Mass Spectrometry Shared Resource

Overview of Services

PROTEOMICS

We provide most commonly used proteomics workflows, from identification of a recombinant proteins resolved by SDS-PAGE to quantitative analyses of non-canonical PTMs, crosslinking mass spectrometry, and other complex experiments. The lab has experience with several proteolytic reagents, all major approaches for peptide quantification (including label-free quantification, TMT, and SILAC), on- and off- line chromatographic separations, protein crosslinking and in situ biotinylation, quantitative analysis of phosphorylation and other PTMs.

The facility relies on high resolution orbitrap mass spectrometers that enable both data-dependent, targeted (PRM, SIM), and data independent acquisition strategies, and is equipped with ETD fragmentation and ion mobility interfaces.

We also leverage several platforms for data analysis, depending on the specific experimental design.

Importantly, the MSSR is eager to develop and/or implement new workflows as needed to address specific biological questions.

METABOLOMICS

We offer commonly used and reproducible SOPs for metabolite extraction of biofluids, tissues, cell lines, or other biological samples of interest. The lab provides extraction solvents containing internal standards and sample dry down via nitrogen evaporator or vacuum centrifugation. Sample extraction and analysis method depend on the specific research question of interest, but we have standardized workflows for the following assays:

semi-targeted polar metabolite profiling (amino acids, carbohydrates, energy metabolites, nucleotides)

fatty acids (C14-C30)

untargeted lipidomics (lysophospholipids, phospholipids, ceramides, sphingomyelins, triglycerides)

steroids

polyamines

The facility relies on high resolution orbitrap mass spectrometers that enable both data-dependent, targeted (PRM, SIM), and data independent acquisition strategies.

We also leverage several platforms for data analysis, statistics, and visualization such as Skyline (MacCoss Lab Software), Compound Discoverer (Thermo Scientific), JMP, and R, depending on the specific experimental design.

Importantly, the MSSR is eager to develop and/or implement new workflows, LC and MS methods as needed to address specific biological questions if our current capabilities are not able to.

Leadership

Paolo Cifani, Ph.D., Director
email cifani@cshl.edu, phone (516) 367-6806

John Moses, Ph.D., Faculty Head

email moses@cshl.edu

Location and hours of operation

Monday thru Friday
9am to 5pm

Beckman Building Room 113

Links and Resources

1. https://www.cshl.edu/research/cancer/mass-spectrometry-facility/

2. https://cifanilab.labsites.cshl.edu/faq/faq/

Contacts

Name	Role	Phone	Email	Location
Paolo Cifani	Director	516-367-6806	cifani@cshl.edu	Beckman room 143
Maria Antonelli	Proteomics	516-367-8452	antonelli@cshl.edu	Beckman room 103
Darcy Cochran	Metabolomics	516-367-8452	cochran@cshl.edu	Beckman room 113

Fixed Cost Services

Name	Description	Price
Custom Drug/Small Molecule Assay	Monitoring of drugs and/or small molecules. Batches >40 are subject to a 20% discount on a per sample run cost. Batches >100 are subject to a 35% discount on a per sample run cost. Batches >200 are subject to a 60% discount on a per sample run cost.	Inquire
Vitamin C Analysis	Determine level of Vitamin C from tissue and/or cells.
Vitamin K3 Analysis	Determine amount of Vitamin K3 from samples.

Search available services: View: by category alphabetically

Name	Description	Price
▼ ► Discontinued (2)
Vitamin C Analysis	Determine level of Vitamin C from tissue and/or cells.
Vitamin K3 Analysis	Determine amount of Vitamin K3 from samples.
▼ ► Targeted/Untargeted small molecule analysis (1)
Name	Description	Price
Custom Drug/Small Molecule Assay	Monitoring of drugs and/or small molecules. Batches >40 are subject to a 20% discount on a per sample run cost. Batches >100 are subject to a 35% discount on a per sample run cost. Batches >200 are subject to a 60% discount on a per sample run cost.	Inquire