All Stories

  1. Understanding m/z range settings for MS/MS scans: a case study with intact glycopeptides

    Article • October 2025, American Chemical Society (ACS)

    Dr Nicholas M Riley

  2. Profiling glycoproteins enriched by surface-functionalized nanoparticles

    Article • September 2025, American Chemical Society (ACS)

    Dr Nicholas M Riley

  3. Sialoglycans on human T cells attenuate death programs executed through the Fas pathway

    Article • September 2025, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  4. Accelerating the stride toward functional glycoproteomics

    Article • Trends in Biochemical Sciences, July 2025, Elsevier

    Dr Nicholas M Riley

  5. Improvements in Glycoproteomics through Architecture Changes to the Orbitrap Tribrid MS Platform

    Article • Analytical Chemistry, May 2025, American Chemical Society (ACS)

    Dr Nicholas M Riley

  6. Publisher Correction: irCLIP-RNP and Re-CLIP reveal patterns of dynamic protein assemblies on RNA

    Article • Nature, April 2025, Springer Science + Business Media

    Dr Nicholas M Riley

  7. Understanding m/z range settings for MS/MS scans: a case study with intact glycopeptides

    Article • April 2025, American Chemical Society (ACS)

    Dr Nicholas M Riley

  8. irCLIP-RNP and Re-CLIP reveal patterns of dynamic protein assemblies on RNA

    Article • Nature, March 2025, Springer Science + Business Media

    Dr Nicholas M Riley

  9. Extracting informative glycan-specific ions from glycopeptide MS/MS spectra with GlyCounter

    Article • March 2025, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  10. Revisiting the Effect of Trypsin Digestion Buffers on Artificial Deamidation

    Article • Journal of the American Society for Mass Spectrometry, January 2025, American Chemical Society (ACS)

    Dr Nicholas M Riley

  11. Autonomous Dissociation-type Selection for Glycoproteomics Using a Real-Time Library Search

    Article • Journal of Proteome Research, November 2024, American Chemical Society (ACS)

    Dr Nicholas M Riley

  12. Sialylated glycoproteins suppress immune cell killing by binding to Siglec-7 and Siglec-9 in prostate cancer

    Article • Journal of Clinical Investigation, October 2024, American Society for Clinical Investigation

    Dr Nicholas M Riley

  13. “Comparative Analysis of Glycoproteomic Software Using a Tailored Glycan Database”

    Article • July 2024, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  14. Instrumentation at the Leading Edge of Proteomics

    Article • Analytical Chemistry, May 2024, American Chemical Society (ACS)

    Dr Nicholas M Riley

  15. Instrumentation at the leading edge of proteomics

    Article • April 2024, American Chemical Society (ACS)

    Dr Nicholas M Riley

  16. Instrumentation at the leading edge of proteomics

    Article • November 2023, American Chemical Society (ACS)

    Dr Nicholas M Riley

  17. Microglia Mediate Contact-Independent Neuronal Network Remodeling via Secreted Neuraminidase-3 Associated with Extracellular Vesicles

    Article • ACS Central Science, October 2023, American Chemical Society (ACS)

    Dr Nicholas M Riley

  18. Elucidating the cellular determinants of targeted membrane protein degradation by lysosome-targeting chimeras

    Article • Science, October 2023, American Association for the Advancement of Science

    Dr Nicholas M Riley

  19. Galectin-3 does not interact with RNA directly

    Article • Glycobiology, October 2023, Oxford University Press (OUP)

    Dr Nicholas M Riley

  20. Microglia mediate contact-independent neuronal pruning via secreted Neuraminidase-3 associated with extracellular vesicles

    Article • August 2023, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  21. Design of a mucin-selective protease for targeted degradation of cancer-associated mucins

    Article • Nature Biotechnology, August 2023, Springer Science + Business Media

    Dr Nicholas M Riley

  22. Organism-wide, cell-type-specific secretome mapping of exercise training in mice

    Article • Cell Metabolism, July 2023, Elsevier

    Dr Nicholas M Riley

  23. The microenvironment dictates glycocalyx construction and immune surveillance

    Article • June 2023, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  24. Mutational screens highlight glycosylation as a modulator of colony-stimulating factor 3 receptor (CSF3R) activity

    Article • Journal of Biological Chemistry, June 2023, Elsevier

    Dr Nicholas M Riley

  25. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  26. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  27. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  28. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  29. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  30. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  31. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  32. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  33. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  34. Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  35. Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  36. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  37. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  38. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  39. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  40. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  41. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  42. Supplementary Data from Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • March 2023, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  43. MYC-driven synthesis of Siglec ligands is a glycoimmune checkpoint

    Article • Proceedings of the National Academy of Sciences, March 2023, Proceedings of the National Academy of Sciences

    Dr Nicholas M Riley

  44. The 2022 Nobel Prize in Chemistry—sweet!

    Article • Glycobiology, March 2023, Oxford University Press (OUP)

    Dr Nicholas M Riley

  45. Measuring the multifaceted roles of mucin-domain glycoproteins in cancer

    Article • January 2023, Elsevier

    Dr Nicholas M Riley

  46. Organism-wide secretome mapping uncovers pathways of tissue crosstalk in exercise

    Article • November 2022, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  47. Deciphering O-glycoprotease substrate preferences with O-Pair Search

    Article • November 2022, American Chemical Society (ACS)

    Dr Nicholas M Riley

  48. Antibody-lectin chimeras for glyco-immune checkpoint blockade

    Article • October 2022, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  49. The human disease gene LYSET is essential for lysosomal enzyme transport and viral infection

    Article • Science, October 2022, American Association for the Advancement of Science

    Dr Dominic Winter, Dr Nicholas M Riley

  50. Lysosomal cathepsin D mediates endogenous mucin glycodomain catabolism in mammals

    Article • Proceedings of the National Academy of Sciences, September 2022, Proceedings of the National Academy of Sciences

    Dr Nicholas M Riley

  51. Deciphering O-glycoprotease substrate preferences with O-Pair Search

    Article • September 2022, American Chemical Society (ACS)

    Dr Nicholas M Riley

  52. Glycoproteomics

    Article • Nature Reviews Methods Primers, June 2022, Springer Science + Business Media

    Dr Nicholas M Riley

  53. Revealing the human mucinome

    Article • Nature Communications, June 2022, Springer Science + Business Media

    Dr Nicholas M Riley

  54. Targeting hypersialylation in multiple myeloma represents a novel approach to enhance NK cell–mediated tumor responses

    Article • Blood Advances, June 2022, American Society of Hematology

    Dr Nicholas M Riley

  55. Design of a mucin-selective protease for targeted degradation of cancer-associated mucins

    Article • May 2022, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  56. Structure-guided mutagenesis of a mucin-selective metalloprotease from Akkermansia muciniphila alters substrate preferences

    Article • Journal of Biological Chemistry, May 2022, Elsevier

    Dr Nicholas M Riley

  57. Deciphering O-glycoprotease substrate preferences with O-Pair Search

    Article • Molecular Omics, January 2022, Royal Society of Chemistry

    Dr Nicholas M Riley

  58. Practical Effects of Intramolecular Hydrogen Rearrangement in Electron Transfer Dissociation-Based Proteomics

    Article • Journal of the American Society for Mass Spectrometry, December 2021, American Chemical Society (ACS)

    Dr Nicholas M Riley

  59. Multiomics Analysis of Spatially Distinct Stromal Cells Reveals Tumor-Induced O-Glycosylation of the CDK4–pRB Axis in Fibroblasts at the Invasive Tumor Edge

    Article • Cancer Research, December 2021, American Association for Cancer Research (AACR)

    Dr Nicholas M Riley

  60. Protocol for cell type-specific labeling, enrichment, and proteomic profiling of plasma proteins in mice

    Article • STAR Protocols, December 2021, Elsevier

    Dr Nicholas M Riley

  61. The CD22-IGF2R interaction is a therapeutic target for microglial lysosome dysfunction in Niemann-Pick type C

    Article • Science Translational Medicine, December 2021, American Association for the Advancement of Science

    Dr Nicholas M Riley

  62. LYTACs that engage the asialoglycoprotein receptor for targeted protein degradation

    Article • Nature Chemical Biology, March 2021, Springer Science + Business Media

    Dr Nicholas M Riley

  63. Synthetic Siglec-9 Agonists Inhibit Neutrophil Activation Associated with COVID-19

    Article • ACS Central Science, March 2021, American Chemical Society (ACS)

    Dr Nicholas M Riley

  64. Revealing the human mucinome

    Article • January 2021, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  65. Genome-wide CRISPR screens reveal a specific ligand for the glycan-binding immune checkpoint receptor Siglec-7

    Article • Proceedings of the National Academy of Sciences, January 2021, Proceedings of the National Academy of Sciences

    Dr Nicholas M Riley

  66. Modulation of immune cell reactivity with cis -binding Siglec agonists

    Article • Proceedings of the National Academy of Sciences, January 2021, Proceedings of the National Academy of Sciences

    Dr Nicholas M Riley

  67. A Pragmatic Guide to Enrichment Strategies for Mass Spectrometry–Based Glycoproteomics

    Article • Molecular & Cellular Proteomics, January 2021, Elsevier

    Dr Nicholas M Riley

  68. Synthetic Siglec-9 Agonists Inhibit Neutrophil Activation Associated with COVID-19

    Article • December 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  69. Cell type-selective secretome profiling in vivo

    Article • Nature Chemical Biology, November 2020, Springer Science + Business Media

    Dr Nicholas M Riley

  70. Electron-Based Dissociation Is Needed for O-Glycopeptides Derived from OpeRATOR Proteolysis

    Article • Analytical Chemistry, October 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  71. O-Pair Search with MetaMorpheus for O-glycopeptide characterization

    Article • Nature Chemical Biology, October 2020, Springer Science + Business Media

    Dr Nicholas M Riley

  72. Cell type-selective secretome profiling in vivo

    Article • September 2020, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  73. Optical Fiber-Enabled Photoactivation of Peptides and Proteins

    Article • Analytical Chemistry, August 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  74. Lysosome Targeting Chimeras (LYTACs) That Engage a Liver-Specific Asialoglycoprotein Receptor for Targeted Protein Degradation

    Article • July 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  75. Lysosome-targeting chimaeras for degradation of extracellular proteins

    Article • Nature, July 2020, Springer Science + Business Media

    Dr Nicholas M Riley

  76. Electron-Based Dissociation Is Needed for O-Glycopeptides Derived from OpeRATOR Proteolysis

    Article • July 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  77. Top-Down Characterization of an Intact Monoclonal Antibody Using Activated Ion Electron Transfer Dissociation

    Article • Analytical Chemistry, July 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  78. Optimal Dissociation Methods Differ for N- and O-Glycopeptides

    Article • Journal of Proteome Research, June 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  79. Optimal Dissociation Methods Differ for N- and O-glycopeptides

    Article • May 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  80. O-Pair Search with MetaMorpheus for O-glycopeptide Characterization

    Article • May 2020, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  81. Optimal Dissociation Methods Differ for N- and O-glycopeptides

    Article • April 2020, American Chemical Society (ACS)

    Dr Nicholas M Riley

  82. Broad and thematic remodeling of the surfaceome and glycoproteome on isogenic cells transformed with driving proliferative oncogenes

    Article • Proceedings of the National Academy of Sciences, March 2020, Proceedings of the National Academy of Sciences

    Dr Nicholas M Riley

  83. Lysosome Targeting Chimeras (LYTACs) for the Degradation of Secreted and Membrane Proteins

    Article • November 2019, American Chemical Society (ACS)

    Dr Nicholas M Riley

  84. Broad and thematic remodeling of the surface glycoproteome on isogenic cells transformed with driving proliferative oncogenes

    Article • October 2019, Cold Spring Harbor Laboratory Press

    Dr Nicholas M Riley

  85. Mutating stress-defense regulators in yeast improves biofuels engineering

    Article • PLOS One, May 2019, PLOS

    Dr Nicholas M Riley, Audrey Gasch

  86. Interactive Peptide Spectral Annotator: A Versatile Web-Based Tool for Proteomic Applications

    Article • Molecular & Cellular Proteomics, May 2019, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Nicholas M Riley

  87. Lysosome Targeting Chimeras (LYTACs) for the Degradation of Secreted and Membrane Proteins

    Article • March 2019, American Chemical Society (ACS)

    Dr Nicholas M Riley

  88. Lysosome Targeting Chimeras (LYTACs) for the Degradation of Secreted and Membrane Proteins

    Article • March 2019, American Chemical Society (ACS)

    Dr Nicholas M Riley

  89. Capturing site-specific heterogeneity with large-scale N-glycoproteome analysis

    Article • Nature Communications, March 2019, Springer Science + Business Media

    Dr Nicholas M Riley

  90. Rewired cellular signaling coordinates sugar and hypoxic responses for anaerobic xylose fermentation in yeast

    Article • PLoS Genetics, March 2019, PLOS

    Dr Nicholas M Riley, Audrey Gasch

  91. Top-Down Characterization of Proteins with Intact Disulfide Bonds Using Activated-Ion Electron Transfer Dissociation

    Article • Analytical Chemistry, July 2018, American Chemical Society (ACS)

    Dr Nicholas M Riley

  92. The Value of Activated Ion Electron Transfer Dissociation for High-Throughput Top-Down Characterization of Intact Proteins

    Article • Analytical Chemistry, June 2018, American Chemical Society (ACS)

    Dr Nicholas M Riley

  93. Improved Precursor Characterization for Data-Dependent Mass Spectrometry

    Article • Analytical Chemistry, January 2018, American Chemical Society (ACS)

    Dr Nicholas M Riley

  94. The Role of Electron Transfer Dissociation in Modern Proteomics

    Article • Analytical Chemistry, December 2017, American Chemical Society (ACS)

    Dr Nicholas M Riley

  95. Sequencing Larger Intact Proteins (30-70 kDa) with Activated Ion Electron Transfer Dissociation

    Article • Journal of the American Society for Mass Spectrometry, October 2017, Springer Science + Business Media

    Dr Nicholas M Riley

  96. Activated Ion-Electron Transfer Dissociation Enables Comprehensive Top-Down Protein Fragmentation

    Article • Journal of Proteome Research, June 2017, American Chemical Society (ACS)

    Dr Nicholas M Riley

  97. Negative Electron Transfer Dissociation Sequencing of Increasingly Sulfated Glycosaminoglycan Oligosaccharides on an Orbitrap Mass Spectrometer

    Article • Journal of the American Society for Mass Spectrometry, June 2017, Springer Science + Business Media

    Dr Nicholas M Riley

  98. Implementation of Activated Ion Electron Transfer Dissociation on a Quadrupole-Orbitrap-Linear Ion Trap Hybrid Mass Spectrometer

    Article • Analytical Chemistry, April 2017, American Chemical Society (ACS)

    Dr Nicholas M Riley

  99. Phosphoproteomics with Activated Ion Electron Transfer Dissociation

    Article • Analytical Chemistry, April 2017, American Chemical Society (ACS)

    Dr Nicholas M Riley

  100. Sulfur Pentafluoride is a Preferred Reagent Cation for Negative Electron Transfer Dissociation

    Article • Journal of the American Society for Mass Spectrometry, March 2017, Springer Science + Business Media

    Dr Nicholas M Riley

  101. Multi-omics Evidence for Inheritance of Energy Pathways in Red Blood Cells

    Article • Molecular & Cellular Proteomics, October 2016, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Nicholas M Riley

  102. Full-Featured Search Algorithm for Negative Electron-Transfer Dissociation

    Article • Journal of Proteome Research, July 2016, American Chemical Society (ACS)

    Dr Nicholas M Riley

  103. Genome Sequence and Analysis of a Stress-Tolerant, Wild-Derived Strain of Saccharomyces cerevisiae Used in Biofuels Research

    Article • G3 Genes Genomes Genetics, April 2016, Genetics Society of America

    Dr Nicholas M Riley, Dr Oleg V Moskvin

  104. Proteomics Moves into the Fast Lane

    Article • Cell Systems, March 2016, Elsevier

    Dr Nicholas M Riley

  105. Mitochondrial protein hyperacetylation in the failing heart

    Article • JCI Insight, February 2016, American Society for Clinical Investigation

    Dr Nicholas M Riley

  106. Enhanced Dissociation of Intact Proteins with High Capacity Electron Transfer Dissociation

    Article • Journal of the American Society for Mass Spectrometry, November 2015, Springer Science + Business Media

    Dr Nicholas M Riley

  107. Phosphoproteomics in the Age of Rapid and Deep Proteome Profiling

    Article • Analytical Chemistry, November 2015, American Chemical Society (ACS)

    Dr Nicholas M Riley

  108. The Negative Mode Proteome with Activated Ion Negative Electron Transfer Dissociation (AI-NETD)

    Article • Molecular & Cellular Proteomics, July 2015, American Society for Biochemistry & Molecular Biology (ASBMB)

    Dr Nicholas M Riley

  109. A Calibration Routine for Efficient ETD in Large-Scale Proteomics

    Article • Journal of the American Society for Mass Spectrometry, June 2015, Springer Science + Business Media

    Dr Nicholas M Riley

  110. Activated Ion Electron Transfer Dissociation for Improved Fragmentation of Intact Proteins

    Article • Analytical Chemistry, June 2015, American Chemical Society (ACS)

    Dr Nicholas M Riley

  111. Coupling Capillary Zone Electrophoresis with Electron Transfer Dissociation and Activated Ion Electron Transfer Dissociation for Top-Down Proteomics

    Article • Analytical Chemistry, May 2015, American Chemical Society (ACS)

    Dr Nicholas M Riley

  112. Neutron-Encoded Mass Signatures for Quantitative Top-Down Proteomics

    Article • Analytical Chemistry, February 2014, American Chemical Society (ACS)

    Timothy W Rhoads, Dr Nicholas M Riley