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The proteome of MSI-H CRC tumors

ABSTRACT: To better understand the CRC proteomic changes in time after INFg induction

INSTRUMENT(S): Q Exactive

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Epithelial Cell, Colon

DISEASE(S): Colon Cancer

SUBMITTER: Gilad Vainer

LAB HEAD: Gilad W. Vainer

PROVIDER: PXD019252 | Pride | 2020-07-10

REPOSITORIES: Pride

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			Action	DRS
	HFX_9850_GVA_DLD1_10_180719_20190723144215.raw	Raw
	HFX_9850_GVA_DLD1_11_180719.raw	Raw
	HFX_9850_GVA_DLD1_12_180719.raw	Raw
	HFX_9850_GVA_DLD1_1_180719_20190725211859.raw	Raw
	HFX_9850_GVA_DLD1_2_180719.raw	Raw

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Publications

Novel Proteome Extraction Method Illustrates a Conserved Immunological Signature of MSI-H Colorectal Tumors.

Vainer Elez D ED Kania-Almog Juliane J Zatara Ghadeer G Levin Yishai Y Vainer Gilad W GW

Molecular & cellular proteomics : MCP 20200708 10

Using a simple, environment friendly proteome extraction (TOP), we were able to optimize the analysis of clinical samples. Using our TOP method we analyzed a clinical cohort of microsatellite stable (MSS) and unstable (MSI-H) colorectal carcinoma (CRC). We identified a tumor cell specific, STAT1-centered, immune signature expressed by the MSI-H tumor cells. We then showed that long, but not short, exposure to Interferon-γ induces a similar signature <i>in vitro</i> We identified 10 different tem ...[more]

PMID: 32641473

Similar Datasets

Novel Proteome Extraction Method Illustrate a Conserved Immunological Signature of MSI-H Colorectal Tumors

Project description:Utilizing the novel TOP clinical proteome extraction to better understand the immune phenotype of MSI-H CRC tumors

2020-07-10 | PXD017821 | Pride

Novel Proteome Extraction Method Illustrate a Conserved Immunological Signature of MSI-H Colorectal Tumors

Project description:Direct comparison of conventional Vs. TOP proteome extraction, and effcts of fixation-time

2020-07-10 | PXD019254 | Pride

Pancreatic cancer cells treated with anlotinib

Project description:Aberrant regulation of angiogenesis involves in the growth and metastasis of tumors, but angiogenesis inhibitors fail to improve overall survival of pancreatic cancer patients in previous phase III clinical trials. A comprehensive knowledge of the mechanism of angiogenesis inhibitors against pancreatic cancer is helpful for clinical purpose and for the selection of patients who might benefit from the inhibitors. In this work, multi-omics analyses (transcriptomics, proteomics and phosphoproteomics profiling) were carried to delineate the mechanism of anlotinib, a novel angiogenesis inhibitor, against pancreatic cancer cells.

2021-09-09 | PXD023344 | Pride

Phosphoproteomics Data of pancreatic cancers cells treated with anlotinib

2021-09-09 | PXD023345 | Pride

Comparative TMT-based quantitative proteomic analysis of the Tachaea chinensis isopod during parasitism

Project description:Parasitic isopods perforate and attach to the host integument via the mandibles, then feed on hemolymph and exudate from the wounds. Such isopods attack a variety of commercially important fish and crustacean hosts. Like other hematophagous parasites, isopods employ biomolecules that inhibit host blood conglutination and defense. In the present study, a tandem mass tag-based quantitative proteomic approach was used to identify differentially expressed proteins in Tachaea chinensis parasites of shrimp, by comparing parasitic (fed) and pre-parasitic (unfed) individuals. We identified 888 proteins from 1510 total peptides, with a significant difference in 129 between the fed and unfed groups. Among these, 37 were upregulated and 92 were downregulated in unfed T. chinensis. This indicates that T. chinensis may require more energy before parasitism during its search for a host. In addition, as is the case for other blood-sucking parasites, it might secrete antihemostatic, anti-inflammatory and immunomodulatory molecules to facilitate blood meal acquisition. Our study is the first to use a TMT-based proteomic approach to analyze the proteome of isopod parasites, and our results will facilitate our understanding of the molecular mechanisms of isopod parasitism on crustaceans.

2020-05-26 | PXD015247 | Pride

Comparative analysis of serum proteins between hepatitis B virus genotype B and C infection DIA-based quantitative proteomics

Project description:Hepatitis B virus (HBV) is an enveloped, coated, non-cytopathic and hepatotropic partially double-stranded DNA virus in the family Hepadnaviridae genus Orthohepadnavirus. Despite significant progress in the availability of safe vaccines and antiviral therapies against HBV, it still affects approximately 257 million people worldwide and is responsible for about 887,000 deaths per year around the world [4]. HBV infection, which are associated with acute and chronic liver failure responses to viruses attacked the liver, can result in inactive carrier state, chronic hepatitis, or fulminant hepatitis and put them at high risk to develop advanced liver fibrosis and cirrhosis, and even hepatocellular cancer. Many viral factors, which could affect the disparity of clinical outcomes or disease prognosis during chronic HBV infection, have been reported in previous studies; among them, the viral genotype, as well as HBV mutations ascribing the virus to a certain phenotype, was reported to be the most important factor influencing viral pathogenesis, including the change of host immune recognition, the enhanced virulence with increased HBV replication and the facilitation of cell attachment or penetration.

2022-02-17 | PXD025968 | Pride

Serum proteomic profiling in patients with advanced Schistosoma japonicum-induced hepatic fibrosis

Project description:Background: Schistosoma japonicum (S. japonicum) is a parasitic flatworm that is the aetiological agent of human schistosomiasis, an important cause of hepatic fibrosis. Schistosomiasis-induced hepatic fibrosis is a consequence of the highly fibrogenic nature of egg-induced granulomatuous lesions, the main pathogenic factor of schistosomiasis. Although global awareness of the association between schistosomiasis-indued hepatic fibrosis and s. japonicum infection is increasing, little is known about the molecular differences associated with rapid progression to schistosomiasis in cirrhotic patients. Methods: We systematically used data-independent acquisition (DIA)-based liquid chromatography-mass spectrometry to identify differentially expressed proteins in serum samples from patients with advanced S. japonicum-induced hepatic fibrosis. Results: On the basis of our analysis, we identified 1,144 proteins, among which 66 were differentially expressed between the healthy control and SHF-F2 groups and 214 were differentially expressed between the SHF-F2 and SHF-F4 groups (up- or downregulation of at least 1.5-fold in serum samples). Furthermore, our results indicated that two selected proteins (C1QA and CFD) are potential biomarkers for distinguishing patients with SHF-F2 and SHF-F4 resulting from S. japonicum infection. Conclusions: This report is the first to provide a global proteomic profile of serum samples from patients with advanced S. japonicum-induced hepatic fibrosis. C1QA and CFD are potentially diagnostic markers for patients with SHF-F2 and SHF-F4 resulting from S. japonicum infection, although further large-scale studies are needed. Our DIA-based quantitative proteomic analysis revealed molecular differences among individuals with different stages of advanced S. japonicum-induced hepatic fibrosis and might provide fundamental information for further detailed investigations.

2022-09-06 | PXD025224 | Pride

Burkholderia Proteomics - Proteogenomic Analysis of Burkholderia Species Strains 25 and 46 Isolated from Uraniferous Soils Reveals Multiple Mechanisms to Cope with Uranium Stress

Project description:Comparative proteogenomics analysis of Burkholderia species isolated from uraniferous Soils

2018-12-20 | PXD011367 | Pride

human breast cancer cell line LC-MS/MS

Project description:Triple-negative breast cancer (TNBC) is the most aggressive type with poor prognosis among the breast cancers and has a high population of cancer stem cells (CSCs) which are main target to cure and inhibit TNBC. In this study, we analyzed the CSC-related proteome alteration by NEDD4 knockdown in CSC-abundant MDA-MB-231 cells by LC-MS/MS analysis.

2021-09-09 | PXD020585 | Pride

Protein interactions with HA-tagged cytoplasmic dynein-2 DATASET2

Project description:To identify those proteins interacting with the cytoplasmic dynein-2 using mammalian cell lines stably expressing HA-tagged intermediate chain subunits, WDR34 (DYNC2I2) or WDR60 (DYNC2I1).

2023-01-24 | PXD031152 | Pride

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