This facility currently employs a project-based fee structure for proteomic projects. As part of the initial consultation, total costs are discussed and agreed upon before initiation of the project. These costs typically cover instrument operation and time spent conducting bioinformatics analysis of data (e.g. peptide and protein identification; label-free, stable isotope labeling-based, and isobaric labeling reagent-based quantitation; identification of post-translationally modified peptides; cross-link identification).
Basic and example packaged services are described in the tables below. Contact us for a quote and more detailed pricing information.
| Sample Preparation | Sample Type | Service Description |
|---|---|---|
| C18 peptide cleanup | Peptide digests | De-salting, buffer swap, contaminant removal |
| In-gel protein digest | Protein bands in SDS-PAGE | Band excision, reduction/alkylation, tryptic digestion |
| Native in-solution protein digest | Protein mixture (recombinant, purified) | Reduction/alkylation, tryptic digestion, C18 peptide cleanup |
| Denaturing in-solution protein digest | Cell pellet | Denaturing lysis, reduction/alkylation, tryptic digestion, C18 peptide cleanup |
| Isobaric reagent labeling | Peptide digest(s), 100μg each | pH balancing, Isobaric reagent labeling, C18 peptide cleanup |
| Protein Cross-linking* | Protein mixture (recombinant, purified) | Protein cross-linking and optimization, in-solution/gel digest |
| LC/MS Instrument Time | Sample Type | Service Description |
|---|---|---|
| Easy-nLC 1000, Hybrid LTQ-XL | Peptide digests | Hourly mass spectrometer usage |
| UltiMate3000, Tribrid LUMOS | Peptide digests | Hourly mass spectrometer usage |
| UltiMate3000, Tribrid LUMOS | TMT-labeled peptide digests | Hourly mass spectrometer usage |
| Data Analysis | Sample Type | Service Description |
|---|---|---|
| Protein/peptide sequencing, PTM identification |
Peptide digests | Database searching |
| SILAC-based quantitation | SILAC-labeled peptide digests | Database searching (pair-wise comparisons) |
| Label-free quantitation | Peptide digests | Database searching (< 4 samples) |
| Isobaric multiplexed quantitation | Isobaric tag-labeled peptide digests | Database searching (per set) |
| Cross-link Identification* | Cross-linked peptide digests | Database searching, MS/MS or MSn data integration |
| Example Packages | Service Description |
|---|---|
| Proteome sequencing and isobaric tag-based quantitation from cell pellets | Denaturing cell lysis, reduction/alkylation, in-solution protein digest, C18 peptide cleanup, pH balancing, isobaric tag labeling, C18 cleanup, LC-MSn analysis, database searching and quantitation |
| Protein complex cross-linking analysis | Protein complex cross-linking, optimization, digestion, C18 peptide cleanup, LC-MSn analysis, cross-link identification |
