Proteomics & Lipidomics
We provide protein and small molecule structural and functional analysis, and quantitation using state of the art technology and software applications.
Services Available
Above: Gusti Gartner, PhD working with the Sciex instrumentation.
- Nano-liquid chromatography
- Protein identification and quantitation using SWATH
- Protein post translational modification identification
- Lipid profiling and identification (MS/MSALL)
- Targeted multiple reaction monitoring (MRM) for lipids
Instrumentation
Above: Sciex 6600
- Sciex 5600 and 6600+ TripleTOF high-resolution tandem mass spectrometers with duo- and nano-spray ion sources
- Sciex 4000 QTRAP linear ion trap mass spectrometer
- Dionex/ThermoFisher U_3000 RSLC and Eksigent nano- and micro-liquid chromatography systems
- Custom chromatographic column preparation and 1D, 2D chromatographic regimes
- Analysis software (ProteinPilot™, MarkerView™, MultiQuant™, LipidView™, Peakview™, and SciexOS™)
This component of the Proteomics and Lipidomics Core is supported by the Center of Biomedical Research Excellence (COBRE) in Mesenchymal and Neural Regulation of Metabolic Networks and the Northern New England Clinical and Translational Research Network Programs of the National Institute of General Medical Sciences.
| Application, per sample | Summary of items | MHIR | Non-profit academic | For-Profit | ||
| Proteomics1-3 | ||||||
| *Protein LCMS, Gel slice | Extraction reagents, trypsin, solvents, plastics | $191 | $298 | $382 | ||
| Protein LCMS, Complex sample | Extraction reagents, trypsin, solvents, plastics | $106 | $165 | $212 | ||
| Quantitative ICAT4 LCMS (per sample pair) | Extraction reagents, ICAT labels, solvents, plastics | $441 | $688 | $882 | ||
| **Protein SWATH5 LCMS, Complex sample | Extraction reagents, trypsin, solvents, plastics | $136 | $212 | $272 | ||
| Lipidomics6, 7 | ||||||
| Unbiased Lipid MS/MSALL, 8, 5600 (serum) | Extractions, solvents, glassware, etc. | $46 | $72 | $92 | ||
| Unbiased Lipid MS/MSALL, 5600 (tissue) | Extractions, solvents, glassware, etc. | $48 | $75 | $96 | ||
| Targeted precursor ion scan, 4000QTRAP (serum) | Extractions, solvents, glassware, etc. | $51 | $80 | $102 | ||
| Targeted MRM, 4000QTRAP (tissue) | Extractions, solvents, glassware, etc. | $53 | $83 | $106 | ||
*A $40/hr charge is applied per project for bioinformatics data analysis. **Pricing is for mouse or human samples: An additional sample charge may apply if a new SWATH spectra database is needed 9.
References
| 1. Romero D, O’Neill C, Terzic A, Contois L, Young K, Conley BA, Bergan RC, Brooks PC, Vary CPH. Endoglin regulates cancer-stromal cell interactions in prostate tumors. Cancer Res. 2011;71:3482–3493
2. Young K, Conley B, Romero D, Tweedie E, O’Neill C, Pinz I, Brogan L, Lindner V, Liaw L, Vary CP. Bmp9 regulates endoglin-dependent chemokine responses in endothelial cells. Blood. 2012;120:4263-4273 3. Young K, Tweedie E, Conley B, Ames J, FitzSimons M, Brooks P, Liaw L, Vary CP. Bmp9 crosstalk with the hippo pathway regulates endothelial cell matricellular and chemokine responses. PLoS One. 2015;10:e0122892 4. Guaragna A, Amoresano A, Pinto V, Monti G, Mastrobuoni G, Marino G, Palumbo G. Synthesis and proteomic activity evaluation of a new isotope-coded affinity tagging (icat) reagent. Bioconjug Chem. 2008;19:1095-1104 5. Huang Q, Yang L, Luo J, Guo L, Wang Z, Yang X, Jin W, Fang Y, Ye J, Shan B, Zhang Y. Swath enables precise label-free quantification on proteome scale. Proteomics. 2015;15:1215-1223 6. Stohn JP, Wang Q, Siviski ME, Kennedy K, Jin YR, Kacer D, DeMambro V, Liaw L, Vary CP, Rosen CJ, Prudovsky I, Lindner V. Cthrc1 controls adipose tissue formation, body composition, and physical activity. Obesity (Silver Spring). 2015;23:1633-1642 7. Liaw L, Prudovsky I, Koza RA, Anunciado-Koza RV, Siviski ME, Lindner V, Friesel RE, Rosen CJ, Baker PR, Simons B, Vary CP. Lipid profiling of in vitro cell models of adipogenic differentiation: Relationships with mouse adipose tissues. J Cell Biochem. 2016 8. Simons B, Kauhanen D, Sylvanne T, Tarasov K, Duchoslav E, Ekroos K. Shotgun lipidomics by sequential precursor ion fragmentation on a hybrid quadrupole time-of-flight mass spectrometer. Metabolites. 2012;2:195-213 9. Schubert OT, Gillet LC, Collins BC, Navarro P, Rosenberger G, Wolski WE, Lam H, Amodei D, Mallick P, MacLean B, Aebersold R. Building high-quality assay libraries for targeted analysis of swath ms data. Nat Protoc. 2015;10:426-441 |