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Microbiome Research Lab offers shotgun metagenomic analysis in variety of biological and environmental samples.

Computing and Data Analysis Continuous improvement in mass-spectrometry instrumentation means that proteomics facilities are generating a growing amount of data, and tackling increasingly complex datasets. The rise of quantitative proteomics in particular demands robust data analysis techniques to ensure high quality results are generated for users. The UTSW Proteomics Core is embracing the need for high quality proteomics data analysis by using the best free and commerical software, and

Policies and guidance help ensure compliance with University, state, and federal regulations through education and collaboration with the research community.

Co-IP Experiments Introduction One of the most common types of experiment submitted for analysis in the Proteomics Core is the Co-IP experiment. An antibody against endogenous or tagged protein is used to pull down a protein of interest. The goal of the experiment is to see what comes down with that protein, and is a potential interactor. Often Co-IPs will be compared across different treatments or conditions. Performing a Co-IP experiment with the core We offer a qualitative or quantitative

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Publications and Expertise The staff of the proteomics core work closely with customers, and are often heavily involved in the write-up process of projects that have made use of mass spectrometry services. In addition to our co-authored papers, our work is frequently acknowledged by our researchers in their publications and our work has been essential toward many researchers obtaining grants. If you are a customer of the core, and have published work that made use of the proteomics services that

Complex Mixture ID Introduction Modern LC-MS/MS platforms can identify several thousands of proteins from a single sample. We realize that many different types of samples can be submitted for proteomics analsyis, so we accept a wide range of sample formats, including: On-bead (magnetic beads preferred) In-solution SDS-PAGE gel Our instrumentation allows the characterization of complex samples without the need to resolve on a gel and excise bands. Comparison between complex samples is often

The Metabolomics Core Facility is equipped with a Sciex QTRAP 6500+ mass spectrometer and a Sciex TripleTOF 6600 mass spectrometer, high-resolution mass spectrometry system (HRMS).

Silac Quantitation Introduction Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) is a powerful technique for comparing protein (and peptide) amounts between two or three conditions. Developed in the lab of Matthias Mann it is one of the most widely used labeled quantitation methods in proteomics. In SILAC experiments cells for each condition are grown in media that contains different stable isotopes of amino acids such that an identical peptide from each condition has a slightly

PTM Identification Introduction The presence or absence of post-translational modifications (PTMs), such as phosphorylation, on a protein are often as interesting as the presence of absence of the protein itself. The PTM ID service offers identification of PTMs on a protein from a purified protein or from a sample enriched for a specific PTM of interest. A common way to submit purified proteins is by running your sample into an SDS-PAGE gel, to isolate the protein of interest from contaminants