Proteomics & Metabolomics – COR²E – UConn Center for Open Research Resources & Equipment

Proteomics & Metabolomics – COR²E – UConn Center for Open Research Resources & Equipment
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Proteomics & Metabolomics
The Proteomics & Metabolomics Facility implements ultra-high performance liquid chromatography (UPLC) coupled to high resolution mass spectrometry (MS) to unambiguously identify proteins, peptides and small molecules in complex mixtures.
Visit Facility Homepage
Contacts
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 513
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 511
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
I-Ping Chen, D.D.S., Ph.D.
Professor
Oral Health and Diagnostic Science
UConn Health
860.679.1030
Location
Campus Address
Pharmacy/Biology Building, Rooms 511/513
Mailing Address
75 North Eagleville Road, Unit 3149
TLS Room 175
Storrs, CT 06269
Instrumentation
Sample Preparation
Internal Rates
Expand
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
Expand
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.
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
Expand
$66/hour
Analysis
$34.50/sample
Intact protein mass measurement
$68/hour
Manual data analysis (e.g PTM localization, custom quantitation
External Rates
Expand
$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
Waters Synapt G2-Si Mass Spectrometer
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
Ion mobility technology provides another dimension of separation based on collisional-cross section (analyte size and shape) when mass and retention time aren’t sufficient to separate chemically ambiguous analytes and/or isomers
Directly coupled to a
Waters Acquity UPLC equipped with a PDA detector
for high resolution liquid-phase separations at micro-flow rates (μL/min)
Internal Rates
Expand
$68/hour
Training Fee
$64/hour
Assisted Analysis
Unassisted run time following training by facility faculty
$44/hour
User-operation
External Rates
Expand
$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
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
Expand
$86/hour
Analysis
External Rates
Expand
$116.50/hour
Analysis
External Academic
$172/hour
Analysis
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
Expand
$68/hour
Training Fees
$51/hour
Assisted Analysis
$35/hour
User-operation
External Rates
Expand
$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
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)