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ECM of proliferative vs dormant HNSCC

ABSTRACT: The goal of this project is to characterize the ECM composition of actively proliferative and dormant head and neck squamous cell carcinoma xenografts and identify components of the ECM niche instructing tumor cell dormancy.

INSTRUMENT(S): LTQ Orbitrap Velos

ORGANISM(S): Homo Sapiens (human) Mus Musculus (mouse)

DISEASE(S): Neck Carcinoma

SUBMITTER: George Chlipala

LAB HEAD: Alexandra Naba

PROVIDER: PXD036453 | Pride | 2022-09-06

REPOSITORIES: Pride

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Dataset's files

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			Action	DRS
	180615_554_AN_D1.mgf	Mgf
	180615_554_AN_D1.raw	Raw
	180615_554_AN_D1_human.mzid.gz	Mzid
	180615_554_AN_D1_mouse.mzid.gz	Mzid
	180615_554_AN_D2.mgf	Mgf

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Publications

A tumor-derived type III collagen-rich ECM niche regulates tumor cell dormancy.

Di Martino Julie S JS Nobre Ana Rita AR Mondal Chandrani C Taha Isra I Farias Eduardo F EF Fertig Elana J EJ Naba Alexandra A Aguirre-Ghiso Julio A JA Bravo-Cordero Jose Javier JJ

Nature cancer 20211213 1

Cancer cells disseminate and seed in distant organs, where they can remain dormant for many years before forming clinically detectable metastases. Here we studied how disseminated tumor cells sense and remodel the extracellular matrix (ECM) to sustain dormancy. ECM proteomics revealed that dormant cancer cells assemble a type III collagen-enriched ECM niche. Tumor-derived type III collagen is required to sustain tumor dormancy, as its disruption restores tumor cell proliferation through DDR1-med ...[more]

PMID: 35121989

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ECM of proliferative vs dormant HNSCC

Project description:The goal of this project is to characterize the ECM composition of actively proliferative and dormant head and neck squamous cell carcinoma xenografts and identify components of the ECM niche instructing tumor cell dormancy.

2021-08-26 | PXD018883 | Pride

ECM of proliferative vs dormant HNSCC

2021-08-26 | PXD019185 | Pride

Matrisome proteins of human and porcine cornea and amnion

Project description:In this project, for the first time, the Extracellular Matrix protein compositions of porcine cornea and human amnion (amniotic membrane) were characterized using LC/MS-MS based on an already developed protocol, "Matrisome Project".

2021-05-21 | PXD020606 | Pride

Matrisome of neonatal mouse dermal fibroblasts

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2022-09-22 | PXD019869 | Pride

Dental Pulp Stem Cells LC-MS/MS analysis

Project description:This study focuses on the impact of ECM (extra-cellular matrix) over cell processes such as proliferation, differentiation or mineralization which is more specifically related to our dental pulp cells. We cultured these dental pulp stem cells (DPSC) in mineralization growth or normal growth conditions. After 21 days, cells were incubated in decellularized solution until no intact cells are seen. After ECM was washed, we studied the mineralization associated to these two different ECM. Matrisome proteins were identified through proteomics. DPSC matrisome is composed of 225 individual different proteins. We classified them according to different categories, the 3 core matrisome categories: glycoproteins, collagens, proteoglycans and the 3 matrisome associated proteins categories: the regulators, affiliated and secreted. When comparing the proteins in the N-ECM and OM-ECM, most of the core matrisome proteins are downregulated in OM conditions, except 3 glycoproteins, as well as regulators and secreted factors. However, annexins were found to be upregulated in OM condition. Cell adhesion, tensile strength and growth factor binding are over-represented in NM ECM. The collagen group and glycoproteins were higher in N-ECM than OM-ECM Thereafter, gingival stem cells (GSC), the less inherit osteogenic potency cells, were seeded on these N-ECM and OM-ECM. When GSCs were seeded on DPSC-derived ECM, the OM-ECM dramatically promoted mineral deposition compared with N-ECM. We hypothesize that annexins could participate in the osteogenic inductive properties. ECM plays a pivotal role in many physiological processes, it regulates cells behavior and can orient cell differentiation. Dental pulp and oral mucosa share embryological origins but differ in their reactions to insults. Dental pulp can mineralize while oral mucosa heals ad integrum. We hypothesize that ECM participate in these characteristics.

2021-09-23 | PXD018951 | Pride

Specialized replication mechanisms maintain genome stability at human centromeres

Project description:Reveal a specific set of proteins important to maintain centromere integrity, through quantitative PICh (Proteomics of Isolated Chromatin). Centromeric chromatin was pulled down through RNA probes annealing specifically to a 300bp-long conserved centromeric sequence.

2024-02-14 | PXD047847 | Pride

Extracellular matrix derived from oral mesenchymal stem cells

Project description:To investigate the different signatures of ECM proteins on GSCs and DPSCs as well as the different signatures of ECM proteins during osteogenic differentiation

2024-05-24 | PXD040575 | Pride

FOXL1+ TELOCYTES IN MOUSE COLON ORCHESTRATE ECM BIODYNAMICS AND WOUND REPAIR RESOLUTION

Project description:Recent studies identified FoxL1+-Telocytes (TCFoxL1+) as key players in gut epithelial-mesenchymal interactions impacting the microenvironment. Disruption of BMP-signaling in TCFoxL1+ alters the physical and cellular microenvironment leading to gut pathophysiology, suggesting a role for TCFoxL1+ in stromagenesis. However, profiling studies from whole tissue can be misleading when analyzing the specific contribution of TCFoxL1+. We performed an ex vivo deconstruction of control and BmpR1a△FoxL1+ colons, isolated the mesenchyme-enriched fractions and determined the protein composition of in vivo ECM to compare the microenvironment. Matrisomic analysis of mesenchyme fractions revealed modulations in ECM proteins with functions associated to innate immunity, epithelial wound healing and collagen network. These results show that TCFoxL1+ have a critical role in orchestrating the colon ECM biodynamics. Dysfunctional TCFoxL1+ reprogram the microenvironment driving the epithelium toward pathologies. This method allows to truthfully investigate how TCFoxL1+ impacts matrix dynamics leading to a comprehensive ECM profiling in diseases.

2023-10-11 | PXD036294 | Pride

Exoproteome of a furC-overexpressing strain: FurC tunes peptidoglycan remodeling and intercell transfer

Project description:To study the effect of FurC overexpression in the exoproteome composition of Anabaena, sp. PCC120, SWATH-MS analyses have been carried out with the isolated exoproteome of the FurC overexpressing strain, EB2770FurC (named in the present dataset "EB") comparing to the one of the wild-type strain (WT). This data togheter combined with physiological and functional studies of FurC protein revealed a potential role of this regulator in the modulation of general cell-wall biogenesis and recycling processes, as well as and in intercellular transfer.

2024-02-07 | PXD043659 | Pride

Proteomic anlaysis of Fabry iPSC derived cardiomyocytes treated with GLA modRNA

Project description:Recent studies in non-human model systems have shown therapeutic potential of modified mRNA (modRNA) treatments for lysosomal storage diseases. Here, we assessed the efficacy of a modRNA treatment to restore the expression of the ÃŽÂ±-galactosidase (GLA) gene in a human cardiac model generated from induced-pluripotent stem cell-derived from two patients with Fabry disease. In line with the clinical phenotype, cardiomyocytes from Fabry patientÃ¢â‚¬â„¢s induced pluripotent stem cells show accumulation of the glycosphinolipid Globotriaosylceramide (GB3), which is an ÃŽÂ±-galactosidase substrate. Further, the patient-specific cardiomyocytes have significant upregulation of lysosomal associated proteins. Upon modRNA treatment, a subset of lysosomal proteins were partially restored to wildtype levels, implying the rescue of the molecular phenotype associated with the Fabry genotype. Importantly, a significant reduction of GB3 levels was observed in GLA modRNA treated cardiomyocytes demonstrating that ÃŽÂ±-galactosidase enzymatic activity was restored. Together, our results validate the utility of patient IPSC-derived cardiomyocytes as a model to study disease processes in Fabry disease and the therapeutic potential of GLA modRNA treatment to reduce GB3 accumulation in the heart.

2023-07-20 | PXD038361 | Pride

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