†Lower PMF rates are available to UConn and UConn Health users due to University subsidy.
Services
PMF offers customized sample preparation and UPLC-MS/MS services for both proteomic and metabolomic platforms. Rates are customized based on the sample preparation and UPLC-MS/MS analysis types (instrumentation) required. See below for more information on our offered services, available instrumentation, and available software with corresponding FY2026 rates that are active as of January 1, 2025. All rates are subject to change. For more information on services, instrumentation, and associated rates or to request a quote for new projects, contact the Facility Director.
Rates
FY2025 rates are listed below and are active as of January 1, 2025. All rates subject to change.
Sample Preparation Fees
| Billable unit | UConn† | External academic | Industry | |
| In-gel digestion (Coomassie blue- or silver-stained)* | per band | $69 | $92 | $137 |
| In-solution tryptic digestion (<25 ug)^ | per sample | $69 | $92 | $137 |
| In-solution tryptic digestion (>25 ug)^ | per sample | $89 | $113 | $157 |
| Non-trypsin endoproteinases | per vial | Reagent cost | Reagent cost | Reagent cost |
| Filter-Aided Sample Preparation (FASP)^ | per sample | $181 | $234 | $347 |
| S-Trap^ | per sample | $160 | $216 | $320 |
| In-vitro labeling | per sample | $90 + reagent cost | $114 + reagent cost# | $143 + reagent cost# |
| PTM enrichment | per hr | $90 + reagent cost | $114 + reagent cost# | $143 + reagent cost# |
| Offline fractionation | per sample | $83 | $119 | $176 |
| Intact protein sample clean-up | per sample | $25 | $34 | $50 |
| Custom sample prep (e.g. BCA protein quantification) | per hr | $90 + reagent cost | $114 + reagent cost | $143 + reagent cost |
*includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean-up
^includes reduction, alkylation, tryptic digestion, peptide clean-up
UPLC-MS & UPLC-MS/MS Analysis Fees
| Billable rate | UConn† | External Academic | Industry | |
| Nanoflow Proteomics Applications |
||||
| Experiment set-up fee for assisted proteomics analysis#NEW | per experiment | $90 | $114 | $143 |
| Intact protein mass measurement (by infusion) | per sample | $47.50 | $49 | $72 |
| timsTOF HT UPLC-MS/MS analysis | per hr | $60.50 | $112 | $168 |
| Orbitrap Eclipse UPLC-MS/MS analysis | per hr | $61.50 | $122 | $181 |
| QE-HF UPLC-MS/MS analysis | per hr | $44.50 | $93 | $145 |
| Hydrogen-Deuterium Exchange-MS (HDX-MS) assisted analysisCOMING SOON! | per hr | $65.50 | $126 | $195 |
| Microflow Metabolomics Applications | ||||
| Experiment set-up fee for user-operated metabolomics analysis#NEW | per reservation | $45 | $57 | $71.50 |
| Experiment set-up fee for assisted metabolomics analysis#NEW | per experiment | $90 | $114 | $143 |
| timsTOF HT UPLC-MS/MS user-operation‡ | per hr | TBA | TBA | TBA |
| timsTOF HT UPLC-MS/MS assisted analysis∅ | per hr | $57.50 | $112 | $168 |
| Synapt G2-Si UPLC-MS/MS user-operation‡ | per hr | $21 | $65 | $97 |
| Synapt G2-Si UPLC-MS/MS assisted analysis∅ | per hr | $43.50 | $91 | $148 |
| Xevo G2-XS UPLC-MS/MS User-Operation‡ | per hr | $16 | $49 | $72 |
| Xevo G2-XS UPLC-MS/MS assisted analysis∅ | per hr | $38.50 | $66 | $89 |
‡User-operation requires previous instrument training performed by PMF Faculty
∅Assistance or Full-Service provided by PMF Faculty only
#Includes instrument calibration(s), LC solvent changes, column cleaning, QC and blank injections. For assisted runs, this includes sample transfer to injection vials and establishing sample queue(s).
Training Fees
| Billable rate | UConn† | External Academic | Industry | |
| timsTOF HT, Synapt G2-Si, Xevo G2-XS, or software training | per hr | $90 | $114 | $143 |
Data Analysis Fees
| Billable rate | UConn† | External Academic | Industry | |
| Manual data analysis (e.g. PTM localization, custom quantitation) | per hr | $90 | $114 | $143 |
| Standard informatics-based processing of raw data | per experiment | included in run-time fees | included in run-time fees | included in run-time fees |
Instrumentation
Bruker timsTOF HT Mass Spectrometer
- Provides unprecedented depth of proteome coverage and sensitivity via Parallel Accumulation with Serial Fragmentation (PASEF) technology and Trapped Ion Mobility Spectrometry (TIMS)-mediated gas phase separations of ions for increased selectivity prior to mass analysis
- Features maximum MS and MS/MS scan rates of ~150 Hz
- Capable of multiple mass spectral acquisition options that incorporate PASEF technology, including data-dependent acquisition (DDA-PASEF), data-independent acquisition (DIA-PASEF), and parallel-reaction monitoring (PRM-PASEF) modes
- Directly coupled to a Thermo Scientific Dionex Ultimate 3000 RSLCnano UPLC for high resolution, reversed-phase liquid peptide separations at nanoflow rates for maximum sensitivity
Thermo Scientific Orbitrap Eclipse Tribrid Mass Spectrometer
- Provides multiple mass analysis and detection modes for MS and MS/MS using an Orbitrap or dual-pressure linear ion trap
- Features multiple types of gas-phase fragmentation including collision-induced dissociation (CID), higher energy C-trap dissociation (HCD), electron transfer dissociation (ETD) plus hybrid versions of these techniques: EThcD and ETciD
- Equipped to perform Real-Time Search (RTS) and Synchronous Precursor Selection (SPS) MS3-based acquisition methods for multiplexed proteomics analyses that incorporate Thermo Scientific Tandem Mass Tags (TMT) reagents for peptide quantitation
- Capable of multiple mass spectral acquisition options including data-dependent acquisition (DDA), data-independent acquisition (DIA), and parallel-reaction monitoring (PRM) modes
- Directly coupled to a Thermo Scientific Dionex Ultimate 3000 RSLCnano UPLC for high resolution reversed-phase liquid peptide/protein separations at variable flow regimes, including nanoflow rates for maximum sensitivity
| Internal | External (academic) | External (industry) | |
| Analysis | $86/hour | $116.50/hour | $172/hour |
Thermo Scientific Q Exactive HF Mass Spectrometer
- Provides high resolution, accurate mass determinations for MS and MS/MS analysis of proteins and peptides in complex mixtures using High-Field (HF) Orbitrap technology
- Capable of multiple mass spectral acquisition options including data-dependent acquisition (DDA), data-independent acquisition (DIA), and parallel-reaction monitoring (PRM) modes
- Directly coupled to a Thermo Scientific Dionex Ultimate 3000 RSLCnano UPLC for high resolution reversed-phase liquid peptide/protein separations at variable flow regimes, including nanoflow rates for maximum sensitivity
| Internal | External (academic) | External (industry) | |
| Analysis | $66/hour | $89/hour | $138.50/hour |
| Intact protein mass measurement | $34.50/sample | $46.58/sample | $69/sample |
| Manual data analysis (e.g. PTM localization, custom quantitation) | $68/hour | $108.80/hour | $136/hour |
Waters Synapt G2-Si Mass Spectrometer
- Provides high resolution, accurate mass determinations for MS and MS/MS analysis of proteins and peptides in complex mixtures using High-Field (HF) Orbitrap technology
- Capable of multiple mass spectral acquisition options including data-dependent acquisition (DDA), data-independent acquisition (DIA), and parallel-reaction monitoring (PRM) modes
- Directly coupled to a Thermo Scientific Dionex Ultimate 3000 RSLCnano UPLC for high resolution reversed-phase liquid peptide/protein separations at variable flow regimes, including nanoflow rates for maximum sensitivity
| Internal | External (academic) | External (industry) | |
| Training Fee | $68/hour | $108.80/hour | $136/hour |
| Assisted Analysis | $64/hour | $86.50/hour | $141/hour |
| User-operation | $44/hour | $62/hour | $92.50/hour |
Waters Xevo G2-XS q-TOF Mass Spectrometer - with SONAR
Provides high resolution, accurate mass measurements for MS and MS/MS analysis of small molecules in complex mixtures using q-TOF technology. Capable of multiple mass spectral acquisition options including DDA and DIA modes (MSe and SONAR)
| Internal | External (academic) | External (industry) | |
| Training Fee | $68/hour | $108.80/hour | $136/hour |
| Assisted Analysis | $51/hour | $62.50/hour | $85/hour |
| User-operation | $35/hour | $47/hour | $69/hour |
Available Software
- Proteomics: MaxQuant (Ref), MaxQuant, Spectronaut v17, Proteome Discoverer v2.5 with XlinkX node (Thermo Scientific), Byonic (Protein Metrics, Inc.), Scaffold v5.0 (Proteome Software, Inc.)
- Metabolomics: Metaboscape (Bruker), Progenesis QI (Nonlinear Dynamics)