The Cancer Proteomics Shared Resource is equipped with advanced mass spectrometry platforms and supporting infrastructure and software to enable high‑quality proteomic analysis.
Mass Spectrometry
- Thermo Scientific Orbitrap Ascend tribrid mass spectrometer with FAIMS and nESI source with Thermo Scientific Vanquish UHPLC
- Thermo Scientific Orbitrap Astral Zoom mass spectrometer with nESI source and Thermo Scientific Vanquish UHPLC
Software
- Proteome Discoverer with Chimerys + Ardia Server for DIA search
- MS Amanda, Sequest HT, and Comet for DDA search
- XlinkX for cross-link search
- MaxQuant for SILAC search
Workstations
- Dell Precision 7865 workstation with AMD Ryzen Threadripper PRO 7985WX (64 cores, 128 threads, 256 GB memory)
- Dell Precision 7865 workstation with AMD Ryzen Threadripper PRO 5995WX (64 cores, 128 threads, 256 GB memory)
Thermo Scientific Ardia Server (96 TB RAID6)
Acronyms
- FAIMS: high-field asymmetric waveform ion mobility spectrometry
- nESI: nano-electrospray ionization
- UHPLC: ultra-high performance liquid chromatography
- SILAC: stable isotope labeling by amino acids in cell culture
Additional Resources
- Thermo Scientific Orbitrap Ascend tribrid mass spectrometer with ETD and UVPD fragmentation, FAIMS, and nano‑LC front end
- Thermo Scientific Orbitrap Astral Zoom mass spectrometer optimized for high‑throughput, quantitative DIA‑based proteomics
- Thermo Scientific Vanquish UHPLC systems with nano‑flow chromatography and nano‑spray ionization
- High‑performance computing and data storage supporting proteomic data analysis using established software platforms for TMT, DIA, SILAC, and cross‑linking MS