Journal of Proteome Research
73 papers in the catalog
73 de novo peptide sequencing papers published in Journal of Proteome Research, catalogued with authors, methods and citation counts.
| 2-year mean citedness | 3.83 |
| h-index | 224 |
| Works indexed | 11196 |
From OpenAlex. The 2-year mean citedness is computed the same way as the Journal Impact Factor, but over the open citation graph.
Papers
- Mass Spectrometry-Based Profiling of Personalized Immunopeptidomes in Thai Renal Cell Carcinoma (2026, peer-reviewed)
- A Framework for Database Search with AI Models in Mass Spectrometry-Based Proteomics (2026, peer-reviewed)
- Improvements to Casanovo, a Deep Learning De Novo Peptide Sequencer (2025, peer-reviewed)
- From Identification to Insight: Making Full Use of the Diagnostic Potential of MS/MS Proteotyping in Clinical Microbiology Using Efficient Bioinformatics (2025, peer-reviewed)
- Do-It-Yourself De Novo Antibody Sequencing Workflow that Achieves Complete Accuracy of the Variable Regions (2025, peer-reviewed)
- Pairwise Attention: Leveraging Mass Differences to Enhance De Novo Sequencing of Mass Spectra (2025, peer-reviewed)
- MARLOWE: An Untargeted Proteomics, Statistical Approach to Taxonomic Classification for Forensics (2025, peer-reviewed)
- Epitope and Paratope Mapping of a SUMO-Remnant Antibody Using Cross-Linking Mass Spectrometry and Molecular Docking (2025, peer-reviewed)
- NovoRank: Refinement for De Novo Peptide Sequencing Based on Spectral Clustering and Deep Learning (2025, peer-reviewed)
- Accounting for Digestion Enzyme Bias in Casanovo (2024, peer-reviewed)
- A Handle on Mass Coincidence Errors in De Novo Sequencing of Antibodies by Bottom-up Proteomics (2024, peer-reviewed)
- Direct Mass Spectrometry-Based Detection and Antibody Sequencing of Monoclonal Gammopathy of Undetermined Significance from Patient Serum: A Case Study (2023, peer-reviewed)
- HyPep: An Open-Source Software for Identification and Discovery of Neuropeptides Using Sequence Homology Search (2023, peer-reviewed)
- Application of a Novel Hybrid CNN-GNN for Peptide Ion Encoding (2023, peer-reviewed)
- Uncovering Hidden Members and Functions of the Soil Microbiome Using De Novo Metaproteomics (2022, peer-reviewed)
- Template-Assisted De Novo Sequencing of SARS-CoV-2 and Influenza Monoclonal Antibodies by Mass Spectrometry (2022, peer-reviewed)
- Systematic Identification of Microproteins during the Development of Drosophila melanogaster (2022, peer-reviewed)
- Mass Spectrometry Provides a Highly Sensitive Noninvasive Means of Sequencing and Tracking M-Protein in the Blood of Multiple Myeloma Patients (2021, peer-reviewed)
- Mass Spectrometry-Based De Novo Sequencing of Monoclonal Antibodies Using Multiple Proteases and a Dual Fragmentation Scheme (2021, peer-reviewed)
- Exploring the Sexual Dimorphism of Crustacean Neuropeptide Expression Using Callinectes sapidus as a Model Organism (2021, peer-reviewed)
- Complementary Methods for de Novo Monoclonal Antibody Sequencing to Achieve Complete Sequence Coverage (2020, peer-reviewed)
- Venom Peptide Repertoire of the European Myrmicine Ant Manica rubida: Identification of Insecticidal Toxins (2020, peer-reviewed)
- Extended Snake Venomics by Top-Down In-Source Decay: Investigating the Newly Discovered Anatolian Meadow Viper Subspecies, Vipera anatolica senliki (2020, peer-reviewed)
- 2018 YPIC Challenge: A Case Study in Characterizing an Unknown Protein Sample (2019, peer-reviewed)
- Multi-Enzymatic Limited Digestion: The Next-Generation Sequencing for Proteomics? (2019, peer-reviewed)
- Deciphering the Molecular Diversity of an Ant Venom Peptidome through a Venomics Approach (2018, peer-reviewed)
- Postnovo: Postprocessing Enables Accurate and FDR-Controlled de Novo Peptide Sequencing (2018, peer-reviewed)
- SearchGUI: A Highly Adaptable Common Interface for Proteomics Search and de Novo Engines (2018, peer-reviewed)
- pSite: Amino Acid Confidence Evaluation for Quality Control of De Novo Peptide Sequencing and Modification Site Localization (2017, peer-reviewed)
- Combining De Novo Peptide Sequencing Algorithms, A Synergistic Approach to Boost Both Identifications and Confidence in Bottom-up Proteomics (2017, peer-reviewed)
- Discovery of Novel Antimicrobial Peptides from Varanus komodoensis (Komodo Dragon) by Large-Scale Analyses and De-Novo-Assisted Sequencing Using Electron-Transfer Dissociation Mass Spectrometry (2017, peer-reviewed)
- Open-pNovo: De Novo Peptide Sequencing with Thousands of Protein Modifications (2017, peer-reviewed)
- De Novo MS/MS Sequencing of Native Human Antibodies (2017, peer-reviewed)
- Application of de Novo Sequencing to Large-Scale Complex Proteomics Data Sets (2016, peer-reviewed)
- Subset of Kappa and Lambda Germline Sequences Result in Light Chains with a Higher Molecular Mass Phenotype (2015, peer-reviewed)
- De Novo Sequencing of Peptides from Top-Down Tandem Mass Spectra (2015, peer-reviewed)
- Mining Novel Allergens from Coconut Pollen Employing Manual De Novo Sequencing and Homology-Driven Proteomics (2015, peer-reviewed)
- Large Scale Discovery and De Novo-Assisted Sequencing of Cationic Antimicrobial Peptides (CAMPs) by Microparticle Capture and Electron-Transfer Dissociation (ETD) Mass Spectrometry (2015, peer-reviewed)
- Venom Proteomics of Indonesian King Cobra, Ophiophagus hannah: Integrating Top-Down and Bottom-Up Approaches (2015, peer-reviewed)
- De Novo Protein Sequencing by Combining Top-Down and Bottom-Up Tandem Mass Spectra (2014, peer-reviewed)
- DeNovoGUI: An Open Source Graphical User Interface for de Novo Sequencing of Tandem Mass Spectra (2014, peer-reviewed)
- Moving Pieces in a Venomic Puzzle: Unveiling Post-translationally Modified Toxins from Tityus serrulatus (2013, peer-reviewed)
- Sequencing-Grade De novo Analysis of MS/MS Triplets (CID/HCD/ETD) From Overlapping Peptides (2013, peer-reviewed)
- pNovo+: De Novo Peptide Sequencing Using Complementary HCD and ETD Tandem Mass Spectra (2013, peer-reviewed)
- Constrained De Novo Sequencing of Conotoxins (2012, peer-reviewed)
- Extensive Characterization of Tupaia belangeri Neuropeptidome Using an Integrated Mass Spectrometric Approach (2012, peer-reviewed)
- A Proteomic Survey of Nonribosomal Peptide and Polyketide Biosynthesis in Actinobacteria (2012, peer-reviewed)
- ScanRanker: Quality Assessment of Tandem Mass Spectra via Sequence Tagging (2011, peer-reviewed)
- Extensive De Novo Sequencing of New Parvalbumin Isoforms Using a Novel Combination of Bottom-Up Proteomics, Accurate Molecular Mass Measurement by FTICR−MS, and Selected MS/MS Ion Monitoring (2010, peer-reviewed)
- Identification of Disulfide Bonds in Protein Proteolytic Degradation Products Using de novo-Protein Unique Sequence Tags Approach (2010, peer-reviewed)
- Analysis of Root Plasma Membrane Aquaporins from Brassica oleracea: Post-Translational Modifications, de novo Sequencing and Detection of Isoforms by High Resolution Mass Spectrometry (2010, peer-reviewed)
- De NovoSequencing of Tryptic Peptides Derived fromDeinococcus radioduransRibosomal Proteins Using 157 nm Photodissociation MALDI TOF/TOF Mass Spectrometry (2010, peer-reviewed)
- pNovo: De novo Peptide Sequencing and Identification Using HCD Spectra (2010, peer-reviewed)
- A Hybrid, de Novo Based, Genome-Wide Database Search Approach Applied to the Sea Urchin Neuropeptidome (2010, peer-reviewed)
- A Ranking-Based Scoring Function for Peptide-Spectrum Matches (2009, peer-reviewed)
- DirecTag: Accurate Sequence Tags from Peptide MS/MS through Statistical Scoring (2008, peer-reviewed)
- Proteomics of Multigenic Families from Species Underrepresented in Databases: The Case of Loquat (Eriobotrya japonica Lindl.) Polyphenol Oxidases (2008, peer-reviewed)
- A Hybrid Method for Peptide Identification Using Integer Linear Optimization, Local Database Search, and Quadrupole Time-of-Flight or OrbiTrap Tandem Mass Spectrometry (2008, peer-reviewed)
- Proteome Analysis of Pitcher Fluid of the Carnivorous Plant Nepenthes alata (2008, peer-reviewed)
- Rapid and Reliable Peptide de Novo Sequencing Facilitated by Microfluidic Chip-Based Edman Degradation (2008, peer-reviewed)
- De Novo Mass Spectrometry Sequencing and Characterization of Species-Specific Peptides from Nucleoside Diphosphate Kinase B for the Classification of Commercial Fish Species Belonging to the Family Merlucciidae (2007, peer-reviewed)
- Relative Specificities of Water and Ammonia Losses from Backbone Fragments in Collision-Activated Dissociation (2007, peer-reviewed)
- Metaproteomic Analysis of a Bacterial Community Response to Cadmium Exposure (2007, peer-reviewed)
- De Novo Peptide Sequencing and Identification with Precision Mass Spectrometry (2007, peer-reviewed)
- Functional Proteome Analysis of the Banana Plant (Musa spp.) Using de Novo Sequence Analysis of Derivatized Peptides (2007, peer-reviewed)
- Performance Evaluation of Existing De Novo Sequencing Algorithms (2006, peer-reviewed)
- Rapid Validation of Protein Identifications with the Borderline Statistical Confidence via De Novo Sequencing and MS BLAST Searches (2006, peer-reviewed)
- Proteomics-Grade de Novo Sequencing Approach (2005, peer-reviewed)
- AUDENS: A Tool for Automated Peptide de Novo Sequencing (2005, peer-reviewed)
- Peptide Sequence Tags for Fast Database Search in Mass-Spectrometry (2005, peer-reviewed)
- Identification of Protein Modifications Using MS/MS de Novo Sequencing and the OpenSea Alignment Algorithm (2005, peer-reviewed)
- Enhancing TOF/TOF-based de Novo Sequencing Capability for High Throughput Protein Identification with Amino Acid-Coded Mass Tagging (2005, peer-reviewed)
- Two-Dimensional Mass Spectra Generated from the Analysis of 15N-Labeled and Unlabeled Peptides for Efficient Protein Identification and de novo Peptide Sequencing (2004, peer-reviewed)