Keck Mass Spectrometry & Proteomics Resource

We provide efficient and cost-effective proteomics and state-of-the-art small-molecule mass spectrometry-based services.

Core Website

TuKiet Lam, PhD


About the core

The Keck Mass Spectrometry (MS) & Proteomics Resource at the Yale School of Medicine provides efficient and cost-effective proteomics and small-molecule mass spectrometry-based services. Besides our many standard operating procedures, we also bring state-of-the-art mass spectrometry-based biotechnologies in response to the input and requests of our users. These technologies are developed and implemented with a broad spectrum of mass spectrometry-based techniques and protein/peptide/small-molecule chemistries to separate, characterize, profile, and quantify analytes from and array of complex biological samples.

Services in brief

  • Protein ID from gel bands or immunoprecipitated workflow
  • Protein ID from complex solution (e.g. tissue, cells, biological fluids, etc.)
  • Protein post-translational modification (PTM) identification
  • Protein profiling and quantitation (label-free quantitation, SILAC)
  • High-resolution (HR) MS for small molecule and structural elucidation
  • Targeted proteomics (PRM)
  • Targeted small molecule quantitation (MRM)


  • ACQUITY M-Class UPLC coupled to Q-Exactive HFX mass spectrometer
  • NanoACQUITY UPLC coupled to Q-Exactive Plus mass spectrometer
  • NanoACQUITY UPLC coupled to Orbitrap Fusion Tribrid mass spectrometer
  • Agilent 1200 HPLC coupled to 4000 QTRAP Triple quadrupole mass spectrometer
  • ACQUITY H-Class UPLC with fraction collector

Services in detail

Protein/peptide fractionation

  • Reverse-phase HPLC (high or low pH)
  • Strong cation exchange HPLC

Post-translational modifications (PTMs)

  • Phosphorylation & phosphoproteomics
    • Phosphopeptides enrichment
    • Phosphorylation site identification
    • Global phosphor protein identification
  • Palmitoylation
  • Ubiquitination/SUMOylation
  • Acetylation, methylation, and dimethylation
  • Other chemical modifications (e.g., covalently bound irreversible molecule)

Protein identification

  • Bottom-up LC MS/MS
  • Multi-dimensional protein identification technology (MudPIT)
  • IP and Co-IP protein identification
  • Cross-linked protein identification
  • Identification of proximity-labeled proteins (e.g., BioID)
  • Contamination protein ID

Protein profiling

  • Offline protein/peptide fractionation
  • Stable isotopic labeling by amino acids in cell culture (SILAC)
  • Label-free quantitation (LFQ)
  • Multi-dimensional protein identification technology (MudPIT)
  • TMT
  • Data-independent acquisition (DIA)

Small-molecules quantitation

  • MRM (multiple reaction monitoring)
  • Biocrates p180 assay
  • PK study
  • Drug metabolite quantitation

Targeted proteomics

  • PRM (parallel reaction monitoring)
  • Data-independent acquisition (DIA) for cerebrospinal fluid (CSF)


Shipping address:

Keck MS & Proteomics Resource
Yale School of Medicine
300 George Street
Ground floor, room G001
New Haven, CT 06511


Faculty Director

Sreeganga Chandra, PhD Associate Professor of Neurology and Neuroscience