Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

UBR4 KO analysis with TMT labeling

ABSTRACT: The impact of NatC and UBR4 on the human proteome (protein abundance). Analysis of HAP1 WT siCtr, HAP1 WT siUBR4, HAP1 NAA30 KO siCtr, and HAP1 NAA30 KO siUBR4 cells.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Cell Culture

SUBMITTER: Annelies Bogaert

LAB HEAD: Kris Gevaert

PROVIDER: PXD034410 | Pride | 2023-09-20

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	F003827_1p_uPAC13_trap2_CMB-768_AB_TMT_fr1.raw	Raw
	F003829_1p_uPAC13_trap2_CMB-768_AB_TMT_fr2.raw	Raw
	F003831_1p_uPAC13_trap2_CMB-768_AB_TMT_fr3.raw	Raw
	F003833_1p_uPAC13_trap2_CMB-768_AB_TMT_fr4.raw	Raw
	F003835_1p_uPAC13_trap2_CMB-768_AB_TMT_fr5.raw	Raw

Items per page:

1 - 5 of 14

Similar Datasets

Impact of NatC on N-terminal acetylome

Project description:The impact of NatC subunits NAA30, NAA35 and NAA38 on the human N-terminal acetylome. Analysis of HAP1 WT, NAA30 KO, NAA35 KO and NAA38 KO cells

2023-09-13 | PXD034992 | Pride

LFQ shotgun proteomic analysis of HAP1 NatC KO cells

Project description:The impact of NatC subunits NAA30, NAA35 and NAA38 on the human proteome (protein abundance). Analysis of HAP1 WT, NAA30 KO, NAA35 KO and NAA38 KO cells

2023-09-20 | PXD034104 | Pride

Delayed induction of type I and III interferons enhances nasal epithelial permissiveness to SARS-CoV-2

Project description:We provide the first comprehensive analysis of nasal cell responses to SARS-COV-2 using single cell transcriptomics and proteomics. The immune response to SARS-CoV-2 is dominated by a delayed type I and III IFN response, which is too slow to contain viral replication. Cells transitioning from secretory to ciliated states are highly permissive to SARS-CoV-2, whereas goblet cells are relatively resistant. Cell-type differences in the production and response to IFN-I/III correlate with permissiveness. Pre-treatment with recombinant IFNs potently restricts SARS-CoV-2. Nasal delivery of recombinant IFNs is a promising prophylactic strategy for SARS-CoV-2

2021-05-25 | PXD022523 | Pride

Ubiquitin C-terminal Extension (CxUB) DUB cleavage assay

Project description:Ubiquitin is a conserved modifier regulating the stability and function of numerous target proteins. In all eukaryotes, polyubiquitin precursors are generated and processed into ubiquitin monomers. The final ubiquitin unit always contains a C-terminal extension, but its physiological significance is unknown. Here we show that C-terminally extended ubiquitin, termed CxUb, is essential for stress resistance, mitophagy and longevity in yeast and worms. CxUb forms ubiquitin chains and binds to a novel region within the ubiquitin chain-elongating E4 enzyme Ufd2, which also functions during stress and aging. Ufd2 recognizes CxUb and conjugates it to substrate proteins, triggering their degradation. In contrast, CxUb is not required for basal housekeeping functions of the ubiquitin-proteasome system. These data suggest that the C-terminally extended ubiquitin encodes a functionally unique ubiquitin form, specialized for proteostasis defects, expanding the code of post-translational modification processes.For the intact protein detection, please find the corresponding target proteins:1 NoDUb-T0 2 NoDUB-T103 NoDUB-T1204 UBP3ia-T105 UBP3ia-T1206 UBP3wt-T107 UBP3wt-T1208 UBP14-T109 UBP14-T12010 UBP15-T1011 Ubp15-T120

2025-09-24 | PXD065783 | Pride

Knockdown of NAT12/NAA30 decreases glioblastoma stem cell growth and tumorigenicity by regulating hypoxia response, p-MTOR (Ser2448) and p53 pathway

2015-11-23 | GSE60706 | GEO

Label-free analysis of HCV-associated hepatic fibrosis

Project description:A differential label-fee proteomics approach was performed using 27 biopsies from patients with HCV-associated hepatic fibrosis. For statistical analysis the patients were grouped into a low and a high fibrosis group. The low fibrosis group contained 13 patients of fibrosis stages 0, 1 and 2, whereas the high fibrosis group contained 14 patients of fibrosis stages 3 and 4 (fibrosis stages according to Batts-Ludwig classification).

2015-03-30 | PXD001474 | Pride

Blue-enriched LED light modulates biochemical and proteomic traits without affecting yield in indoor-grown cress microgreens

Project description:Light spectral composition is a key driver of plant growth and quality in controlled-environment agriculture. This study evaluated the effects of two LED light spectra differing in blue, green, red, and far-red proportions on growth, nutritional traits, and proteomic profiles of indoor-grown cress (Lepidium sativum L.) microgreens. Plants were cultivated under two B:G:R:FR ratios (13:15:61:11 and 24:12:56:8) at identical photosynthetic photon flux density (255 μmol m⁻² s⁻¹). Growth parameters, including plantlet height, fresh and dry weight, dry matter percentage, and yield, did not differ significantly between treatments. Similarly, nitrate content, total chlorophylls, total carbon, total nitrogen, and the C/N ratio remained unchanged. In contrast, the blue-enriched and far-red-reduced spectrum significantly enhanced secondary metabolite accumulation, increasing anthocyanin concentration and phenolic index rising by 77% and 52%, respectively. Microgreen proteomics revealed a general plant reprogramming depending on LED light irradiation, mostly involving components associated with photosynthesis, protein physical control/biosynthesis/homeostasis/modification, multi-process regulation, RNA biosynthesis, vesicle trafficking, redox homeostasis or with unknown function, which showed over-or down-represented trends according to their nature. Notably, these molecular adjustments occurred without compromising growth or productivity. Overall, these results demonstrate that targeted manipulation of LED light quality can enhance the functional and nutritional quality of microgreens through proteomic reprogramming while maintaining yield, highlighting light spectrum modulation as a promising strategy for sustainable indoor and vertical farming systems.

2026-05-18 | PXD077094 | Pride

Knockdown of NAT12/NAA30 decreases glioblastoma stem cell growth and tumorigenicity by regulating hypoxia response, p-MTOR (Ser2448) and p53 pathway

Project description:Gene knockdown of NAT12/NAA30 led to decreased proliferation, sphere forming ability and mitochondrial hypoxia tolerance in the GSC T65 culture. Intracranial transplantation of these cells into SCID mice showed that the decreased NAT12/NAA30 expression correlated with the prolonged animal survival and reduced tumor size Total RNA isolated from GSC cultures featuring NAT12/NAA30 gene knock-down (shRNA) was compared to total RNA from non-silencing control GSC cultures (NS-shRNA).

2015-11-23 | E-GEOD-60706 | biostudies-arrayexpress

Integrated phosphoproteome, ubiquitinome, and acetylome analyses uncovering the post-translational modifications crosstalk during MSP1-induced signaling in rice

Project description:Magnaporthe oryzae snodprot1 homologous protein (MSP1) has been shown to act as a pathogen-associated molecular pattern (PAMPs) and trigger PAMP-triggered immunity (PTI) response involving programmed cell death and expression of various defense-related genes in rice. The involvement of several post-translational modifications (PTMs) in the regulation of plant immune response, especially PTI, during pathogen infection is well established, however, the information on the regulatory roles of these PTMs in response to MSP1-induced signaling in rice is currently elusive. Here, we report the phosphoproteome, ubiquitinome, and acetylproteome to investigate the MSP1-induced PTMs alterations in MSP1 overexpressed rice. Our analysis identified a total of 4,666 PTM modified sites in rice leaves including 4,292 phosphosites, 189 ubiquitin sites, and 185 acetylation sites. Among these, PTM status of 437 phosphorylated, 53 ubiquitinated, and 68 acetylated peptides were significantly changed by MSP1. Functional annotation of MSP1 modulated peptides by MapMan analysis revealed that these were majorly associated with cellular immune responses such as signaling, transcription factors, DNA and RNA regulation, and protein metabolism, among others. Taken together, this study uncovers the MSP1-induced PTMs changes in rice proteins and identified several novel components of rice-MSP1 interaction.

2023-07-21 | PXD039997 | Pride

Proteomics analysis on SETD2 loss induced ccRCC formation

Project description:Patients with polycystic kidney disease (PKD) encounter a high risk of clear cell renal cell carcinoma (ccRCC), a malignant tumor with dysregulated lipid metabolism. SET domain–containing 2 (SETD2) has been identified as an important tumor suppressor gene in ccRCC. However, the role of SETD2 in tumorigenesis during the transition from PKD to ccRCC remains largely unexplored. Herein, we performed metabolomics, lipidomics, transcriptomics and proteomics with SETD2 loss induced PKD-ccRCC transition mouse model. To characterize biological responses triggered by SETD2 deletion during PKD-ccRCC transition at the protein level, we conducted global proteomics studies.

2023-10-31 | PXD038966 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data