Joseph Zaia, PhD
Professor
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.

Member
Boston University
Bioinformatics Graduate Program


Member
Boston University
BU-BMC Cancer Center


Member
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
10/01/2020 - 09/30/2023 (PI)
Waters Technologies Corporation


Measuring glycosylation to improve the influenza A virus vaccine
07/01/2020 - 06/30/2023 (PI)
Massachusetts Life Sciences Center


Methods for determination of glycoprotein glycosylation similarities among disease states
09/01/2019 - 06/30/2023 (PI)
NIH/National Institute of General Medical Sciences
3R01GM133963-02S1

Glycomics and proteomics of brain specimens
03/15/2018 - 12/31/2022 (Subcontract PI)
The Scripps Research Institute NIH NIDA
5R01DA046170-03

An open-source software suite for processing glycomics and glycoproteomics mass spectral data
08/14/2017 - 07/31/2021 (PI)
NIH/National Cancer Institute
5U01CA221234-03

Thalamic Axonal Pathways and Extracellular Matrix Abnormalities in Schizophrenia
09/01/2015 - 12/31/2019 (Subcontract PI)
McLean Hospital Corporation NIH NIMH
5R01MH105608-04

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
4U01CA168878-05

Software for Automated Interpretation of Heparan Sulfate Tandem Mass Spectra
09/15/2015 - 06/30/2018 (PI)
NIH/National Heart, Lung, and Blood Institute
3R21HL131554-02S1

Quantitative Profiling of Glycosaminoglycans from Breast Tumor Tissue Arrays
07/09/2014 - 06/30/2018 (PI)
NIH/National Cancer Institute
5R21CA177479-03

Viral Vector Transduction Deficiencies in the Aged Nigrostriatal System
09/30/2016 - 06/30/2017 (Subcontract PI)
Michigan State University NIH NIA
1R56AG052328-01A1

Showing 10 of 22 results. Show All Results


Title


Yr Title Project-Sub Proj Pubs
2021 Selecting HA glycosylation for improved vaccine responses 1R01AI155975-01A1
2021 Methods for determination of glycoprotein glycosylation similarities among disease states 5R01GM133963-03 4
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
Showing 10 of 138 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. Maciej-Hulme ML, Dubaissi E, Shao C, Zaia J, Amaya E, Flitsch SL, Merry CLR. Selective Inhibition of Heparan Sulphate and Not Chondroitin Sulphate Biosynthesis by a Small, Soluble Competitive Inhibitor. Int J Mol Sci. 2021 Jun 29; 22(13). PMID: 34209670; PMCID: PMC8269443; DOI: 10.3390/ijms22136988;
     
  2. Hogan JD, Wu J, Klein JA, Lin C, Carvalho L, Zaia J. GAGrank: Software for Glycosaminoglycan Sequence Ranking Using a Bipartite Graph Model. Mol Cell Proteomics. 2021 May 14; 20:100093. PMID: 33992776; PMCID: PMC8214146; DOI: 10.1016/j.mcpro.2021.100093;
     
  3. Wu J, Chopra P, Boons GJ, Zaia J. Influence of saccharide modifications on heparin lyase III substrate specificities. Glycobiology. 2021 Apr 01. PMID: 33822051
     
  4. Chang D, Zaia J. Methods to improve quantitative glycoprotein coverage from bottom-up LC-MS data. Mass Spectrom Rev. 2021 Mar 25. PMID: 33764573
     
  5. Wang M, Shajahan A, Pepi LE, Azadi P, Zaia J. Glycoproteomic Sample Processing, LC-MS, and Data Analysis Using GlycReSoft. Curr Protoc. 2021 Mar; 1(3):e84. PMID: 33761173
     
  6. 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 01 19; 118(3). PMID: 33441484; PMCID: PMC7826381; DOI: 10.1073/pnas.2012935118;
     
  7. 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; PMCID: PMC7873738; DOI: 10.3389/fonc.2020.582827;
     
  8. Hackett WE, Zaia J. Calculating Glycoprotein Similarities From Mass Spectrometric Data. Mol Cell Proteomics. 2021 Jan 06; 20:100028. PMID: 32883803
     
  9. 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
     
  10. 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 11 17; 59(45):4367-4378.View Related Profiles. PMID: 33141553; PMCID: PMC8082438; DOI: 10.1021/acs.biochem.0c00590;
     
Showing 10 of 201 results. Show More

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

Bar chart showing 201 publications over 32 distinct years, with a maximum of 22 publications in 2011

YearPublications
19851
19872
19911
19921
19943
19951
19964
19971
19983
19993
20003
20014
20022
20034
20043
20053
20068
20072
20087
20098
201011
201122
201211
201316
201410
20158
201610
20175
201811
201911
202014
20218
In addition to these self-described keywords below, a list of MeSH based concepts is available here.

glycomics
glycosaminoglycan
heparan sulfate
heparin
mass spectrometry
proteoglycan
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670 Albany St Biosquare III
Boston MA 02118
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