scholarly journals Mass spectrometry protein expression profiles in colorectal cancer tissue associated with clinico-pathological features of disease

BMC Cancer ◽  
2010 ◽  
Vol 10 (1) ◽  
Author(s):  
Christopher CL Liao ◽  
Nicholas Ward ◽  
Simon Marsh ◽  
Tan Arulampalam ◽  
John D Norton
Keyword(s):  
Colorectal Cancer ◽  
Mass Spectrometry ◽  
Protein Expression ◽  
Expression Profiles ◽  
Cancer Tissue ◽  
Pathological Features ◽  
Colorectal Cancer Tissue ◽  
Protein Expression Profiles

scholarly journals New insights into Trypanosoma cruzi evolution and genotyping based on system-wide protein expression profiles (PhyloQuant)

2020 ◽  
Author(s):  
Simon Ngao Mule ◽  
Andrè Guillherme da Costa Martins ◽  
Livia Rosa-Fernandes ◽  
Gilberto Santos de Oliveira ◽  
Carla Monadeli Rodrigues ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Trypanosoma Cruzi ◽  
Protein Expression ◽  
Large Scale ◽  
Expression Profiles ◽  
Shotgun Proteomics ◽  
Close Correlation ◽  
Evolutionary Relationships ◽  
Trypanosome Species ◽  
Protein Expression Profiles

AbstractThe etiological agent of Chagas disease, Trypanosoma cruzi, is subdivided into seven genetic subdivisions termed discrete typing units (DTUs), TcI-TcVI and Tcbat. The relevance of T. cruzi genetic diversity to the variable clinical course of the disease, virulence, pathogenicity, drug resistance, transmission cycles and ecological distribution justifies the concerted efforts towards understanding the population structure of T. cruzi strains. In this study, we introduce a novel approach termed ‘phyloquant’ to infer the evolutionary relationships and assignment of T. cruzi strains to their DTUs based on differential protein expression profiles evidenced by bottom up large scale mass spectrometry-based quantitative proteomic features. Mass spectrometry features analyzed using parsimony (MS1, iBAQ and LFQ) showed a close correlation between protein expression and T. cruzi DTUs and closely related trypanosome species. Although alternative topologies with minor differences between the three MS features analyzed were demonstrated, we show congruence to well accepted evolutionary relationships of T. cruzi DTUs; in all analyses TcI and Tcbat were sister groups, and the parental nature of genotype TcII and the hybrid genotypes TcV/TcVI were corroborated. Character mapping of genetic distance matrices based on phylogenetics and phyloquant clustering showed statistically significant correlations. We propose the first quantitative shotgun proteomics approach as a complement strategy to the genetic-based assignment of T. cruzi strains to DTUs and evolutionary inferences. Moreover, this approach allows for the identification of differentially regulated and strain/DTU/species-specific proteins, with potential application in the identification of strain/DTU specific biomarkers and candidate therapeutic targets. In addition, the correlation between multi-gene protein expression and divergence of trypanosome species was evaluated, adding another level to understand the genetic subdivisions among T. cruzi DTUs.

Determination of the protein expression profiles of breast cancer cell lines by quantitative proteomics using iTRAQ labelling and tandem mass spectrometry

2015 ◽  
Vol 124 ◽  
pp. 50-78 ◽  
Author(s):  
Karla Grisel Calderón-González ◽  
Ma Luz Valero Rustarazo ◽  
Maria Luisa Labra-Barrios ◽  
César Isaac Bazán-Méndez ◽  
Alejandra Tavera-Tapia ◽  
...  
Keyword(s):  
Breast Cancer ◽  
Mass Spectrometry ◽  
Tandem Mass Spectrometry ◽  
Protein Expression ◽  
Quantitative Proteomics ◽  
Expression Profiles ◽  
Breast Cancer Cell Lines ◽  
Tandem Mass ◽  
Protein Expression Profiles

603: SELDI-TOF Mass Spectrometry Reveals Distinctive Protein Expression Profiles in the Urine of Bladder Cancer Patients

2005 ◽  
Vol 173 (4S) ◽  
pp. 165-165
Author(s):  
Kerstin Junker ◽  
Joerg Mueller ◽  
Dominik Driesch ◽  
Ferdinand von Eggeling ◽  
Jörg Schubert
Keyword(s):  
Mass Spectrometry ◽  
Bladder Cancer ◽  
Protein Expression ◽  
Cancer Patients ◽  
Expression Profiles ◽  
Protein Expression Profiles

scholarly journals Identification of Apolipoprotein A-II in Cerebrospinal Fluid of Pediatric Brain Tumor Patients by Protein Expression Profiling

2006 ◽  
Vol 52 (8) ◽  
pp. 1501-1509 ◽  
Author(s):  
Judith M de Bont ◽  
Monique L den Boer ◽  
Roel E Reddingius ◽  
Jaap Jansen ◽  
Monique Passier ◽  
...  
Keyword(s):  
Mass Spectrometry ◽  
Brain Tumor ◽  
Protein Expression ◽  
Expression Profiles ◽  
Pediatric Brain Tumor ◽  
Tumor Patients ◽  
Apolipoprotein A ◽  
Protein Expression Profiles ◽  
And Control ◽  
Pediatric Brain

Abstract Background: Our aim was to detect differences in protein expression profiles of cerebrospinal fluid (CSF) from pediatric patients with and without brain tumors. Methods: We used surface-enhanced laser desorption/ionization time-of-flight (SELDI-TOF) mass spectrometry and Q10 ProteinChip arrays to compare protein expression profiles of CSF from 32 pediatric brain tumor patients and 70 pediatric control patients. A protein with high discriminatory power was isolated and identified by subsequent anion-exchange and reversed-phase fractionation, gel electrophoresis, and mass spectrometry. The identity of the protein was confirmed by Western blotting and immunohistochemistry. Results: Of the 247 detected protein peak clusters, 123 were differentially expressed between brain tumor and control patients with a false discovery rate of 1%. Double-loop classification analysis gave a mean prediction accuracy of 88% in discriminating brain tumor patients from control patients. From the 123 clusters, a highly overexpressed protein peak cluster in CSF from brain tumor patients was selected for further analysis and identified as apolipoprotein A-II. Apolipoprotein A-II expression in CSF was correlated with the CSF albumin concentration, suggesting that the overexpression of apolipoprotein A-II is related to a disrupted blood–brain barrier. Conclusions: SELDI-TOF mass spectrometry can be successfully used to find differentially expressed proteins in CSF of pediatric brain tumor and control patients. Apolipoprotein A-II is highly overexpressed in CSF of pediatric brain tumor patients, which most likely is related to a disrupted blood–brain barrier. Ongoing studies are aimed at finding subtype specific proteins in larger groups of pediatric brain tumor patients.

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