Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Proteomics of PLGA-based nanoparticles protein corona after mild isolation and its impact on macrophage uptake (PLGA100).

ABSTRACT: Recognition of the protein corona, a layer of adsorbed protein around nanosystems, is necessary for a better understanding of bio-nano interaction. This study first compares different experimental methods for PLGA nanoparticles protein corona isolation, then investigated the biological identity and fingerprint profile of adsorbed proteins on variously pegylated PLGA-based nanoparticles using microfiltration as an ideal isolation method coupled with proteomics. The total proteins identified in the corona of nanoparticles with different compositions were classified based on their abundance and gene-ontology. Lastly, measurements of nanoparticles absorption by macrophages showed a strong association with the characteristics of the protein corona.

INSTRUMENT(S):

ORGANISM(S): Bos Taurus (bovine)

TISSUE(S): Blood Serum

SUBMITTER: Lucio Spinelli

LAB HEAD: Maria Chiara

PROVIDER: PXD068289 | Pride | 2025-11-04

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	01022025_NPs_PLGA100_Percolator.msf	Msf
	20250129_CTRL_1_a.raw	Raw
	20250129_CTRL_1_b.raw	Raw
	20250129_CTRL_1_c.raw	Raw
	20250129_NPs_PLGA_100_1_a.raw	Raw

Items per page:

1 - 5 of 23

Similar Datasets

Proteomics of PLGA-based nanoparticles protein corona after mild isolation and its impact on macrophage uptake.

Project description:Recognition of the protein corona, a layer of adsorbed protein around nanosystems, is necessary for a better understanding of bio-nano interaction. This study first compares different experimental methods for PLGA nanoparticles protein corona isolation, then investigated the biological identity and fingerprint profile of adsorbed proteins on variously pegylated PLGA-based nanoparticles using microfiltration as an ideal isolation method coupled with proteomics. The total proteins identified in the corona of nanoparticles with different compositions were classified based on their abundance and gene-ontology. Lastly, measurements of nanoparticles absorption by macrophages showed a strong association with the characteristics of the protein corona.

2025-11-04 | PXD061055 | Pride

Interaction of TiO2 nanoparticles with lung fluid proteins and the resulting macrophage inflammatory response

Project description:Inhalation is a major nanoparticle exposure pathway. Following inhalation, nanoparticles first interact with the lung lining fluid, a complex mixture of proteins, lipids, and mucins. We measure the concentration and composition of lung fluid proteins adsorbed on the surface of titanium dioxide (TiO2) nanoparticles. Using proteomics, we find that lung fluid results in a unique protein corona on the surface of the TiO2 nanoparticles.

2023-11-10 | PXD041036 | Pride

High-throughput plasma/serum proteomics by coupling nanoparticle protein corona-based sample preparation and capillary zone electrophoresis-tandem mass spectrometry

Project description:A high-throughput workflow for bottom-up proteomics (BUP) of human plasma using capillary zone electrophoresis-tandem mass spectrometry (CZE-MS/MS) and nanoparticle protein corona-assisted sample preparation is presented. The streamlined approach enabled the identification and quantification of hundreds of proteins from plasma/serum samples in 3.5 hours from sample to data. Nanoparticles with varied physiochemical properties studied in this work captured different pools of the plasma/serum proteome in the protein coronas, and the protein corona-based sample preparation approach enabled the measurement of low-abundance proteins compared to the approach without nanoparticles. Applying this high-throughput workflow to serum samples of a mouse NUT carcinoma (NC) cancer model allowed the determination of differentially expressed serum proteins between NC bearing mice and healthy controls. By comparing our quantitative proteomics data with published transcriptomics data, we revealed a handful of potential serum protein biomarkers of NC cancer (e.g., secreted phosphoprotein 1, Spp1). We expect this high-throughput workflow, with additional improvement in the speed of the mass spectrometer, will be useful for advancing the discovery of new protein biomarkers of diseases (e.g., cancer) using plasma/serum samples valuable for liquid biopsy applications.

2025-08-04 | PXD063043 | Pride

Mass spectrometry-based top-down proteomics in nanomedicine: proteoform-specific measurement of protein corona

Project description:Conventional mass spectrometry (MS)-based bottom-up proteomics (BUP) analysis of protein corona [i.e., an evolving layer of biomolecules, mostly proteins, formed on the surface of nanoparticles (NPs) during their interactions with biomolecular fluids] enabled nanomedicine community to partly identify the biological identity of NPs. Such an approach, however, fails pinpoint the specific proteoforms—distinct molecular variants of proteins, which is essential for prediction of the biological fate and pharmacokinetics of nanomedicines. Recognizing this limitation, this study pioneers a robust and reproducible MS-based top-down proteomics (TDP) technique for precisely characterizing proteoforms in the protein corona. Our TDP approach has successfully identified hundreds of proteoforms in the protein corona of polystyrene NPs, ranging from 3-70 kDa, revealing over 20 protein biomarkers with combinations of post-translational modifications, signal peptide cleavages, and/or truncations—details that BUP could not fully discern. This advancement in MS-based TDP offers a more comprehensive and exact characterization of NP protein coronas, deepening our understanding of NPs' biological identities and potentially revolutionizing the field of nanomedicine.

2024-10-15 | PXD050779 | Pride

LLS7(P)-M-NPs Protein Corona Characterization

Project description:Characterization of LLS7(P)-M-NPs protein corona in SWF (Simulated Wound Fluid) matrix.

2025-10-26 | PXD058949 | Pride

Deep Plasma Proteome Profiling by Modulating Single Nanoparticle Protein Corona with Small Molecules

Project description:The protein corona, a dynamic biomolecular layer that forms on nanoparticle (NP) surfaces upon exposure to biological fluids is emerging as a valuable diagnostic tool for improving plasma proteome coverage analyzed by liquid chromatography-mass spectrometry (LC-MS/MS). Here, we show that spiking phosphatidylcholine into plasma can induce diverse protein corona patterns on otherwise identical NPs, significantly enhancing the depth of plasma proteome profiling. This significant achievement is made utilizing only a single NP type and one small molecule to analyze a single plasma sample, setting a new standard in proteomic depth of the plasma sample. Given the critical role of plasma proteomics in biomarker discovery and disease monitoring, we anticipate widespread adoption of this methodology for identification and clinical translation of proteomic biomarkers into FDA approved diagnostics.

2024-10-15 | PXD053359 | Pride

Mass Spectrometry-Based Top-Down Proteomics for Proteoform Profiling of Protein Corona

Project description:The protein corona, a layer of biomolecules—primarily proteins—that adsorb to nanoparticle (NP) surfaces in biological fluids, critically affects NP safety and their therapeutic and diagnostic functions. Additionally, the protein corona effectively reduces proteome complexity and the dynamic range of protein concentrations in blood plasma and other complex fluids. By suppressing highly abundant proteins, the protein corona enhances the potential for biomarker discovery across diverse health conditions, thereby advancing diagnostic and therapeutic applications. Traditionally, protein corona studies have relied on mass spectrometry (MS)-based bottom-up proteomics (BUP) to analyze corona composition. However, BUP approaches do not accurately identify specific proteoforms—distinct molecular variants of proteins—within the corona. This limitation impedes the nanomedicine field’s ability to precisely predict the biological fate and pharmacokinetics of nanomedicines, as well as their effectiveness in early-stage biomarker discovery and disease detection. Here, we present protocols utilizing capillary zone electrophoresis (CZE)-MS-based top-down proteomics (TDP) to characterize the proteoform landscape of the protein corona. Our procedures detail the recovery of intact proteoforms from NP surfaces and the measurement of these proteoforms using CZE-MS/MS and CZE-high-field asymmetric waveform ion mobility spectrometry (FAIMS)-MS/MS. The entire workflow is completed within three to four days. Implementing this protocol offers mechanistic insights into how proteoforms modulate NP–bio interactions, enabling the nanomedicine community to acquire more comprehensive protein corona profiles. This advancement has the potential to significantly enhance the diagnostic and therapeutic efficacy of nanomedicine technologies.

2025-09-08 | PXD060784 | Pride

Plasma Protein Corona on Polystyrene Nanoparticles Facilitates their Transfer across the Human Placenta

Project description:Nanoparticles exposed to biological fluids are rapidly surrounded by proteins. It is known that this formed protein corona influences the interplay of nanoparticles with cells or tissue barriers. In this study, we report the impact of a formed human plasma protein corona on the transfer of 80 nm polystyrene (PS) nanoparticles across the human placenta. We used the human ex-vivo placental perfusion model, as it reflects the intact and physiological tissue barrier between mother and unborn. Our results show an enhanced transfer of polystyrenes, exposed to human plasma, across the placenta compared to bovine serum albumin which served as control setting. We isolated nanoparticles before and after tissue exposure and analyzed their protein corona via shotgun proteomics and LC-MS/MS. The corona profile of particles that crossed the placenta highlighted several proteins as possible drivers for elevated tissue transfer. Subsequently two distinct proteins, human albumin and immunoglobulin G, were selected and incubated with the nanoparticles to form a sole protein corona. Strikingly, the protein corona formed by albumin induced significantly the transfer of polystyrenes across the tissue as compared to corona formed by immunoglobulins. To conclude, our study provides a comparative analysis between different formed protein coronas on nanoparticles and a corona dependent transfer behavior of polystyrenes across placental tissue. Our findings suggest that protein corona analyses of nanoparticles might help to understand better their properties at biological barriers.

2020-08-19 | PXD018160 | Pride

Nanomaterials trigger functional responses in primary human immune cells

Project description:Targeting the immune system with nanoparticles (NPs) to deliver immunomodulatory molecules emerged as a solution to address intra-tumoral immunosuppression and enhance therapeutic response. While the potential of nanoimmunotherapies in reactivating immune cells has been evaluated in several preclinical studies, the impact of drug-free nanomaterials on the immune system remains unknown. Here, we characterize the molecular and functional response of human NK cells and pan T cells to two NPs that are commonly used in biomedical applications: ultrasmall silica-based gadolinium (Si-Gd) NPs and poly(lactic-co-glycolic acid) (PLGA) NPs. Bulk RNA-sequencing analysis showcase that PLGA NPs trigger a transcriptional priming towards activation in NK and T cells. While PLGA NPs improved NK cells anti-tumoral functions in a cytokine-deprived environment, Si-Gd NPs significantly impaired T cells activation as well as functional responses to a polyclonal antigenic stimulation . Altogether, we identified PLGAs NPs as suitable and promising candidates for further targeting approaches aiming to reactivate the immune system of cancer patients.

2024-11-15 | E-MTAB-14550 | biostudies-arrayexpress

Comprehensive and systematic characterization of novel nanodrug conjugate based on multi-functionalized magnetic iron-nanoparticles conjugated with cisplatin derivative: From the chemistry to the animal model

Project description:Nanodrugs need a completely characterization by both chemically and biological point of view. As nanoparticles have evolved as multi-functional systems combining different custom anchorages, their pharmacological involvements require more comprehensive analysis. In this work, we present the design and synthesis of novel iron-NPs conjugated with a cisplatin derivate and their biological evaluation by quantitative proteomics approches. To decipher detailed insights related to the NP interactions with environment (as protein corona) and pharmacodynamics functionalities of the nanodrugs conjugates, LC-MS/MS analysis was perform to stablish protein profile. Biocompatibility and animal model provided complete insights of the potential of multifunctional iron NPs.

2022-08-12 | PXD026615 | 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