ALERT

Stanford scientific core facility labs have resumed lab operations during Phase 2, subject to density and traffic restrictions.  Please contact the facilities for more information.  Online services, such as the Genetics Bioinformatics Service Center and new on-line data analysis options at SCi3, continue to be available.  The staffs of all of the core facilities remain available (on-line, not in-person) for discussions including experiment planning, data analysis, and manuscript preparation. 

Stanford University Mass Spectrometry

COVID-19 update, June 22, 2020:

SUMS aims to safely support the campus research restart under Stanford's Stage 2 physical distancing rules.  Meetings and seminars continue to be held via Zoom.  Email us at spectrometry@stanford.eduMore info

 


SUMS Seminar Series - still ongoing!

held via Zoom on select Thursdays from noon-1 pm

more info

 

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Welcome to the Vincent Coates Foundation Mass Spectrometry Laboratory.

The laboratory is named in honor of a generous gift from Vincent and Stella Coates, given through the Stanford School of Medicine to support the mass spec & proteomics facility as a shared core resource. It is a Bio-X core facility, embodying the Bio-X spirit of interdisciplinary communication and collaboration. It is also partially supported as the Proteomics Shared Resource of the Stanford Cancer Institute. The Dean of Research provides oversight and support to keep the laboratory's expertise and support available to researchers throughout Stanford University & Medical Center.

 

Overview of Services

Beyond making available state-of-the-art, user-friendly facilities and services, the laboratory enables education, methods development, and new applications development, designed to meet the rapidly evolving needs of researchers. Due to the essential information that mass spectrometry provides to researchers in the fields of the physical and life sciences, medicine, and engineering, the laboratory serves as an “intellectual watering hole” at the crossroads of diverse disciplines.

At this time, we have 16 instruments in operation: three GC-MS and twelve LC-MS systems -- four single quads, one ion trap, four triple quads, one hybrid quadrupole-time of flight, one Orbitrap (Exactive), one Q-Exactive, two hybrid LTQ-Orbitraps and a Orbitrap Fusion -- as well as a MALDI-TOF. Software resources include instrument-specific packages Xcalibur, MassLynx, ChemStation; proteomics software Byonic, Mascot, Sequest Sorcerer, Scaffold; and other tools including LCquan, QuanLynx, OpenLynx, MetaboLynx, ChemStation, Mass Hunter, Spectral Works.

Routine mass spec and proteomic services include molecular weight determination from small molecules to intact proteins, high resolution MS, bottom-up proteomics and more. Please contact SUMS to discuss custom work such as complex proteomic analysis, relative and targeted quantitation, drug discovery support, de novo peptide sequencing, new application development, and other projects.

Types of Service and Analysis Offered by SUMS:

  • Proteomics
    • Protein identification - gel or solution based
    • Shotgun proteomics, e.g. cell lysates, tissue preps
    • Analysis of frozen or FFPE banked tissues
    • Post-translational modification studies, e.g. phosphorylation, methylation, ubiquitination
    • Quantitative studies - labeled and unlabeled differential expression; targeted absolute quantitation
    • Protein interactions - SNAP, crosslinking
  • Small Molecules
    • Molecular weight confirmation
    • High resolution molecular formula confirmation (HRMS)
    • Structural elucidation (MSn)
    • Targeted quantitation
    • Protein characterization - intact mass, ADCs (yes, even though these aren't small)
  • Drug Discovery Support
    • Pharmacokinetic (PK) assessment
    • Microsome incubations
    • Metabolite identification
    • Stability assessment
    • Formulation assessment
    • Degradation studies
  • Assays & Quantitation
    • For small molecules and proteins/peptides
    • Pre-established assays for select classes of molecules
    • Custom assay development for molecules or metabolic pathways of interest
  • Metabolomics
    • Targeted, Quantitative
    • Semi-Quantitative
  • Open access (Stanford Users Only)
    • LC/MS
    • GC/MS
    • MALDI-TOF
    • High res LC/MS
  • Other custom projects - contact SUMS to discuss

 

Getting Started

  • Stanford Users:  LOGIN with valid Stanford credentials (SUNet ID).
  • Non-Stanford Users:  LOGIN using iLab credentials. Or, click to SIGN UP for an iLab account.
 

Leadership

Allis Chien, PhD | SUMS Director

Office (Bass 026):  (650) 723-0710

Email:  allis at stanford.edu

 

Ryan Leib, PhD | SUMS Director of Proteomics

Office (Bass 024):  (650) 725-9769

Email:  allis at stanford.edu

 

Financial Contact

William Lee | Accounting Associate

Office (Bass 024):  (650) 725-9769

Email:  wlee2 at stanford.edu

 

Staff

 

Name

 

Role

 

Phone

 

Email

 

Location

Ludmila Alexandrova, PhD

 

Drug discovery support, PK, Metabolite ID

 

725-9769

 

ludmilaa at stanford.edu

 

Bass 024

Karolina Krasinska, MS

 

Quantitative MS

 

725-9769

 

krasin at stanford.edu

 

Bass 024

Ryan Leib, PhD

 

Director of Proteomics

 

725-9769

 

rdleib at stanford.edu

 

Bass 024

Fang Liu, PhD

 

Proteomics

 

725-9769

 

fliu7 at stanford.edu

 

Bass 024

Rowan Matney, BA

 

Proteomics

 

725-9769

 

rmatney at stanford.edu

 

Bass 024

Theresa McLaughlin, MS

 

Lab Manager, HRMS, Open access lab, Custom projects

 

725-9769

 

tmcl at stanford.edu

 

Bass 024

Kratika Singhal, MS

 

Proteomics

 

725-9769

 

ksingh29 at stanford.edu

 

Bass 024

 

 

Location and Hours of Operation 

Location

Hours - Currently closed due to COVID-19

SUMS, 327 Campus Drive

Room: 024

Stanford University, Stanford, CA 94305-4401

Phone: (650) 725-9769

Fax:  (650) 725-0259

Email:  spectrometry@stanford.edu

9 a.m. - 5 p.m., Monday to Friday  

24/7 access for trained Open Access users

 

 

 

Click to view SUMS location on Stanford Campus Map

 

Links and Resources

    

Publication Acknowledgement 

In accordance with Dean's office policy: If work done with SUMS produces data in a publication, you must acknowledge us ("Vincent Coates Foundation Mass Spectrometry Laboratory, Stanford University Mass Spectrometry") in the publication. Further, if SUMS staff provide significant experimental design, data interpretation, or other intellectual contribution (as evaluated by the PI), then it is expected that these individuals will be coauthors on the publication. 

In addition, please acknowledge the following:

Stanford Cancer Institute: As a Stanford Cancer Institute Shared Resource, our lab receives grant support from the National Cancer Institute, which should be acknowledged in all publications containing data collected at SUMS. The following statement is suggested: “This work was supported in part by NIH P30 CA124435 utilizing the Stanford Cancer Institute Proteomics/Mass Spectrometry Shared Resource.”

The NIH requires that all publications containing data collected on our Shared Instrumentation Grant (SIG) Program funded instruments acknowledge NIH grant support. 

Orbi Elite: "This work utilized the LTQ-Orbitrap mass spectrometer system that was purchased with funding from National Institutes of Health Shared Instrumentation grant S10RR027425."

Xevo TQ-XS: "This work utilized the Xevo TQ-XS mass spectrometer system that was purchased with funding from National Institutes of Health Shared Instrumentation grant S10OD026962."

 

 

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Contacts

Name Role Phone Email Location
Allis Chien, Ph.D.
Director
 
650.723.0710
 
allis at stanford.edu
 
Bass 026
 
Ryan Leib, Ph.D.
Director of Proteomics
 
650.725.9769
 
rdleib at stanford.edu
 
Bass 024
 
Theresa McLaughlin, M.S
Lab Manager, Open Access
 
650.725.9769
 
tmcl at stanford.edu
 
Bass 024
 
William Lee
Finance
 
650.725.9769
 
wlee2 at stanford.edu
 
Bass 024