Work with Us

Equipment in the Paulovich lab

Mission Statement

Our interdisciplinary team aims to foster the uptake of proteomic technologies in a rigorous fashion to enable basic and clinical studies and ultimately improve the quality of patient care.

Services Offered

  1. We have developed and analytically validated a collection of targeted Mass Spectrometry-based proteomic assays (e.g. multiple reaction monitoring, MRM) spanning multiple cellular pathways, and we can run these assays in your clinical or basic biological biospecimens.
    Go to our Proteomic Assays page
  2. Collaborations on the development and rigorous analytical validation of novel (not covered in 1. above) targeted MS-based proteomic assays, including development and validation of antibody reagents (polyclonal and monoclonal), and deployment of the assays in your clinical or basic biological biospecimens.
  3. Consultation or collaborations with study design using proteomic technologies, including preclinical studies (using cell lines, model organisms, animal models) as well as clinical studies.  Emphasis on maximizing the depth, reproducibility, and quantitative quality of proteomic data while eliminating bias.
  4. Collaborations writing new grants leveraging state-of-the-art proteomic technologies. We have a wealth of preliminary data demonstrating proteomic capabilities that can be combined with your biological or clinical questions to produce competitive grant applications. Collaborations to identify novel biomarkers, from proteo-genomic discovery of candidate biomarkers through verification and ultimately, validation studies.
  5. Screening monoclonal antibody collections for activity in targeted MS-based assays.
  6. Analytical testing and validation of new products that can augment proteomic workflows.
  7. Training and technology transfer: we can help you set up a new proteomic operation, including training staff.

Core Competencies

  1. Sample fractionation to increase the depth of coverage achieved in mass spectrometry experiments.
  2. Development and rigorous analytical validation of targeted MS-based assays, especially MRM and immuno-MRM assays.
  3. Validation of affinity reagents for enriching analytes of interest.
  4. Isotopic labeling of proteins, and deep phospho and global LC-MS/MS discovery profiling for generation of targeted proteomic assay candidates.
  5. Acquisition and analysis/interpretation of MS data.

Contact Us

Email us if you would like to collaborate with us, or contract with the Paulovich Laboratory on any of our services.

Typical Proteomics Results

TMT 10 plex Work Flows Mass / sample (ug) # MS runs MS time (days) global peptides global proteins PO4 sites pY sites
Global 20 24 3 75k-90k 7.1k-7.6k    
Global + deep PO4 500 36 4.5 75k-90k 7.1k-7.6k 10k-21k  
Global + deep PO4 + pY 500 37 4.6 75k-90k 7.1k-7.6k 10k-21k 500-600
Global + 1 step PO4 100 25 3.1 75k-90k 7.1k-7.6k  3-6k  
deep PO4 500 12 1.5 NA NA 10k-21k  
deep PO4 + pY 500 13 1.6 NA NA 10k-21k 500-600
1 Step PO4 (done in triplicate) 75 3 0.4 NA NA  3-6k  


Typical Specimen Yields

Biospecimen Estimated protein yield
MCF10A 300 µg / 106 cells
HMEC 200 µg / 106 cells
LBL 100 µg / 106 cells
PBMC (Ficoll preparation) 65 µg / 106 cells
PBMC (expanded in culture) 25 µg / 106 cells
AML blasts  18 µg / 106 cells 
Breast tumor tissue (fresh frozen) 20-50 µg /mg wet wt. input (2.0-5.0% yield) 
Ovarian tumor tissue (fresh frozen)  25-45 µg /mg wet wt. input (2.5-4.5% yield)  
Pediatric brain tumor tissue (fresh frozen) 30-65 µg /mg wet wt. input (3.0-6.5% yield) 
FFPE section (1cm x 1cm x 10µm) 20-50 µg 
Laser Capture Microdissected tissue 3-5 µg / 10,000 cells 
Core Needle Biopsy    (16G x 1 cm) 100-200 µg
Core Needle Biopsy    (18G x 1 cm) 50-100 µg
Core Needle Biopsy    (20G x 1 cm) 30-60 µg
Core Needle Biopsy    (21G x 1 cm) 20-40 µg