Proteomics Research Translational Technology Platform
The Proteomics Research Translational Technology Platform (TTP) offers collaborative proteomics research support for projects at the Cancer Institute and within the CRUK City of London Centre.
The Proteomics Research TTP provides infrastructure for the identification and quantification of proteins and their post-translational modifications (PTMs). This includes expertise in PTM enrichment strategies, peptide separations, state-of-the-art mass spectrometry (MS) for discovery-driven experiments as well as targeted workflows for sensitive and consistent quantitative monitoring of pre-selected sets of proteins. The platform continuously develops new sample preparation techniques, MS approaches and software tools to provide optimal analytical solutions for research projects. The PRTTP should be involved in all stages of a project to facilitate the use of an appropriate experimental design leading to accurate data interpretation.
How do I start a proteomic collaboration?
Please request a proposal form by email to s.surinova@ucl.ac.uk.
Proposals are reviewed by the scientific committee and successful proposals will be further discussed between proteomic experts and researchers. Typically, details of experimental conditions, analytical strategies, tailored data analysis and expected results interpretation will be determined prior to collaboration starting.
Equipment
Thermo Fisher Scientific
Liquid Chromatography Mass Spectrometry (LC-MS) used for discovery- and hypothesis-driven peptide-level workflows.
Thermo Fisher Scientific
Offline LC optimised for high pH Reversed Phase peptide fractionation
Speedvac capable of drying down protein/peptide solutions to dryness in both Eppendorf tube and Falcon tube formats. For booking, please refer to the attached documentation.
Experimentation
Generation of digests from whole proteomes or protein complexes
Generation of enriched sub-proteomes (phosphorylated, ubiquitinated, ...)
Fractionation of peptidic mixtures to achieve deep sequencing
Employed for sample multiplexing and downstream fractionation
Data Analysis
To identify proteins and their modifications (Proteome Discover, MaxQuant)
To determine protein abundance (MaxQuant, Skyline) in a label-based (e.g. TMT labelling) or label-free manner
Significance analysis of abundance changes (MSstats, Perseus)
Functional bioinformatics
Contacts
Lab 502, 4th Floor MS Labs 425, 426
Paul O'Gorman Building
Dr Silvia Surinova
Head of the Proteomics Research Translational Technology Platform
Click to email. ci.proteomicsresearch@ucl.ac.uk
Amandeep Bhamra
Mass Spectrometry and Proteomics Specialist
Click to email. ci.proteomicsresearch@ucl.ac.ukNon-Mass Spec Proteomics
We offer a platform for researchers to purify the protein samples or cell lysates for subsequent measuring of protein-protein interactions or protein detection. We have Akta (Micro and Prime Plus from GE Healthcare) and Octet Red96 (Fortebio) instruments available. In addition, we operate Ettan IPGphor 3 and a Typhoon imager (GE Healthcare) for 2D-DIGE imaging.
Instruments and specifications
Lab 106
Akta is equipment used for the protein purification via ion exchange, size exclusion or affinity chromatography. Affinity chromatography is the most common way of purifying recombinant proteins. The proteins are genetically modified to contain various tags (His, GST, etc.). Tags have affinity for the molecules on the column (nickel or cobalt ions or glutathione). By applying high pH or high concentration of buffer (imidazole) the purified protein is eluted. Akta Prime maximum pressure applied on the column and the flow rate: max. pressure 1 MPa, max. flow rate 50 ml/min.
Contact: Nicole Jhala (n.jhala@ucl.ac.uk)
Lab 106
Octet Red96 is used for measuring protein-protein/small molecule affinity and kinetics and the protein concentration. It uses disposable biosensors in the 96 well plate format. The advantage is low operational cost due to the possibility to regenerate the biosensors and absence of micro-fluidic system.
Dip and Read Biosensors - fortebio.com
Lab 132
Typhoon Trio+ is used for imaging of fluorescent protein gels (SYPRO Ruby, Deep Purple), fluorescent western blots (ECL Plus, ECL Plex), fluorescent nucleic acid stains (SYBR-green). It can also be used as phosphor imager for developing phosphor storage screens.
Contact: Kim Chia (k.chia@ucl.ac.uk)
Book this equipment
Following appropriate training, you will be given access to the relevant booking calendars on the Clustermarket Bookkit system.
Book this equipmentCRUK CoL Centre Proteomic Seminar Series
Our seminars showcase the latest proteomic developments and research highlights from global leaders in the field.
Statistical methods and tools for quantitative proteomic and imaging mass spectrometry investigations
Prof Olga Vitek, Khoury College of Computer Sciences, Northeastern University
Monday, 10th June 2024, 2pm
Recording available online
Passcode: %85X$EYZ
The orchestration of subcellular processes through RNA and protein interactions
Prof. Kathryn Lilley, University of Cambridge
Wednesday 10th of January 2024, 12pm
Recording available online
Exploring cell heterogeneity in health and disease using single-cell proteomics and transcriptomics
Prof. Erwin Schoof, Technical University of Denmark
Wednesday 4th of October 2023, 12pm
Recording available online
Passcode:xT9M#2r&
Phosphoproteomics: Illuminating Signalling Networks Associated with Cancer Drugs and Temporal Kinase Activation
Dr Yansheng Liu, Department of Pharmacology, Yale University School of Medicine
Monday 19th of June 2023, 2pm
Recording available online
Passcode: ?t8myL=6
Light-mediated discovery of surfaceome nanoscale organization and inter-cellular receptor interaction networks.
Prof Bernd Wollscheid, Institute of Translational Medicine, ETH Zurich, Switzerland
Wednesday 23rd of March 2022, 12:00-13:00
Recording available here
Proximity interactomes: using a reference map of a human cell to navigate cancer signaling and viral infections
Prof Anne-Claude Gingras, Lunenfeld-Tanenbaum Research Institute of Sinai Health System, Toronto
Thursday 16th of September 2021, 13:00-14:00
Recording available here
Using Network Bioinformatics to Reveal Disease Pathways and Therapies from Proteomic and Genetic Data: Applications to SARS-CoV-2
Dr Mehdi Bouhaddou, University of California, San Francisco
Monday 14th of June 2021, 15:00-16:00
Recording available here
Passcode: 59ES+qt=
Proteomics beyond protein expression analysis: Proteomes in 3D
Prof Paola Picotti, Institute of Molecular Systems Biology, ETH Zurich, Switzerland
Monday 26th of April 2021, 12:00-13:00
Recording available here
Passcode: Cpd^*u6w
Feedback
If you have any comments or queries regarding the CI Translational Technology Platforms, please contact us.
Cancer Institute TTP Feedback
Click to email. ci.ttpfeedback@ucl.ac.uk
