We describe an algorithm which modifies a protein database such that during a database search deamidation is limited to asparagines strictly contained within the N-glycosylation consensus sequence. The modified database was evaluated using a dataset created from the shotgun proteomic analysis of N-linked glycopeptides from human blood serum. We demonstrate that the application of the modified database eliminates incorrect glycopeptide assignments, reduces the peptide false-discovery rate, and eliminates the need for manual validation of glycopeptide identifications.
Background: High fruit and vegetable intake is known to reduce the risk of colon cancer. To improve understanding of this phenomenon the action of different phytochemicals on colon cells has been examined. One such compound is quercetin that belongs to the group known as flavonoids. The purpose of this study was to determine the influence of quercetin on the proteome of the SW480 human colon adenocarcinoma cell line, specifically to identify proteins that could be the molecular targets of quercetin in its amelioration of the progression of colon cancer. To this end, two-dimensional gel electrophoresis and mass spectrometry were used to identify proteins that underwent a change in expression following treatment of the cells with 20 µM quercetin. This could elucidate how quercetin may reduce the progression of colon cancer.
Spiritual wellbeing is associated with decreased risk for cancer. Stress and depression are common among cancer patients and may be inversely associated with spiritual wellbeing. The purpose of the study is to examine if stress and depression as indicators of cancer risk are lower in a racially diverse faith-based community. Methods: 752 individuals from a faith-based community completed a behavioral assessment survey that mapped the current patterns of behavior in key categories that include: stress, depression, exercise and nutrition using the E-wellness platform FitThumb. To identify stress biomarkers in cancer patients we examined levels of stress serum proteomic biomarkers that were previously identified in our study by proteomic profiling using 2D-DIGEMS analysis and a subset of samples by shotgun LCMS technology. The serum proteomic study included serum samples from 15 African American breast cancer patients and 12 healthy controls who were from a faith-based community. Results: The behavioral assessment surveys that included 752 individuals who were racially diverse showed a low stress risk of 47.74% vs 8.24 % of high stress risk for chronic disease; and low depression risk of 85.11% vs 1.99% high risk for chronic disease. Elevated levels of stress and inflammatory serum proteomic biomarkers such as ceruloplasmin known to increase in stressed animals and humans; heptaglobin, apolipoproteins, and heat shock proteins were significantly elevated in breast cancer patients compared to healthy controls. Conclusions: Our results indicate that spiritual well-being is associated with significantly low stress and depression in a faith-based community regardless of race or ethnicity, posing a low risk for cancer as shown in previous Adventist Health Cohort studies. Future efforts will focus on validating and identifying panel of biomarkers from this cohort to gain insight into their role(s) in the mechanisms of stress hormones and cancer risk. Funded by Susan G Komen for the cure.
Citation Format: Padma P. Tadi Uppala, Gretchen Krivak, Sherine Brown-Fraser, Dixon Anjejo, Alfredo Mejia, Dominique wakefield, Kumar Kolli. Stress, spiritual wellbeing and cancer risk among diverse racial faith-based communities: Elevated levels of stress proteomic biomarkers in breast cancer patients [abstract]. In: Proceedings of the American Association for Cancer Research Annual Meeting 2017; 2017 Apr 1-5; Washington, DC. Philadelphia (PA): AACR; Cancer Res 2017;77(13 Suppl):Abstract nr 4999. doi:10.1158/1538-7445.AM2017-4999
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