Practical Guide: Which Journals Should You Target for Proteomics Publications? | Proteomics Special Topic

Statistical analysis of the top 20 journals by publication volume shows that leading proteomics journals and integrated omics journals dominate the list, with an average impact factor (IF) of 7.632 and a median IF of 6.281. Using “Diabetes” as the keyword for diabetes, a search of proteomics articles published between 2017 and 2021 retrieved 2,211 papers; overall annual publication numbers increased year-on-year, with a notable surge in 2020. Among the top 20 journals by publication volume, proteomics-focused journals, general omics journals, and diabetes-specific journals predominate, with an average IF of 7.349 and a median IF of 5.501. Using “cardiovascular diseases” as the keyword for cardiovascular disease, a search of proteomics articles published between 2017 and 2021 retrieved 2,565 papers; annual publication counts remained relatively stable across 2017–2021, consistently exceeding 400 papers per year. Among the top 20 journals by publication volume, proteomics-focused journals, cardiovascular-focused journals, and general journals prevail—including top-tier cardiovascular journals such as Circulation Research and JACC—with an average IF of 9.213 and a median IF of 5.406. Using “plant” as the keyword for plant research, a search of articles published between 2017 and 2021 retrieved 6,454 papers; annual publication numbers also increased steadily year-on-year. Among the top 20 journals by publication volume, proteomics-focused journals and plant science journals predominate, with an average IF of 5.416 and a median IF of 4.845. 4. Journals by Impact Factor (IF) Range A detailed list of journals—whose IF ranges and numbers of proteomics publications (≥20 papers each) were extracted from 10,000 articles published between 2017 and 2021—is provided in the table below. This information offers valuable reference for journal selection based on both IF and publication volume. 5. Submission Recommendations and Commentary Currently, mainstream proteomics journals—including MCP (Molecular & Cellular Proteomics), JPR (Journal of Proteome Research), JP (Journal of Proteomics), and Proteomics—impose stringent requirements on the rigor of large-scale proteomics data. All mandate explicit documentation—in either the main text or supplementary materials—of experimental design and data analysis details. Novelty of the research topic, rigor of experimental design, and comprehensive molecular mechanism elucidation and functional validation are key determinants for successful publication in proteomics. Below is a brief introduction to selected journals, categorized into three tiers: 1) Tier-1 Journals (IF > 10): Omics journals: Molecular Systems Biology, Nature Genetics, etc. Multidisciplinary journals: Cell, Nature, Science, Nature Communications, PNAS, Molecular Cell, Cell Research, etc.

Common Research Paradigms in Proteomics | Proteomics Special Topic

Proteomics is a scientific discipline focused on the proteome—the complete set of proteins expressed by a cell, tissue, or organism—and investigates the composition of proteins and their dynamic changes over time. Proteomics technologies enable large-scale characterization of protein features, including expression levels, post-translational modifications, and protein–protein interactions, thereby providing holistic and comprehensive insights into biological processes such as disease pathogenesis and cellular metabolism. This special topic centers on an introduction to proteomics technologies and their applications, covering principles and technical advantages of relative and absolute protein quantification methods, protein modification analysis, common proteomics research paradigms, considerations for protein sample preparation, and interpretations of classic case studies. Today’s content focuses specifically on common proteomics research paradigms. Let’s begin our learning journey! There are two primary proteomics research paradigms: 1. Identifying novel biomarkers associated with disease onset and progression; 2. Integrating proteomics with other omics approaches to construct expression profiles and decipher molecular mechanisms underlying specific diseases or research themes. Novel Protein Biomarker Discovery Examples of funded projects centered on novel protein biomarker discovery: 1. Blood-based biomarker research for early diagnosis of Alzheimer’s disease using iTRAQ technology. 2. Targeted proteomics validation of serum biomarkers for hepatocellular carcinoma using SISCAPA-MRM technology. 3. Serum biomarker–trastuzumab efficacy correlation and underlying molecular mechanisms investigated via mass spectrometry–based pharmacoproteomics. 4. Screening for early molecular diagnostic biomarkers of acute aortic dissection using proteomics. 5. Pharmacoproteomics and Alzheimer’s disease (AD) biomarker and novel drug target discovery. 6. Screening and identification of serum biomarkers associated with Traditional Chinese Medicine (TCM) syndromes in pediatric asthma using stable isotope labeling–based quantitative proteomics. 7. Zinc deficiency biomarker screening and metabolic pathway analysis using integrated metabolomics and proteomics. 8. Extraction and mechanistic investigation of chemotherapy resistance biomarkers in ovarian cancer using proteomics. Biomarker Discovery Tips: 1. Discovery Set: Small sample size (≥20) of serum/plasma/urine exosomes for proteomic profiling; 2. Validation with Alternative Methods: First-round screening yields ~100 differentially expressed candidates; second-round screening narrows this down to ~20 candidate biomarkers.

Journal of Proteome Research Announces Next Editor in Chief

1 day ago

The American Chemical Society has appointed Michael J. MacCoss as the next editor in chief of the Journal of Proteome Research, effective January 1, 2027. MacCoss is recognized for his contributions to quantitative proteomics and open science.

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2026-10-22

Journal of Proteome Research Announces Next Editor in Chief

Journal of Proteome Research Announces Next Editor in Chief

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