Dual proteome-scale networks reveal cell-specific remodeling of the human interactome

Edward L. Huttlin, Raphael J. Bruckner, José Navarrete-Perea, +25

Cell

Signal TransductionDual Proteome-scale NetworksCell DivisionInteractomicsMedicine +10

Streamlined Tandem Mass Tag (SL-TMT) Protocol: An Efficient Strategy for Quantitative (Phospho)proteome Profiling Using Tandem Mass Tag-Synchronous Precursor Selection-MS3

José Navarrete-Perea, Qing Yu, Steven P. Gygi, +1

Journal of Proteome Research

Biological Mass SpectrometryMolecular BiologyProteomic TechnologyTandem Mass TagBiomarker Discovery +15

Full-Featured, Real-Time Database Searching Platform Enables Fast and Accurate Multiplexed Quantitative Proteomics

Devin K. Schweppe, Jimmy K. Eng, Qing Yu, +7

Journal of Proteome Research

Biological Mass SpectrometryMolecular BiologyBioinformatics DatabaseProteomic TechnologyMultiplexed Quantitative Experiments +14

PCIF1 Catalyzes m6Am mRNA Methylation to Regulate Gene Expression

Erdem Sendinc, David Valle‐García, Abhinav Dhall, +7

Molecular Cell

Transcriptional RegulationMedicineNatural SciencesEpigenetic ChangeEpigenomics +5

Characterization and Optimization of Multiplexed Quantitative Analyses Using High-Field Asymmetric-Waveform Ion Mobility Mass Spectrometry

Devin K. Schweppe, Satendra Prasad, Michael W. Belford, +12

Analytical Chemistry

Active Instrument Engagement Combined with a Real-Time Database Search for Improved Performance of Sample Multiplexing Workflows

Brian K. Erickson, Julian Mintseris, Devin K. Schweppe, +5

Journal of Proteome Research

Sample multiplexing for targeted pathway proteomics in aging mice

Qing Yu, Haopeng Xiao, Mark P. Jedrychowski, +6

Proceedings of the National Academy of Sciences

BioinformaticsProteomic TechnologyDeep FractionationPathway ProteomicsMedicine +12

Dual Proteome-scale Networks Reveal Cell-specific Remodeling of the Human Interactome

Edward L. Huttlin, Raphael J. Bruckner, José Navarrete-Perea, +23

Molecular BiologyCytoskeletonProteomic TechnologyCell InteractionBiological Network +15

Benchmarking the Orbitrap Tribrid Eclipse for Next Generation Multiplexed Proteomics

Qing Yu, João A. Paulo, José Navarrete-Perea, +8

Analytical Chemistry

Assessing target engagement using proteome-wide solvent shift assays

Jonathan G. Van Vranken, Jiaming Li, Dylan C. Mitchell, +2

eLife

Quantitative ProteomicsProtein ChemistryProteomic TechnologyModern Quantitative ProteomicsBiochemistry +12