How we work

We operate as a collaborative mass spectrometry facility associated with the laboratory of Nevan Krogan, the Quantitative Biosciences Institutes (QBI), and the Gladstone Institutes.  As such, we thrive on establishing collaborations in which we can leverage initial experiments to apply for collaborative funding opportunities.

Using this approach has enabled us to serve a fundamental role in many collaborative grants including:

• The Cancer Cell Map Initiative

• The Psychiatric Cell Map Initiative

• The Host Pathogen Map Initiative

• Tau Center Without Walls

• The HARC center:  HIV Accessory & Regulatory Complexes

• FluOMICS:  A Systems Biology Approach to study the Influenza virus

• QCRG (Quantitative Biosciences Institute Coronavirus Research Group) Pandemic Response Program  

• The QCRG (Quantitative Biosciences Institute Coronavirus Research Group) AViDD (Antiviral in Drug Discovery) program

Applications

Our team has expertise in a wide variety of proteomic applications including:

• Protein-protein interactions (PPIs)

  • Affinity purification-mass spectrometry (APMS)

  • Proximity biotinylation (APEX, BioID, etc.)

  • Co-fractionation MS (SEC-MS)

• Global proteomics analysis by label-free quantification (DDA or DIA)

  • Protein abundance

  • Post-translational modifications (PTMs): phosphorylation, ubiquitylation, acetylation, etc.

• Targeted proteomics

• Structural proteomics

  • Cross-linking mass spectrometry

  • Hydrogen-deuterium exchange (HDX-MS)

  • Native MS

How to collaborate with our facility.

Collaborations are based upon shared interest in a biological or technological question and usually proceed as follows:

1. Meeting to discuss scientific question of interest and gauge merit and feasibility of project.

2. Small scale pilot experiment to establish feasibility in practice.

3. Taking things to the next level:

   1. Proceed with larger project AND/OR

   2. Proceed with submitting application for collaborative funding

4. Making this official:

   1. Secure funding to further pursue project AND/OR

   2. Publish collaborative paper