OOIR: Observatory of International Research

Papers

(The H4-Index of Journal of Proteome Research is 38. The table below lists those papers that are above that threshold based on CrossRef citation counts [max. 250 papers]. The publications cover those that have been published in the past four years, i.e., from 2020-11-01 to 2024-11-01.)

Article	Citations
TMTpro-18plex: The Expanded and Complete Set of TMTpro Reagents for Sample Multiplexing	193
Multiplatform Approach for Plasma Proteomics: Complementarity of Olink Proximity Extension Assay Technology to Mass Spectrometry-Based Protein Profiling	123
Advances and Utility of the Human Plasma Proteome	116
Fast Deisotoping Algorithm and Its Implementation in the MSFragger Search Engine	108
Incomplete Systemic Recovery and Metabolic Phenoreversion in Post-Acute-Phase Nonhospitalized COVID-19 Patients: Implications for Assessment of Post-Acute COVID-19 Syndrome	90
Systemic Perturbations in Amine and Kynurenine Metabolism Associated with Acute SARS-CoV-2 Infection and Inflammatory Cytokine Responses	80
Protein Contaminants Matter: Building Universal Protein Contaminant Libraries for DDA and DIA Proteomics	78
An Introduction to Mass Spectrometry-Based Proteomics	76
Improved Monoisotopic Mass Estimation for Deeper Proteome Coverage	66
Single-Shot 10K Proteome Approach: Over 10,000 Protein Identifications by Data-Independent Acquisition-Based Single-Shot Proteomics with Ion Mobility Spectrometry	63
NMR Spectroscopic Windows on the Systemic Effects of SARS-CoV-2 Infection on Plasma Lipoproteins and Metabolites in Relation to Circulating Cytokines	63
Cleavable Cross-Linkers and Mass Spectrometry for the Ultimate Task of Profiling Protein–Protein Interaction Networks in Vivo	63
A Preprocessing Tool for Enhanced Ion Mobility–Mass Spectrometry-Based Omics Workflows	60
Early Breast Cancer Detection Using Untargeted and Targeted Metabolomics	57
Evaluating the Performance of the Astral Mass Analyzer for Quantitative Proteomics Using Data-Independent Acquisition	55
Protein–DNA/RNA Interactions: An Overview of Investigation Methods in the -Omics Era	55
Extensive and Accurate Benchmarking of DIA Acquisition Methods and Software Tools Using a Complex Proteomic Standard	54
Peptidomics: A Review of Clinical Applications and Methodologies	51
Optimizing Accuracy and Depth of Protein Quantification in Experiments Using Isobaric Carriers	50
Cytoscape stringApp 2.0: Analysis and Visualization of Heterogeneous Biological Networks	49
Putting Humpty Dumpty Back Together Again: What Does Protein Quantification Mean in Bottom-Up Proteomics?	49
Improved Prediction Model of Protein Lysine Crotonylation Sites Using Bidirectional Recurrent Neural Networks	48
In Search of a Universal Method: A Comparative Survey of Bottom-Up Proteomics Sample Preparation Methods	46
Ubiquitin-Modified Proteome of SARS-CoV-2-Infected Host Cells Reveals Insights into Virus–Host Interaction and Pathogenesis	46
Driving Single Cell Proteomics Forward with Innovation	44

Improved SILAC Quantification with Data-Independent Acquisition to Investigate Bortezomib-Induced Protein Degradation	43
ClipsMS: An Algorithm for Analyzing Internal Fragments Resulting from Top-Down Mass Spectrometry	43
Ultrafast and Reproducible Proteomics from Small Amounts of Heart Tissue Enabled by Azo and timsTOF Pro	42
Protein Footprinting via Covalent Protein Painting Reveals Structural Changes of the Proteome in Alzheimer’s Disease	41
Enrichment of Neurodegenerative Microglia Signature in Brain-Derived Extracellular Vesicles Isolated from Alzheimer’s Disease Mouse Models	41
Zirconium(IV)-IMAC Revisited: Improved Performance and Phosphoproteome Coverage by Magnetic Microparticles for Phosphopeptide Affinity Enrichment	40
Effect of Very-Low-Calorie Ketogenic Diet on Psoriasis Patients: A Nuclear Magnetic Resonance-Based Metabolomic Study	40
Extending the Depth of Human Plasma Proteome Coverage Using Simple Fractionation Techniques	40
mokapot: Fast and Flexible Semisupervised Learning for Peptide Detection	39
Trans-Proteomic Pipeline: Robust Mass Spectrometry-Based Proteomics Data Analysis Suite	39
PPI-Affinity: A Web Tool for the Prediction and Optimization of Protein–Peptide and Protein–Protein Binding Affinity	39
Multi-protease Approach for the Improved Identification and Molecular Characterization of Small Proteins and Short Open Reading Frame-Encoded Peptides	38
Mass Spectrometry-Based De Novo Sequencing of Monoclonal Antibodies Using Multiple Proteases and a Dual Fragmentation Scheme	38
Enhancing Top-Down Proteomics of Brain Tissue with FAIMS	38