Joseph Zaia, PhD
Boston University School of Medicine
Dept of Biochemistry

PhD, Massachusetts Institute of Technology

The manner in which a cell responds to many growth factor stimuli depends on interactions between glycosaminoglycans (GAGs), growth factors, and growth factor receptors. Extracellular matrix GAGs binds growth factors, creating morphogens gradients essential to tissue patterning. Because these events depend on the fine structure of the GAG chains present, regulation of GAG biosynthesis is a key factor for understanding normal and disease related cellular growth
The key to exploiting an understanding of GAG structure-function relationships for human disease therapy is to winnow oligosaccharide-protein binding patterns from heterogeneous biological preparations. Toward this end, we have developed mass spectral methods for GAGs that enable comparison of structures as a function of biological variables.

The long term research aims are (1) to develop a fundamental understanding of the manner in which glycosaminoglycan expression is varied according to the cellular growth environment related to human disease and (2) to identify HS chain structures useful as therapeutic targets.

New bioinformatics methods are essential to realizing these goals. The data produced using our methods are information rich and not amenable to manual interpretation. Further, the methods needed are distinct from those used in genomics and proteomics. We are developing bioinformatics methods appropriate for interpretation of structural data on glycosaminoglycans and other carbohydrates to identify targets for disease therapy.

Boston University
Bioinformatics Graduate Program

Boston University
BU-BMC Cancer Center

Boston University
Genome Science Institute

Center Faculty Member
Boston University School of Medicine
Mass Spectrometry

Graduate Faculty (Primary Mentor of Grad Students)
Boston University School of Medicine, Graduate Medical Sciences

Developing new glycosylation analysis techniques and software to enable generation of more effective Influenza A virus vaccines
01/01/2021 - 12/31/2023 (PI)
Waters Technologies Corporation

Methods for determination of glycoprotein glycosylation similarities among disease states
09/01/2019 - 06/30/2023 (PI)
NIH/National Institute of General Medical Sciences

Glycomics and proteomics of brain specimens
03/15/2018 - 12/31/2022 (Subcontract PI)
The Scripps Research Institute NIH NIDA

An open-source software suite for processing glycomics and glycoproteomics mass spectral data
08/14/2017 - 07/31/2021 (PI)
NIH/National Cancer Institute

Thalamic Axonal Pathways and Extracellular Matrix Abnormalities in Schizophrenia
09/01/2015 - 12/31/2019 (Subcontract PI)
McLean Hospital Corporation NIH NIMH

Proteomic and glycomic analysis of human brain and lung cancers
07/01/2016 - 06/30/2018 (Subcontract PI)
The Regents of the University of California, San Francisco NIH NCI

Software for Automated Interpretation of Heparan Sulfate Tandem Mass Spectra
09/15/2015 - 06/30/2018 (PI)
NIH/National Heart, Lung, and Blood Institute

Quantitative Profiling of Glycosaminoglycans from Breast Tumor Tissue Arrays
07/09/2014 - 06/30/2018 (PI)
NIH/National Cancer Institute

Viral Vector Transduction Deficiencies in the Aged Nigrostriatal System
09/30/2016 - 06/30/2017 (Subcontract PI)
Michigan State University NIH NIA

Quantitative glycomics and proteomics combined with laser capture microdissection
06/01/2013 - 05/21/2017 (PI)
Agilent Technologies, Inc.

Showing 10 of 21 results. Show All Results


Yr Title Project-Sub Proj Pubs
2020 Methods for determination of glycoprotein glycosylation similarities among disease states 5R01GM133963-02 4
2020 Methods for determination of glycoprotein glycosylation similarities among disease states 3R01GM133963-02S1 4
2019 Methods for determination of glycoprotein glycosylation similarities among disease states 1R01GM133963-01 4
2019 An open-source software suite for processing glycomics and glycoproteomics mass spectral data 5U01CA221234-03 11
2018 An open-source software suite for processing glycomics and glycoproteomics mass spectral data 5U01CA221234-02 11
2017 An open-source software suite for processing glycomics and glycoproteomics mass spectral data 1U01CA221234-01 11
2016 A Thermo-Fisher Scientific Q-Exactive HF Mass Spectrometry System 1S10OD021651-01 6
2016 Software for automated interpretation of heparan sulfate tandem mass spectra 5R21HL131554-02 10
2016 Software for automated interpretation of heparan sulfate tandem mass spectra 3R21HL131554-02S1 10
2016 Quantitative profiling of glycosaminoglycans from breast tumor tissue arrays 5R21CA177479-03 12
Showing 10 of 136 results. Show All Results

Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Faculty can login to make corrections and additions.

iCite Analysis       Copy PMIDs To Clipboard

  1. Chopra P, Joshi A, Wu J, Lu W, Yadavalli T, Wolfert MA, Shukla D, Zaia J, Boons GJ. The 3-O-sulfation of heparan sulfate modulates protein binding and lyase degradation. Proc Natl Acad Sci U S A. 2021 Jan 19; 118(3). PMID: 33441484
  2. Yang Y, Ahn J, Raghunathan R, Kallakury BV, Davidson B, Kennedy ZB, Zaia J, Goldman R. Expression of the Extracellular Sulfatase SULF2 Affects Survival of Head and Neck Squamous Cell Carcinoma Patients. Front Oncol. 2020; 10:582827.View Related Profiles. PMID: 33585200
  3. Chang D, Hackett WE, Zhong L, Wan XF, Zaia J. Measuring Site-specific Glycosylation Similarity between Influenza a Virus Variants with Statistical Certainty. Mol Cell Proteomics. 2020 Sep; 19(9):1533-1545. PMID: 33451734
  4. Torres-Arancivia CM, Chang D, Hackett WE, Zaia J, Connors LH. Glycosylation of Serum Clusterin in Wild-Type Transthyretin-Associated (ATTRwt) Amyloidosis: A Study of Disease-Associated Compositional Features Using Mass Spectrometry Analyses. Biochemistry. 2020 Nov 17; 59(45):4367-4378.View Related Profiles. PMID: 33141553
  5. Chang D, Zaia J. Why Glycosylation Matters in Building a Better Flu Vaccine. Mol Cell Proteomics. 2019 Dec; 18(12):2348-2358. PMID: 33451453
  6. Klein J, Zaia J. psims - A Declarative Writer for mzML and mzIdentML for Python. Mol Cell Proteomics. 2019 Mar; 18(3):571-575. PMID: 33431130
  7. Raghunathan R, Sethi MK, Klein JA, Zaia J. Proteomics, Glycomics, and Glycoproteomics of Matrisome Molecules. Mol Cell Proteomics. 2019 Nov; 18(11):2138-2148.View Related Profiles. PMID: 33451368
  8. Hackett WE, Zaia J. Calculating glycoprotein similarities from mass spectrometric data. Mol Cell Proteomics. 2020 Sep 03. PMID: 32883803
  9. Zaia J. Native Mass Spectrometry Sheds Light on Formation of Deadly Heparin-PF4 Complexes. Biophys J. 2020 Oct 06; 119(7):1267. PMID: 32888403
  10. De Leoz MLA, Duewer DL, Fung A, Liu L, Yau HK, Potter O, Staples GO, Furuki K, Frenkel R, Hu Y, Sosic Z, Zhang P, Altmann F, Grunwald-Grube C, Shao C, Zaia J, Evers W, Pengelley S, Suckau D, Wiechmann A, Resemann A, Jabs W, Beck A, Froehlich JW, Huang C, Li Y, Liu Y, Sun S, Wang Y, Seo Y, An HJ, Reichardt NC, Ruiz JE, Archer-Hartmann S, Azadi P, Bell L, Lakos Z, An Y, Cipollo JF, Pucic-Bakovic M, Štambuk J, Lauc G, Li X, Wang PG, Bock A, Hennig R, Rapp E, Creskey M, Cyr TD, Nakano M, Sugiyama T, Leung PA, Link-Lenczowski P, Jaworek J, Yang S, Zhang H, Kelly T, Klapoetke S, Cao R, Kim JY, Lee HK, Lee JY, Yoo JS, Kim SR, Suh SK, de Haan N, Falck D, Lageveen-Kammeijer GSM, Wuhrer M, Emery RJ, Kozak RP, Liew LP, Royle L, Urbanowicz PA, Packer NH, Song X, Everest-Dass A, Lattová E, Cajic S, Alagesan K, Kolarich D, Kasali T, Lindo V, Chen Y, Goswami K, Gau B, Amunugama R, Jones R, Stroop CJM, Kato K, Yagi H, Kondo S, Yuen CT, Harazono A, Shi X, Magnelli PE, Kasper BT, Mahal L, Harvey DJ, O'Flaherty R, Rudd PM, Saldova R, Hecht ES, Muddiman DC, Kang J, Bhoskar P, Menard D, Saati A, Merle C, Mast S, Tep S, Truong J, Nishikaze T, Sekiya S, Shafer A, Funaoka S, Toyoda M, de Vreugd P, Caron C, Pradhan P, Tan NC, Mechref Y, Patil S, Rohrer JS, Chakrabarti R, Dadke D, Lahori M, Zou C, Cairo C, Reiz B, Whittal RM, Lebrilla CB, Wu L, Guttman A, Szigeti M, Kremkow BG, Lee KH, Sihlbom C, Adamczyk B, Jin C, Karlsson NG, Örnros J, Larson G, Nilsson J, Meyer B, Wiegandt A, Komatsu E, Perreault H, Bodnar ED, Said N, Francois YN, Leize-Wagner E, Maier S, Zeck A, Heck AJR, Yang Y, Haselberg R, Yu YQ, Alley W, Leone JW, Yuan H, Stein SE. NIST Interlaboratory Study on Glycosylation Analysis of Monoclonal Antibodies: Comparison of Results from Diverse Analytical Methods. Mol Cell Proteomics. 2020 Jan; 19(1):11-30. PMID: 33451547
Showing 10 of 196 results. Show More

This graph shows the total number of publications by year, by first, middle/unknown, or last author.

Bar chart showing 196 publications over 32 distinct years, with a maximum of 22 publications in 2011

In addition to these self-described keywords below, a list of MeSH based concepts is available here.

heparan sulfate
mass spectrometry
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670 Albany St Biosquare III
Boston MA 02118
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