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Discovery of Novel Protein Biomarkers in Urine for Diagnosis of Urothelial Cancer Using iTRAQ Proteomics

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (5)

Urothelial carcinoma (UC) is the ninth most prevalent malignancy worldwide. Noninvasive and efficient biomarkers with high accuracy are imperative for......

MSTracer: A Machine Learning Software Tool for Peptide Feature Detection from Liquid Chromatography-Mass Spectrometry Data

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (7)

Liquid chromatography with tandem mass spectrometry (MS/MS) has been widely used in proteomics. Although a typical experiment includes both MS and MS/......

Proteomics and Phosphoproteomics Profiling of Drug-Addicted BRAFi-Resistant Melanoma Cells

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (9)

Acquired resistance to MAPK inhibitors limits the clinical efficacy in melanoma treatment. We and others have recently shown that BRAF inhibitor (BRAF......

BioContainers Registry: Searching Bioinformatics and Proteomics Tools, Packages, and Containers

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (4)

BioContainers is an open-source project that aims to create, store, and distribute bioinformatics software containers and packages. The BioContainers ......

An Integrated Strategy Reveals Complex Glycosylation of Erythropoietin Using Mass Spectrometry

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (7)

The characterization of therapeutic glycoproteins is challenging due to the structural heterogeneity of the therapeutic protein glycosylation. This st......

Integration of Metabolomics and Transcriptomics Reveals Ketone Body and Lipid Metabolism Disturbance Related to ER Stress in the Liver

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (8)

Once protein synthesis is excessive or misfolded protein becomes aggregated, which eventually overwhelms the capacity of the endoplasmic reticulum (ER......

Sparse PLS-Based Method for Overlapping Metabolite Set Enrichment Analysis

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (6)

Metabolite set enrichment analysis (MSEA) has gained increasing research interest for identification of perturbed metabolic pathways in metabolomics. ......

Quantitative Proteomics Reveals the Protein Regulatory Network of Anabaena sp. PCC 7120 under Nitrogen Deficiency

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (8)

Anabaena sp. PCC 7120 (Anabaena 7120) is a photoautotrophic filamentous cyanobacterium capable of fixing atmospheric nitrogen. It is a model organism ......

Simultaneous Detection of Six Isoforms of Tau Protein in Human Cerebrospinal Fluid by Multidimensional Mass Spectrometry-Based Targeted Proteomics

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (5)

Abnormal expression of Tau protein can cause the development of Alzheimer's disease (AD). So far, much evidence has demonstrated that Tau has multiple......

Integrative Analysis of Metabolomic and Transcriptomic Data Reveals Metabolic Alterations in Glioma Patients

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (5)

Glioma is a malignant brain tumor. There is growing evidence that its progression involves altered metabolism. This study's objective was to understan......

Serum Bile Acid Profiles Improve Clinical Prediction of Nonalcoholic Fatty Liver in T2DM patients

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (8)

Background: The present study aimed to assess the ability of serum bile acid profiles to predict the development of nonalcoholic fatty liver (NAFL) in......

PrSM-Level Side-by-Side Comparison of Online LC-MS Methods with Intact Histone H3 and H4 Proteoforms

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (9)

The heterogeneity of histone H3 proteoforms makes histone H3 top-down analysis challenging. To enhance the detection coverage of the proteoforms, perf......

Adhesion Characteristics and Dual Transcriptomic and Proteomic Analysis of Lactobacillus reuteri SH23 upon Gastrointestinal Fluid Stress

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (5)

The ability to survive in the harsh gastrointestinal tract (GIT) environment is essential for Lactobacillus reuteri (L. reuteri) exhibiting beneficial......

Stable Isotope-Resolved Metabolomics Reveals the Abnormal Brain Glucose Catabolism in Depression Based on Chronic Unpredictable Mild Stress Rats

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (7)

The severe harm of depression to human life has attracted great attention to neurologists, but its pathogenesis is extremely complicated and has not y......

Integration of FGF21 Signaling and Metabolomics in High-Fat Diet-Induced Obesity

期刊: JOURNAL OF PROTEOME RESEARCH, 2021; 20 (8)

Sex differences in obesity have been well established, but the metabolic mechanism underlying these differences remains unclear. In the present study,......

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