Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cinchona proteomics P3930 June 2025

ABSTRACT: Activity-based fractionation of Cinchona proteins extracted from leaves, roots and apoplastic wash fluid

INSTRUMENT(S):

ORGANISM(S): Cinchona Pubescens

TISSUE(S): Root, Leaf

SUBMITTER: Frank Stein

LAB HEAD: Lorenzo Caputi

PROVIDER: PXD068683 | Pride | 2026-01-23

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	Zelda_250611_P3930_JS_LC_CpLeafApo30K_1of40_R1.raw	Raw
	Zelda_250611_P3930_JS_LC_CpLeafSubFC4D5_1of40_R1.raw	Raw
	Zelda_250611_P3930_JS_LC_CpRootSubFC4D7_1of40_R1.raw	Raw
	cipu_v1.working_models.cds-Protein.fasta	Fasta
	txt.zip	Other

Items per page:

1 - 5 of 5

Similar Datasets

Cell type specific secretome in HFpEF

Project description:Hepatocyte specific secretome using TURBO-ID in a mouse model of HFpEF

2025-10-23 | PXD062211 | Pride

The cardiac phospho-proteome during pressure overload in mice

Project description:Trans-aortic constriction (TAC) is a widely used murine model to study pressure overload-induced cardiac hypertrophy and heart failure. Despite its high prevalence during aortic stenosis or chronic arterial hypertension, the global alterations in cardiac proteome and phospho-proteome dynamics following TAC remain incompletely characterised. Here, we present a comprehensive database of detailing the phospho-proteomic signature of the mouse heart one day and seven days after TAC. Utilising proteomic and phosphor-proteomic analyses, we identified and quantified thousands of proteins and phosphorylation sites, revealing hundreds of differential phosphorylation events that are significantly altered in the cardiac response to pressure overload. Our analysis highlights significant changes in pathways related to hypertrophic signalling, metabolic remodelling, contractile function, and the stress response. We also present proteomic data from the main cardiac cell types (endothelial cells, fibroblasts and cardiomyocytes) after TAC to reveal the cellular localization of the detected phosphoproteins. The dataset offers insights into temporal and site-specific phosphorylation events, facilitating the potential discovery of novel therapeutic targets and biomarkers. By making this resource publicly available, we aim to enable further exploration of the molecular basis of cardiac remodelling and advance translational research in heart failure.

2025-05-26 | PXD061784 | Pride

Cilia-iAPEX proximity labeling proteomics

Project description:iAPEX-based proximity labeling for proteomic profiling of primary cilia of different cell types

2025-09-19 | PXD060138 | Pride

Co-immunoprecipitation of GFP-Snx33

Project description:In this project we aimed at identifying proteins interacting with Snx33. For this purpose, we have generated a Snx33 knockout cell lines with GFP-tagged full length Snx33 and GFP-tagged truncation of Snx33: dPXBAR (1-214aa) and PXBAR (159-574aa).

2023-06-19 | PXD033666 | Pride

Arabidopsis Apoplastic Fluid Contains sRNA- and Circular RNA-Protein Complexes that Are Located Outside Extracellular Vesicles

Project description:The extracellular space within plant leaves is called the apoplast, and functions as a key battlefield between plants and pathogens. Previously, we have shown that apoplastic wash fluid purified from Arabidopsis leaves contains small RNAs (sRNAs). To investigate whether these RNAs are encapsulated inside extracellular vesicles (EVs), we treated EVs isolated from Arabidopsis leaves with the protease trypsin and RNase A, which should degrade RNAs located outside of EVs, but not those located inside. These analyses revealed that apoplastic RNAs are mostly located outside of EVs and are associated with proteins. Additional analyses of these extracellular RNAs (exRNAs) revealed that they are made up both sRNAs and long non-coding RNAs (lncRNAs), including circular RNAs (circRNAs). We also found that exRNAs are highly enriched in the post-transcriptional modification N6-methyladenine (m6A). Consistent with this, we identified a putative m6A-binding protein in apoplastic wash fluids, GLYCINE-RICH RNA BINDING PROTEIN 7 (GRP7), as wells as the small RNA-binding protein ARGONAUTE2 (AGO2). These two proteins co-immunoprecipitated with each other, and with lncRNAs, including circRNAs. Mutation of GRP7 or AGO2 caused changes in both the sRNA and lncRNA content of apoplastic wash fluid, suggesting that these proteins contribute to the secretion and/or stabilization of exRNAs.

2022-04-18 | GSE185133 | GEO

Arabidopsis Apoplastic Fluids Contain sRNA- and Circular RNA-Protein Complexes That Are Located Outside of Extracellular Vesicles

2022-04-18 | GSE183867 | GEO

Cotton fiber apoplast and vesicles

Project description:The identification of proteins in the apoplast and associated with apoplastic vesicles in developing cotton fiber (9DPA)

2025-02-05 | PXD051721 | Pride

Proteomic Analysis of Skin Punch Biopsies from a Parkinson's Disease Patient Cohort: A PPMI Pilot Study

Project description:A human skin proteome MS spectral library, generated from tissue punch biopsies of the C8 paravertebral region in Parkinson's disease patients. This data and associated protocol (https://www.protocols.io/view/proteomics-sample-preparation-of-human-skin-punch-14egn9e46l5d/v1) were generated as part of a pilot study in collaboration with the Michael J. Fox Foundation. The biospecimens were obtained from the Parkinson’s Progression Marker Initiative (PPMI) (RRID:SCR_006431). For up-to-date information on the study, visit www.ppmi-info.org.

2025-01-23 | PXD060089 | Pride

Proteomic analysis of the apoplast reveals a differential cold acclimation response among winter wheat crown tissues

Project description:The crown is the critical region for survival of winter wheat exposed to low temperature stresses. When wheat is exposed to non-freezing low temperatures, they can increase their freezing tolerance (cold acclimation, ACC). Changes within the apoplast are thought to be crucial for acquisition of freezing tolerance. However, how individual tissues within the ccrown, namely the shoot apical meristem (SAM, responsible for new shoot growth) and vascular transition zone (VTZ, located at the base of the crown)enhance tolerance to freezing has not yet been characterized. In the present study, we conducted shotgun proteomic analysis of the apoplast fluid to investigate ACC-induced proteins in the SAM and VTZ.

2018-10-23 | PXD007796 | Pride

Direct ionic stress sensing and mitigation by the transcription factor NFAT5

Project description:Homeostatic control of intracellular ionic strength is essential for protein, organelle and genome function, yet mechanisms that sense and enable adaptation to ionic stress remain poorly understood in animals. We find that the transcription factor NFAT5 directly senses solution ionic strength using a C-terminal intrinsically disordered region. Both in intact cells and in a purified system, NFAT5 forms dynamic, reversible biomolecular condensates in response to increasing ionic strength. This self-associative property, conserved from insects to mammals, allows NFAT5 to accumulate in the nucleus and activate genes that restore cellular ion content. Mutations that reduce condensation or those that promote aggregation both reduce NFAT5 activity, highlighting the importance of optimally tuned associative interactions. To investigate the composition of NFAT5 condensates in response to hypertonic stress, proteins in close proximity of NFAT5 were identified using a variant of NFAT5 fused to TurboID as bait. Hypertonic stress increases NFAT5 proximity to protein complexes belonging to the GO gene sets of “transcription coactivator activity” and “positive regulation of DNA templated transcription initiation.” Closer inspection revealed that the association between NFAT5 and two transcriptional co-activators (the mediator complex and BRD4) and RNAPII itself increased in response to hypertonic stress.

2025-04-17 | PXD052591 | Pride