All Stories

  1. Semantic Annotation of Glycomics and Glycoproteomics Methods
  2. Brief Evaluation of Olink Reveal Proximity Extension Assay for High-Throughput Proteomics: A Case Study Using NIST SRM 1950 and Two Spike-In Protein Standards
  3. Evaluation of Olink Reveal Proximity Extension Assay for High-Throughput Proteomics: A Case Study Using NIST SRM 1950 and Spike-In Protein Standards
  4. Enhancing bio.tools by Semantic Literature Mining
  5. Proteomic and Metabolomic Data Transparency
  6. A Special Software Issue in Celebration of Margaret Dayhoff’s 100th Birthday
  7. Proteomics for food and feed authentication in the circular food chain
  8. Text Mining and Computational Chemistry Reveal Trends in Applications of Laser Desorption/Ionization Techniques to Small Molecules
  9. Quality Control in the Mass Spectrometry Proteomics Core: A Practical Primer
  10. Fish species authentication in commercial fish products using mass spectrometry and spectral library matching approach
  11. Quality Control in the Mass Spectrometry Proteomics Core: a Practical Primer
  12. Tackling reproducibility: lessons for the proteomics community
  13. Benchmarks for Bioinformatics Workflow Bake Offs
  14. WOMBAT-P: Benchmarking Label-Free Proteomics Data Analysis Workflows
  15. WOMBAT-P: Benchmarking Label-Free Proteomics Data Analysis Workflows
  16. 2019 Association of Biomolecular Resource Facilities Multi-Laboratory Data-Independent Acquisition Proteomics Study
  17. An evaluation of EDAM coverage in the Tools Ecosystem and prototype integration of Galaxy and WorkflowHub systems
  18. Toward an Integrated Machine Learning Model of a Proteomics Experiment
  19. 2023 Special Issue on Software Tools and Resources: Accelerating Research with New and Evolving Open Source Software
  20. Capillary electrophoresis - A bibliometric analysis
  21. Text mining and computational chemistry reveal trends in applications and applicability of capillary electrophoresis
  22. ProteomicsML: An Online Platform for Community-Curated Data sets and Tutorials for Machine Learning in Proteomics
  23. Want to Publish in JPR? This Is What You Need to Know!
  24. Large-Scale Interlaboratory DI-FT-ICR MS Comparability Study Employing Various Systems
  25. Semantic Annotation of Experimental Methods in Analytical Chemistry
  26. Machine Learning in Proteomics and Metabolomics
  27. compareMS2 2.0: An Improved Software for Comparing Tandem Mass Spectrometry Datasets
  28. Identification of proteome markers for drug-induced liver injury in zebrafish embryos
  29. Shotgun proteomics approaches for authentication, biological analyses, and allergen detection in feed and food-grade insect species
  30. Interpretation of the DOME Recommendations for Machine Learning in Proteomics and Metabolomics
  31. Comparing novel shotgun DNA sequencing and state-of-the-art proteomics approaches for authentication of fish species in mixed samples
  32. Obituary
  33. Future feed control – Tracing banned bovine material in insect meal
  34. Rewinding the Molecular Clock: Looking at Pioneering Molecular Phylogenetics Experiments in the Light of Proteomics
  35. Perspectives on automated composition of workflows in the life sciences
  36. Further Theoretical Considerations for Next-Generation Proteomics
  37. Theoretical Considerations for Next-Generation Proteomics
  38. 2021 Special Issue on Software Tools and Resources: Finding the Right Tools for the Job
  39. APE in the Wild: Automated Exploration of Proteomics Workflows in the bio.tools Registry
  40. mzRecal: universal MS1 recalibration in mzML using identified peptides in mzIdentML as internal calibrants
  41. Semiautomated glycoproteomics data analysis workflow for maximized glycopeptide identification and reliable quantification
  42. 2019 Association of Biomolecular Resource Facilities Multi-Laboratory Data-Independent Acquisition Study
  43. Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project
  44. A high-stringency blueprint of the human proteome
  45. A Review of the Scientific Rigor, Reproducibility, and Transparency Studies Conducted by the ABRF Research Groups
  46. Community curation of bioinformatics software and data resources
  47. Isotopic Distributions
  48. Retention Time Prediction and Protein Identification
  49. Using the Object-Oriented PowerShell for Simple Proteomics Data Analysis
  50. One Thousand and One Software for Proteomics: Tales of the Toolmakers of Science
  51. Species-Specific Discrimination of Insect Meals for Aquafeeds by Direct Comparison of Tandem Mass Spectra
  52. Palaeoproteomics of bird bones for taxonomic classification
  53. Visual and Semantic Enrichment of Analytical Chemistry Literature Searches by Combining Text Mining and Computational Chemistry
  54. Special Issue on Software Tools and Resources: Acknowledging the Toolmakers of Science
  55. Automated Composition of Scientific Workflows in Mass Spectrometry-Based Proteomics
  56. Semantically Enriched Literature Search Combining Text Mining, QSPR and Ontologies in Scientific Workflows
  57. Visualization and application of amino acid retention coefficients obtained from modeling of peptide retention
  58. Automated workflow composition in mass spectrometry-based proteomics
  59. A protein standard that emulates homology for the characterization of protein inference algorithms
  60. Bibliometric Analyses Reveal Patterns of Collaboration between ASMS Members
  61. A protein standard that emulates homology for the characterization of protein inference algorithms
  62. COMICS: Cartoon Visualization of Omics Data in Spatial Context Using Anatomical Ontologies
  63. Spatiotemporal analysis of tropical disease research combining Europe PMC and affiliation mapping web services
  64. Multiplexed targeted proteomic assay to assess coagulation factor concentrations and thrombosis-associated cancer
  65. A community proposal to integrate proteomics activities in ELIXIR
  66. ABRF Proteome Informatics Research Group (iPRG) 2015 Study: Detection of Differentially Abundant Proteins in Label-Free Quantitative LC–MS/MS Experiments
  67. Human Dendritic Cells with Th2-Polarizing Capacity: Analysis Using Label-Free Quantitative Proteomics
  68. Visualizing and comparing results of different peptide identification methods
  69. Autopiquer - a Robust and Reliable Peak Detection Algorithm for Mass Spectrometry
  70. A full-body transcriptome and proteome resource for the European common carp
  71. Species and tissues specific differentiation of processed animal proteins in aquafeeds using proteomics tools
  72. Automating bibliometric analyses using Taverna scientific workflows: A tutorial on integrating Web Services
  73. Identification of meat products by shotgun spectral matching
  74. A Pipeline for Differential Proteomics in Unsequenced Species
  75. Authentication of Closely Related Fish and Derived Fish Products Using Tandem Mass Spectrometry and Spectral Library Matching
  76. Scientific workflows for bibliometrics
  77. Differentiating samples and experimental protocols by direct comparison of tandem mass spectra
  78. MassyTools: A High-Throughput Targeted Data Processing Tool for Relative Quantitation and Quality Control Developed for Glycomic and Glycoproteomic MALDI-MS
  79. Developments in FTICR-MS and Its Potential for Body Fluid Signatures
  80. Scientific workflow optimization for improved peptide and protein identification
  81. Bibliometric Mapping: Eight Decades of Analytical Chemistry, With Special Focus on the Use of Mass Spectrometry
  82. Assessing the translational landscape of myogenic differentiation by ribosome profiling
  83. Top-Down MALDI-In-Source Decay-FTICR Mass Spectrometry of Isotopically Resolved Proteins
  84. ARA290 Improves Insulin Release and Glucose Tolerance in Type 2 Diabetic Goto-Kakizaki Rats
  85. SPE-MALDI Profiling of Serum Peptides and Proteins by Ultrahigh Resolution FTICR-MS
  86. A new optimization phase for scientific workflow management systems
  87. Structural Analysis of an Intact Monoclonal Antibody by Online Electrochemical Reduction of Disulfide Bonds and Fourier Transform Ion Cyclotron Resonance Mass Spectrometry
  88. PeptidePicker: A scientific workflow with web interface for selecting appropriate peptides for targeted proteomics experiments
  89. Fibronectin is a serum biomarker for Duchenne muscular dystrophy
  90. Identifying Proteins in Zebrafish Embryos Using Spectral Libraries Generated from Dissected Adult Organs and Tissues
  91. Authentication of Fish Products by Large-Scale Comparison of Tandem Mass Spectra
  92. Enhanced Resource Management Enabling Standard Parameter Sweep Jobs for Scientific Applications
  93. Detection and Structural Elucidation of Esterified Oxylipids in Human Synovial Fluid by Electrospray Ionization-Fourier Transform Ion-Cyclotron Mass Spectrometry and Liquid Chromatography-Ion Trap-MS3: Detection of Esterified Hydroxylated Docosapentaen...
  94. Identification of genetic variants influencing the human plasma proteome
  95. Comparison of peptide and protein fractionation methods in proteomics
  96. Parallel deep transcriptome and proteome analysis of zebrafish larvae
  97. Tandem mass spectrometry for species recognition and phenotyping in fish
  98. Use of expressed sequence tags as an alternative approach for the identification of Taenia solium metacestode excretion/secretion proteins
  99. Isotopic Distributions
  100. Simple Proteomics Data Analysis in the Object-Oriented PowerShell
  101. Retention Time Prediction and Protein Identification
  102. Cloud Parallel Processing of Tandem Mass Spectrometry Based Proteomics Data
  103. Proteomic analysis ofTaenia soliummetacestode excretion-secretion proteins
  104. Scientific Workflow Management in Proteomics
  105. Partially Sequenced Organisms, Decoy Searches and False Discovery Rates
  106. Molecular phylogenetics by direct comparison of tandem mass spectra
  107. Fc specific IgG glycosylation profiling by robust nano-reverse phase HPLC-MS using a sheath-flow ESI sprayer interface
  108. Protein Fractionation for Quantitative Plasma Proteomics by Semi-Selective Precipitation
  109. Data Decomposition in Biomedical e-Science Applications
  110. Precision profiling and identification of human serum peptides using Fourier transform ion cyclotron resonance mass spectrometry
  111. P1.49 Mass spectrometry based clinical proteomics for biomarker discovery in Duchenne muscular dystrophy
  112. Protein expression dynamics during Escherichia Coli glucose-lactose diauxie
  113. Quality control based on isotopic distributions for high-throughput MALDI-TOF and MALDI-FTICR serum peptide profiling
  114. Targeted proteomics approach to species-level identification of Bacillus thuringiensis spores by AP-MALDI-MS
  115. A novel mass spectrometry cluster for high-throughput quantitative proteomics
  116. Quantitative metabolism using AMS: Choosing a labeled precursor
  117. “Lossless” compression of high resolution mass spectra of small molecules
  118. Immunoglobulin G Glycopeptide Profiling by Matrix-Assisted Laser Desorption Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry
  119. High Resolution Mass Spectrometry for Rapid Characterization of Combinatorial Peptide Libraries
  120. Alignment of capillary electrophoresis–mass spectrometry datasets using accurate mass information
  121. Improving mass measurement accuracy in mass spectrometry based proteomics by combining open source tools for chromatographic alignment and internal calibration
  122. Electron capture dissociation of peptide hormone changes upon opening of the tocin ring and complexation with transition metal cations
  123. Mass spectrometry in clinical proteomics - from the present to the future
  124. Hydroponic isotope labelling of entire plants (HILEP) for quantitative plant proteomics; an oxidative stress case study
  125. Heat-Shock Response inArabidopsis thalianaExplored by Multiplexed Quantitative Proteomics Using Differential Metabolic Labeling
  126. Chromatographic alignment of LC-MS and LC-MS/MS datasets by genetic algorithm feature extraction
  127. Quantitative proteomics using uniform15N-labeling, MASCOT, and the trans-proteomic pipeline
  128. Biochemical paths in humans and cells: Frontiers of AMS bioanalysis
  129. Liquid matrix deposition on conductive hydrophobic surfaces for tuning and quantitation in UV-MALDI mass spectrometry
  130. Quantitative proteomics of Arabidopsis plants submitted to oxidative stress
  131. Automatic internal calibration in liquid chromatography/Fourier transform ion cyclotron resonance mass spectrometry of protein digests
  132. Mass by Energy Loss Quantitation as a Practical Submicrogram Balance
  133. Quantitation of binding, recovery and desalting efficiency of peptides and proteins in solid phase extraction micropipette tips
  134. Neuroscience and accelerator mass spectrometry
  135. Explorative Study of the Protein Composition of Amniotic Fluid by Liquid Chromatography Electrospray Ionization Fourier Transform Ion Cyclotron Resonance Mass Spectrometry
  136. Protein identification by liquid chromatography–mass spectrometry using retention time prediction
  137. Accelerator Mass Spectrometry in Protein Analysis
  138. Counting Statistics and Ion Interval Density in AMS
  139. α-Particle Energy Loss Measurement of Microgram Depositions of Biomolecules
  140. Electron Donor−Acceptor Dyads Based on Ruthenium(II) Bipyridine and Terpyridine Complexes Bound to Naphthalenediimide
  141. Protein identification in cerebrospinal fluid using packed capillary liquid chromatography Fourier transform ion cyclotron resonance mass spectrometry
  142. Investigation of Lignin Oligomers Using Electrospray Ionisation Mass Spectrometry
  143. Identification and Characterization of Peptides and Proteins Using Fourier Transform Ion Cyclotron Resonance Mass Spectrometry
  144. Prediction of Chromatographic Retention and Protein Identification in Liquid Chromatography/Mass Spectrometry
  145. Rapid Analysis of Tryptically Digested Cerebrospinal Fluid Using Capillary Electrophoresis−Electrospray Ionization−Fourier Transform Ion Cyclotron Resonance−Mass Spectrometry
  146. Liquid chromatography and electron-capture dissociation in Fourier transform ion cyclotron resonance mass spectrometry
  147. Oxidation of Methionine 35 Attenuates Formation of Amyloid beta -Peptide 1-40 Oligomers
  148. Peptide mapping of proteins in human body fluids using electrospray ionization Fourier transform ion cyclotron resonance mass spectrometry
  149. Automatic analysis of hydrogen/deuterium exchange mass spectra of peptides and proteins using calculations of isotopic distributions
  150. Mechanistic studies of multipole storage assisted dissociation
  151. A 9.4 T Fourier transform ion cyclotron resonance mass spectrometer: description and performance
  152. Analysis of enzymatically digested proteins and protein mixtures using a 9.4 Tesla Fourier transform ion cyclotron mass spectrometer
  153. A method to significantly lessen the sample contamination of the vacuum interface of an on-axis electrospray ion source by adding a mechanical shutter
  154. Electron capture dissociation of substance P using a commercially available Fourier transform ion cyclotron resonance mass spectrometer
  155. Retention Time Prediction and Protein Identification
  156. Integrating publications into bioinformatics analysis