Duke Proteomics Core Facility
PricingPricing for Core Service Support for Duke Scientists
Note:
- scientific collaborations with academic, government, and non-profit laboratories outside Duke are welcomed. The pricing for these collaborations is the Duke price plus the Duke overhead rate (57%). In addition, due to institutional accounting requirements, there is an additional handling fee per order of $150.
- scientific collaborations with other types of laboratories are also welcomed - please contact the Director, Arthur Moseley, for details
Sample Preparation
| Mini-Bradford Assay (per plate, 20 samples max) | $ 40 |
| - NOTE - Bradford assays required for all solution phase analyses | |
| In-Gel Digestion (per spot or band) | $ 40 |
| Tissue Tearor Disruption, Lysis, and Extraction (per sample) | $ 40 |
| Microscale In-solution Digestion (<100 micrograms protein) | $ 40 |
| Macroscale In-solution Digestion (100 to 1,000 micrograms protein) | $ 80 |
| Very Large Scale In-solution Digestion (per milligram) | $ 80 |
| In-Situ Digestion (bead bound - per sample) | $ 40 |
| FFPE Sample Preparation (Reagent cost + labor) | $165 |
| Solid Phase Extraction Sample Cleanup (C18, C8, or C4 Zip Tip) | $ 25 |
| MW Cutoff Filter Sample Cleanup | $ 25 |
| Protein Precipitation & Concentration | $ 20 |
| Detergent/PEG Sample Cleanup (ProteoSpin) | $ 25 |
| Buffer Exchange to Mass Spec Compatible Buffer | $ 25 |
| IMAC or TiO2 enrichment for phosphopeptides | $ 100 |
| Biotin-avidin enrichment | $ 40 |
| Resin assisted capture enrichments (non-antibody based) | Contact |
| Glycopeptide enrichment | $ 290 |
| 1D PAGE Gel Separation (Protein Level) | $ 65 |
| GELFREE Molecular Weight Fractionation (Protein Level) | $ 165 |
| OFFGEL pI Fractionation (12 or 24 fraction, peptide digest or protein level) | $ 900 |
| Strong Cation Exchange Fractionation (prep-scale, 9.4 x 200 mm LC) | $ 240 |
| Single Stage Plasma depletion (Hu14 or Mouse3) | $ 350 |
| Two Stage Plasma Depletion (IgY14 + Supermix) | $ 500 |
| mTRAQ Labeling for use with Targeted LC/MS/MS MRM Quantitation (per sample) | $ 75 |
MW Determination
| Intact MW by LC/MS Set-Up | $ 100 |
| Infusion Nanospray/ESI/MS | $ 50 |
| Fast LC/ESI/MS | $ 60 |
Qualitative Analyses
| LC-MS/MS analysis (gel spot/band - fast gradient) | $ 70 |
| LC-MS/MS analysis (moderately complex sample - medium gradient) | $ 180 |
| LC-MS/MS analysis (complex sample - slow gradient) | $ 240 |
| 2D LC-MS/MS (5-fraction) | $ 600 |
| 2D LC-MS/MS (10-fraction) | $ 900 |
Quantitative Analyses, Unbiased
| LC-MSE Differential Expression (per sample) | $ 300 |
| 2D LC-MSE Differential Expression (3-fraction) | $ 600 |
| 2D LC-MSE Differential Expression (5-fraction) | $ 900 |
| 2D LC-MSE Differential Expression (10-fraction) | $ 1200 |
| LC-MSE Differential Expression (triplicate analyses) | $ 750 |
| LC-MSE Intact Protein Quantitation (Single Protein) | $ 200 |
| Isotopically Labeled Differential Expression Analysis (per analysis of two isotopically labeled proteomes in a sample) | $ 300 |
| Isotopically Labeled Differential Expression Analysis (triplicate analyses - technical replicates of two isotopically labeled proteomes in a sample) | $ 750 |
| Differential Expression Data Workup - Elucidator Analysis (per sample) | $ 150 |
Quantitative Analyses, Targeted
| Targeted (MRM) Quantitation Method Development - per protein | Contact |
| - typical cost is $400/protein | |
| MRM Quantitation (per sample - single analysis, 2 to 10 peptides*) | $ 60 |
| MRM Quantitation (per sample - single analysis, 10 to 50 peptides*) | $120 |
| MRM Quantitation (per sample - single analysis, 10 to 100 peptides*) | $ 180 |
| MRM Quantitation (per sample - single analysis, 100 to 250 peptides*) | $ 240 |
| MRM Quantitation (per sample - triplicate analysis, 1 to 10 peptides*) | $ 150 |
| MRM Quantitation (per sample - triplicate analysis, 10 to 100 peptides*) | $ 450 |
| MRM Quantitation (per sample - triplicate analysis, 100 to 250 peptides*) | $ 600 |
| *including target peptides and internal standard (stable-isotope labeled) peptides | |
| NOTE: Stable Isotope Labeled Peptides are provided at "3rd party vendor cost" + administrative fee of $95 for ordering, solubilization and synthesis confirmation |
Data Analysis
| Custom Database Setup for MASCOT or Identity | $120 |
| Additional Database Searches | $ 20 |
| Consulting and Extensive Data Mining (per hour) | $ 65 |
Q1: I have a 1D gel band from a mouse cell line. How much will it cost to identify the proteins?
A1: For quick analysis (typically identifying between 1 and 10 proteins), we recommend using the fast gradient. For more complex samples, such as gel bands from IP pulldowns or molecular weight fractions of whole cell lysates, we recommend the medium gradient. The largest number of proteins reliably identified in our facility using a medium gradient from a gel band is 73 (approximately 400 peptides).
Fast Gradient:
| In-gel Digestion | $ 40 |
| LC/MS/MS analysis (gel band - medium gradient) | $ 70 |
| First pass database search (included) | $ 0 |
| Total Cost | $ 110 |
Medium Gradient:
| In-gel Digestion | $ 40 |
| LC/MS/MS analysis (gel band - medium gradient) | $ 180 |
| First pass database search (included) | $ 0 |
| Total Cost | $ 220 |
Q2: I have two immunoprecipitates, and I want to know what proteins differentiate the samples. How much will this cost?
A2: The researcher is looking for gross differences between these samples, thus this analysis does not require rigorous quantitation to differentiate the samples. A single LC - MSE run will be performed for each sample.
| Digestion (x2) | $ 80 |
| Gel-free, Label-free Sample Differentiation (test & control) | $ 600 |
| First pass database search (included) | $ 0 |
| Total Cost | $ 680 |
Q3: I am looking for subtle differences in protein expression in a cell line as a function of drug treatment. I am not sure what proteins will be affected. How much will this cost?
A3: To insure accurate quantitation by statistically accounting for analytical variability, it is recommended that each sample be analyzed in triplicate (technical replicates of LC/MS/MS).
| Bradford Assay and total protein normalization (x2) | $ 80 |
| Digestion (x2) | $ 80 |
| Gel-free, Label-free Sample Differentiation (test & control) | $ 1500 |
| First pass database search (included) | $ 0 |
| AbsQuant or Relative Quant data workup (x2) | $ 300 |
| Total Cost | $ 1960 |
To statistically account for biological and analytical variability, it is recommended that three biological replicates (each test and control) be analyzed, with three technical replicates of each biological replicate. This cost would be:
| Bradford Assay and total protein normalization (x2) | $ 240 |
| Digestion (x6) | $ 240 |
| Gel-free, Label-free Sample Differentiation (test & control) | $ 4500 |
| First pass database search (included) | $ 0 |
| AbsQuant or Relative Quant data workup (x6) | $ 1800 |
| Total Cost | $ 6780 |
Q4: I want to perform biomarker discovery in human plasma samples. How much will this cost per sample?
A4: It is recommended that 10% of the samples be analyzed in triplicate and 90% of the samples be analyzed in singlicate.
Singlicate Analysis - Single stage of plasma depletion (per sample)
| Bradford Assay and total protein normalization (x2) | $ 80 |
| Digestion | $ 40 |
| Depletion (Hu14) | $ 300 |
| Gel-free, Label-free Sample Differentiation | $ 300 |
| First pass database search (included) | $ 0 |
| AbsQuant or Relative Quant data workup | $ 150 |
| Total Cost | $ 870 |
Singlicate Analysis - Two stage plasma depletion (per sample)
| Bradford Assay and total protein normalization (x2) | $ 80 |
| Digestion | $ 40 |
| Depletion (IgY14 + SuperMix)) | $ 500 |
| Gel-free, Label-free Sample Differentiation | $ 300 |
| First pass database search (included) | $ 0 |
| AbsQuant or Relative Quant data workup | $ 150 |
| Total Cost | $ 1070 |
Triplicate Analysis - Single stage of plasma depletion (per sample)
| Bradford Assay and total protein normalization (x2) | $ 80 |
| Digestion | $ 40 |
| Depletion (Hu14) | $ 300 |
| Gel-free, Label-free Sample Differentiation | $ 750 |
| First pass database search (included) | $ 0 |
| AbsQuant or Relative Quant data workup | $ 150 |
| Total Cost | $ 1320 |
Triplicate Analysis - Two stage plasma depletion (per sample)
| Bradford Assay and total protein normalization (x2) | $ 80 |
| Digestion | $ 40 |
| Depletion (IgY + SuperMix)) | $ 500 |
| Gel-free, Label-free Sample Differentiation | $ 300 |
| First pass database search (included) | $ 0 |
| AbsQuant or Relative Quant data workup | $ 150 |
| Total Cost | $ 1520 |
Q5: The species of interest to my study is not in the databases currently mounted. How can I appropriately process my data?
A5: We can upload your custom database to our Mascot or IdentityE server for database searching. This is a one-time fee, after which this database is available for your future use.
| Custom Database setup for MASCOT or IdentityE | $ 50 |
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