†Lower PMF rates are available to UConn and UConn Health users due to University subsidy.
Staff
Jeremy Balsbaugh, Ph.D.
Facility Director
Office: Pharmacy/Biology Building Room 531
Lab: Pharmacy/Biology Building Rooms 511/513
jeremy.balsbaugh@uconn.edu
860-486-3319
Jen Liddle, Ph.D.
Facility Scientist
Office: Pharmacy/Biology Building Room 531
Lab: Pharmacy/Biology Building Rooms 511/513
jennifer.liddle@uconn.edu
860-486-1591
Sonam Tamrakar, Ph.D.
Research Assistant III
Office: Pharmacy/Biology Building Room 531
Lab: Pharmacy/Biology Building Rooms 511/513
sonam.tamrakar@uconn.edu
Faculty Scientific Advisers
Spencer Nyholm, Ph.D.
Associate Professor
Biology Physics Building 405
spencer.nyholm@uconn.edu
860-486-4886
Daniel Schwartz, Ph.D.
Associate Professor
Pharmacy Biology Rm 217/219
daniel.schwartz@uconn.edu
860-486-0596
Xudong Yao, Ph.D.
Associate Professor
Chemistry A-419
x.yao@uconn.edu
860-486-6644
Campus Address
Pharmacy/Biology Building, Rooms 511/513
Mailing Address
75 North Eagleville Road, Unit 3149
TLS Room 175
Storrs, CT 06269
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 Rates
$86/hour Analysis
External Rates
$116.50/hour Analysis External Academic
$172/hour Analysis Industry
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 Rates
$89/hour Analysis External Academic
$138.50/hour Analysis Industry
$46.58/sample Intact protein mass measurement External Academic
$69/sample Intact protein mass measurement Industry
$108.80/hour Manual data analysis(e.g. PTM localization, custom quantitation) External Academic
$136/hour Manual data analysis(e.g. PTM localization, custom quantitation) Industry
External Rates
$60/hour Unassisted, Non-profit
$90/hour Assisted, Non-profit
$100/hour Consulting/Set-Up/Training Fee, Non-profit
$90/hour Unassisted, For-profit
$150/hour Assisted, For-profit
$150/hour Consulting/Set-Up/Training Fee, For-profit
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 Rates
$68/hour Training Fee
$64/hour Assisted Analysis Unassisted run time following training by facility faculty
$44/hour User-operation
External Rates
$108.80/hour Training Fee External Academic
$136/hour Training Fee Industry
$86.50/hour Assisted Analysis External Academic
$141/hour Assisted Analysis Industry
$62/hour User-operation External Academic
$92.50/hour User-operation Industry
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 Rates
$68/hour Training Fees
$51/hour Assisted Analysis
$35/hour User-operation
External Rates
$108.80/hour Training Fee External Academic
$136/hour Training Fee Industry
$62.50/hour Assisted Analysis External Academic
$85/hour Assisted Analysis Industry
$47/hour User-operation External Academic
$69/hour User-operation Industry
Sample Preparation
Internal Rates
| Reagant cost | Non-trypsin endoproteinases | UConn price plus 7% up-charge |
| $165/sample | FASP | Includes reduction, alkylation, tryptic digestion, peptide clean up |
| $65/sample + reagent cost | In-vitro labeling | |
| $65/hour + reagent costs | PTM enrichment | |
| $84/sample | Offline fractation | |
| $24/sample | Intact protein sample clean-up | |
| $68/hour + reagent cost | Custom sample prep | |
| $65/band | Coomassie blue stained gel band | Includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean up |
| $65/band | TrainingSilver-stained gel band | Includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean up |
| $65/sample | In-solution tryptic digestion (<25 ug) | Includes reduction, alkylation, tryptic digestion and peptide clean up |
| $85/sample | In-solution tryptic digestion (>25 ug) | Includes reduction, alkylation, tryptic digestion and peptide clean up |
External Rates
| Reagant cost | Non-trypsin endoproteinases | UConn price plus 7% up-charge |
| $222.75/sample | FASP | External Academic includes reduction, alkylation, tryptic digestion, peptide clean-up |
| $330/sample | FASP | Industry includes reduction, alkylation, tryptic digestion, peptide clean-up |
| $87.75/sample + reagent cost | In-vitro labeling | External Academic |
| $130/sample + reagent cost | In-vitro labeling | Industry |
| $87.75/hour + reagent cost | PTM enrichment | External Academic |
| $130/hour + reagent cost | PTM enrichment | Industry |
| $113.40/sample | Offline fractionation | External Academic |
| $168/sample | Offline fractionation | Industry |
| $32.40/sample | Intact protein sample Clean up | External Academic |
| $48/sample | Intact protein sample clean-up | Industry |
| $108.80/hour + reagent cost | Custom sample prep | External Academic |
| $136/hour + reagent cost | Custom sample prep | Industry |
| $87.75/band | Coomassie blue-stained gelband | External Academic, Includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean-up. |
| $130/band | Coomassie blue-stained gelband | Industry, Includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean-up. |
| $87.75/band | Silver-stained gelband | External Academic, Includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean-up. |
| $130/band | Silver-stained gelband | Industry, Includes destaining, reduction, alkylation, tryptic digestion, peptide extraction and clean-up. |
| $87.75/sample | In-solution tryptic digestion (<25 ug) | External Academic Includes reduction, alkylation, tryptic digestion, peptide clean-up |
| $130/sample | In-solution tryptic digestion (<25 ug) | Industry Includes reduction, alkylation, tryptic digestion, peptide clean-up. |
| $107.75/sample | In-solution tryptic digestion (>25 ug) | External Academic Includes reduction, alkylation, tryptic digestion, peptide clean-up. |
| $150/sample | In-solution tryptic digestion (>25 ug) | Industry Includes reduction, alkylation, tryptic digestion, peptide clean-up. |
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)