Similar Datasets
Project description:Effect of PTEN-NEDD8 fusion gene expression at intestine tissues
| PRJNA1480800 | ENA
Project description:We intended to elucidate the underlying mechanism of PTEN-Nedd8 in tumorigenesis. So, we firstly employed affinity purification and mass spectrometry to interrogate PTEN-Nedd8 interactome in nucleus.
2022-05-20 | PXD011395 | Pride
Project description:Transcriptome analysis of RNAs extracted from intestine tissues of wild type or Rnf111 S254D heterozygous mice
2026-04-07 | GSE293509 | GEO
Project description:Stratified epithelial differentiation involves incompletely understood transcriptional and proteomic remodeling. Multi-omic profiling implicated ubiquitin and related networks in differentiation dynamics. Systematic perturbation of ubiquitin-like machinery uncovered opposite functions of NEDD8 and SUMO2. Knockout mice established essential roles for NEDD8 in progenitor maintenance, skin regeneration, and inflammation, whereas SUMO2 was required for differentiation. Beyond ubiquitin-proteasome-concordant changes, NEDD8 directed proteomic regulation correlated with RNA abundance. Integration of IP-MS with genome-wide suppressor screening revealed context-specific NEDDylated dependencies. Among effectors, HNRNPU emerged as a post-transcriptional regulator of epithelial cell state, whose binding repertoire was modulated by NEDDylation, linking NEDD8 induced proteomic remodeling to RNA regulation. Together, these findings define opposite roles for NEDD8 and SUMO2 in orchestrating epithelial homeostasis, regeneration, and inflammation, underscoring how ubiquitin-like networks govern tissue fate.
2026-06-25 | GSE326489 | GEO
Project description:Ubiquitin and ubiquitin-like proteins (UBLs) are directed to targets by cascades of E1, E2, and E3 enzymes. The largest ubiquitin E3 subclass consists of cullin-RING ligases (CRLs), which contain one each of several cullins (CUL1, -2, -3, -4, or -5) and RING proteins (RBX1 or -2). CRLs are activated by ligation of the UBL NEDD8 to a conserved cullin lysine. How is cullin NEDD8ylation specificity established? Here we report that, like UBE2M (also known as UBC12), the previously uncharacterized E2 UBE2F is a NEDD8-conjugating enzyme in vitro and in vivo. Biochemical and structural analyses indicate how plasticity of hydrophobic E1-E2 interactions and E1 conformational flexibility allow one E1 to charge multiple E2s. The E2s have distinct functions, with UBE2M/RBX1 and UBE2F/RBX2 displaying different target cullin specificities. Together, these studies reveal the molecular basis for and functional importance of hierarchical expansion of the NEDD8 conjugation system in establishing selective CRL activation. Mol Cell 33:483-495, 2009. Keywords: Comparison of gene expression profiles Ube2m and Ube2f are E2 enzymes that direct protein modification by NEDD8. Here we explore the specific functions of Ube2f and Ube2m by comparing gene expression profiles following knockdown of their function in NIH 3T3 cells. We used microarrays to detail the global programme of gene expression changes following knockdown of Ube2m and Ube2f in NIH 3T3 cells. NIH 3T3 cells were transduced with retroviral constructs containing shRNA directed against Ube2m or Ube2f. Three replicates of each condition were analyzed.
2009-03-23 | E-GEOD-14088 | biostudies-arrayexpress
Project description:Intestinal polyposis, a precancerous neoplasia, results primarily from an abnormal increase in the number of crypts. Crypts contain intestinal stem cells (ISCs). Thus intestinal polyposis provides an ideal condition for studying stem cell involvement in polyp/tumor formation. Using a conditional knock-out mouse model, we found that the tumor suppressor Phosphatase of Tension homolog (PTEN) governs the proliferation rate and number of ISCs and loss of PTEN results in an excess of ISCs. In PTEN mutants, excess ISCs initiate de-novo crypt formation and crypt fission, recapitulating crypt production in fetal/neonatal intestine. Microarray studies were used to profile the changes in gene expression that occurred when PTEN was knocked out in the intestine. Keywords: Disease state analysis, genetic modification, Intestinal polyposis, PTEN mutant, Cowden disease mouse model
2006-11-18 | GSE6078 | GEO
Project description:Stratified epithelial differentiation involves incompletely understood transcriptional and proteomic remodeling. Multi-omic profiling implicated ubiquitin and related networks in differentiation dynamics. Systematic perturbation of ubiquitin-like machinery uncovered opposite functions of NEDD8 and SUMO2. Knockout mice established essential roles for NEDD8 in progenitor maintenance, skin regeneration, and inflammation, whereas SUMO2 was required for differentiation. Beyond ubiquitin-proteasome-concordant changes, NEDD8 directed proteomic regulation correlated with RNA abundance. Integration of IP-MS with genome-wide suppressor screening revealed context-specific NEDDylated dependencies. Among effectors, HNRNPU emerged as a post-transcriptional regulator of epithelial cell state, whose binding repertoire was modulated by NEDDylation, linking NEDD8 induced proteomic remodeling to RNA regulation. Together, these findings define opposite roles for NEDD8 and SUMO2 in orchestrating epithelial homeostasis, regeneration, and inflammation, underscoring how ubiquitin-like networks govern tissue fate.
2026-06-25 | GSE326487 | GEO
Project description:Stratified epithelial differentiation involves incompletely understood transcriptional and proteomic remodeling. Multi-omic profiling implicated ubiquitin and related networks in differentiation dynamics. Systematic perturbation of ubiquitin-like machinery uncovered opposite functions of NEDD8 and SUMO2. Knockout mice established essential roles for NEDD8 in progenitor maintenance, skin regeneration, and inflammation, whereas SUMO2 was required for differentiation. Beyond ubiquitin-proteasome-concordant changes, NEDD8 directed proteomic regulation correlated with RNA abundance. Integration of IP-MS with genome-wide suppressor screening revealed context-specific NEDDylated dependencies. Among effectors, HNRNPU emerged as a post-transcriptional regulator of epithelial cell state, whose binding repertoire was modulated by NEDDylation, linking NEDD8 induced proteomic remodeling to RNA regulation. Together, these findings define opposite roles for NEDD8 and SUMO2 in orchestrating epithelial homeostasis, regeneration, and inflammation, underscoring how ubiquitin-like networks govern tissue fate.
2026-06-25 | GSE326641 | GEO
Project description:Bone marrow-derived macrophages (BMMs) from Nedd8(flox/flox) mice or Nedd8(flox/flox; lyz2-cre) mice were stimulated with or without 100ng/ml LPS for 4 hours. The total RNA was prepared and subjected to microarray.
2020-05-26 | GSE99386 | GEO
Project description:Stratified epithelial differentiation involves incompletely understood transcriptional and proteomic remodeling. Multi-omic profiling implicated ubiquitin and related networks in differentiation dynamics. Systematic perturbation of ubiquitin-like machinery uncovered opposite functions of NEDD8 and SUMO2. Knockout mice established essential roles for NEDD8 in progenitor maintenance, skin regeneration, and inflammation, whereas SUMO2 was required for differentiation. Beyond ubiquitin-proteasome-concordant changes, NEDD8 directed proteomic regulation correlated with RNA abundance. Integration of IP-MS with genome-wide suppressor screening revealed context-specific NEDDylated dependencies. Among effectors, HNRNPU emerged as a post-transcriptional regulator of epithelial cell state, whose binding repertoire was modulated by NEDDylation, linking NEDD8 induced proteomic remodeling to RNA regulation. Together, these findings define opposite roles for NEDD8 and SUMO2 in orchestrating epithelial homeostasis, regeneration, and inflammation, underscoring how ubiquitin-like networks govern tissue fate.
2026-06-25 | GSE328185 | GEO