ArticleJournal of proteome research2012
Systematic comparison of fractionation methods for in-depth analysis of plasma proteomes.
Article in Journal of proteome research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed.
- Article
- Evaluation of Nanoparticle-Based Plasma Enrichment on Individuals with Primary and Metastatic Pancreatic Cancer.Cancers · 2025Article
- Employing complementary fractionation-based N-terminomics approaches enhances the identification of legumain cleavage events in naïve and inflamed colon tissue.Protein science : a publication of the Protein Society · 2025Article
- Immunoaffinity Depletion of High-Abundance Proteins from Serum/Plasma for Proteomic Analysis.Methods in molecular biology (Clifton, N.J.) · 2025Article
- Ubiquitylomics: An Emerging Approach for Profiling Protein Ubiquitylation in Skeletal Muscle.Journal of cachexia, sarcopenia and muscle · 2024Review
- A Multiplexed Quantitative Proteomics Approach to the Human Plasma Protein Signature.Biomedicines · 2024Article
- Deep Plasma Proteomics with Data-Independent Acquisition: Clinical Study Protocol Optimization with a COVID-19 Cohort.Journal of proteome research · 2024Article
- Improved detection of tryptic immunoglobulin variable region peptides by chromatographic and gas-phase fractionation techniques.Cell reports methods · 2024Article
- Immune capture and protein profiling of small extracellular vesicles from human plasma.Proteomics · 2024Review
- Differences in the Synovial Fluid Proteome of Septic and Aseptic Implant Failure.Antibiotics (Basel, Switzerland) · 2024Article
- Characterization of the plasma proteome from healthy adult dogs.Frontiers in veterinary science · 2024Article
- Translating Senotherapeutic Interventions into the Clinic with Emerging Proteomic Technologies.Biology · 2023Review
- Serum proteomic identification and validation of two novel atherosclerotic aortic aneurysm biomarkers, profilin 1 and complement factor D.Proteome science · 2023Article
- Combining offline high performance liquid chromatography fractionation of peptides and intact proteins to enhance proteome coverage in bottom-up proteomics.Journal of chromatography. A · 2023Article
- Advances in proteomics: characterization of the innate immune system after birth and during inflammation.Frontiers in immunology · 2023Review
- Characterization of the Cerebrospinal Fluid Proteome in Patients with Fragile X-Associated Tremor/Ataxia Syndrome.Cerebellum (London, England) · 2022Article
- Application of Proteomics in Sarcoidosis.American journal of respiratory cell and molecular biology · 2020Review
- High-speed Analysis of Large Sample Sets - How Can This Key Aspect of the Omics Be Achieved?Molecular & cellular proteomics : MCP · 2020Article
- Phosphoproteomics Meets Chemical Genetics: Approaches for Global Mapping and Deciphering the Phosphoproteome.International journal of molecular sciences · 2020Review
- Integrating Genetics and the Plasma Proteome to Predict the Risk of Type 2 Diabetes.Current diabetes reports · 2020Review
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Discovery and validation of plasma biomarkers are quite challenging because of the high complexity and wide dynamic range of the plasma proteome. Current plasma protein profiling strategies usually use major protein immunodepletion and nanoLC-MS/MS as the first and final analytical steps, respectively, but additional fractionation is needed to detect and quantify low-abundance disease biomarkers. In this study, the performances of 1-D SDS-PAGE, peptide isoelectrofocusing, and peptide high pH reverse-phase chromatography for fractionation of immunodepleted human plasma were systematically compared by evaluating protein coverage, peptide resolution, and capacity to detect known low-abundance proteins. Trade-offs between increasing the number of fractions to improve proteome coverage and resulting decreases in throughput also were assessed. High pH reverse-phase HPLC exhibited the highest peptide resolution and yielded the best depth of analysis with detection of the largest number of known low-abundance proteins for a given level of fractionation. Another advantage of using high pH reverse-phase fractionation rather than 1-D SDS gels is that all fractionation steps except for abundant protein depletion occur at the peptide level, making this strategy more compatible with quantitative biomarker validation methods such as stable isotope dilution multiple reaction monitoring.
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Registered trials
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