisms, activated by mono- and poly-ubiquitylation of the DNA sliding clamp, called Proliferating Ce...
2024-09-02 | BIOMD0000000475 | BioModels
ProteomicsGlobal profiling of lysine ubiquitylation in human hypothalamus
In this study, we employed LC‒MS/MS to generate a comprehensive profile of ubiquitylation in the human hypothalamus under normal physiological conditions. Our findings will contribute to further exploration of the role of ubiquitylation in various physiological and pathological processes, particular...
ORGANISM(S): Homo Sapiens 
2024-02-24 | PXD050124 |
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