Proteins can be identified by trypsin digestion and analysis of peptides by LC/MS/MS. Samples can be bands or spots from 1D or 2D gel electrophoresis or solutions of moderate complexity. Expression analysis can be done using ProteoIQ software to compare samples. Pathways analysis can be done to identifity biological processes and relationships. Analysis of protein translational modifications PTMs can also be done.
"The Bio-Plex® 200 system is a suspension array system which offers protein and nucleic acid researchers a reliable multiplex assay solution that permits analysis of up to 100 biomolecules in a single sample."
"Gel excision instrument, includes enclosure, imaging system, fluidics system, robotics, sensors, cutting head, gel tray, microplate track, wash station."
"Thermo Scientific LTQ XL high performance linear ion trap delivers more structural information than any other ion trap mass spectrometer. LTQ XL is the only mass spectrometer that offers multiple dissociation techniques, PQD, ETD and CID. Pulsed Q Collision Induced Dissociation (PQD) is a proprietary technique that eliminates the low mass cut-off concern inherent with all ion traps. This results in extensive coverage for predicted and unpredicted metabolites, and the ability to perform peptide quantification using iTRAQ* labels. In addition, fast polarity switching for high-sensitivity analysis of unknowns, high resolution isolation (HRI), intelligent Data Dependent* acquisition, and optional high resolution accurate mass functionality are all tools to help the researcher gain confident structural identification routinely."
Shared between two labs.
In-gel digestion protocol for protein gels for mass spectrometry.
Use of Luminex instrument for multi-analytic detection. The Bio-Plex and Miliplex Assay services are offered by the Proteomics core.
"Surface enhanced laser desorption ionization (SELDI) can be used in several different kinds of applications which include, but are not limited to:
1. Protein profiling and Biomarker discovery.
2. Protein-Protein interactions.
3. Protein-Nucleic acid interactions.
4. Identification of proteins by tryptic digest.
5. Determination of the protein properties prior to purification."
"Bio-Plex Manager software empowers even the most inexperienced user to simply and quickly achieve proficiency and deliver results."
"Thermo Scientific* Proteome Discoverer software is a flexible, expandable platform for the analysis of qualitative and quantitative proteomics data.
Outstanding sensitivity and the rapid growth of public databases have made mass spectrometry the primary method of identifying proteins in complex biological samples. While database search algorithms such as SEQUEST* and MASCOT* have existed for over a decade to facilitate the identification of proteins from mass spectral data, the field of proteomics continues to expand and with it the need for more advanced and flexible software tools to interpret the data. Proteome Discoverer was designed to address this need for flexibility by offering a wide array of bio-software tools and customizable workflows for every proteomics experiment."