PUBLISHED WORK

2020

METABOLIC PRECISION LABELING ENABLES SELECTIVE PROBING OF O-LINKED N-ACETYLGALACTOSAMINE GLYCOSYLATION

M.F. Debets, O.Y. Tastan, S.P. Wisnovsky, S.A. Malaker, N. Angelis, L.K.R. Moeckl, J. Choi, H. Flynn, L.J.S. Wagner, G. Bineva-Todd, A. Antononopoulos, A. Cioce, W.M. Browne, Z. Li, D.C. Briggs, H.L. Douglas, G.T. Hess, A.J. Agbay, C. Roustan, S. Kjaer, S.M. Haslam, A.P. Snijders, M.C. Bassik, W.E. Moerner, V.S.W. Li, C.R. Bertozzi, and B. Schumann. Metabolic precision labeling enables selective probing of O-linked N-acetylgalactosamine glycosylation. bioRXiv

2020

OPTIMAL DISSOCIATION METHODS DIFFER FOR N- AND O-GLYCOPEPTIDES

N.M. Riley, S.A. Malaker, M.D. Driessen, and C.R. Bertozzi. Optimal dissociation methods differ for N- and O-glycopeptides. ChemRXiv

2020

BUMP-AND-HOLE ENGINEERING IDENTIFIES SPECIFIC SUBSTRATES OF GLYCOSYLTRANSFERASES IN LIVING CELLS

B. Schumann, S.A. Malaker ǂ, S.P. Wisnovsky ǂ, M.F. Debets, A.J. Agbay, L.J.S. Wagner, L. Lin, Z. Li, J. Choi, D.M. Fox, J.M. Peh, M.A. Gray, K. Pedram, J.J. Kohler, M. Mrksich, and C.R. Bertozzi. Bump-and-Hole Engineering Identifies Specific Substrates of Glycosyltransferases in Living Cells. Molecular Cell, In Press. link

2019

ENGINEERING ORTHOGONAL POLYPEPTIDE GALNAC-TRANSFERASE AND UDP-SUGAR PAIRS

J. Choi, L.J.S. Wagner, S.B.P.E. Timmermans, S.A. Malaker, B. Schumann, M.A. Gray, M.F. Debets, M.Takashima, J.Gehring, and C.R. Bertozzi. Engineering Orthogonal Polypeptide GalNAc-Transferase and UDP-Sugar Pairs. Journal of the American Chemical Society. 2019; 141(34): 13442-13453. link

2019

THE MUCIN-SELECTIVE PROTEASE STCE ENABLES MOLECULAR AND FUNCTIONAL ANALYSIS OF HUMAN CANCER-ASSOCIATED MUCINS

S.A. Malaker ǂ, K. Pedram ǂ, M.J. Ferracane, B.A. Bensing, V. Krishnan, C. Pett, J. Yu, E.C. Woods, J.R. Kramer, U. Westerlind, O. Dorigo, and C.R. Bertozzi. The mucin-selective protease StcE enables molecular and functional analysis of human cancer-associated mucins. Proceedings of the National Academy of Sciences USA. 2019, 116(15): 7278-7287. link

2019

ISOLATION OF MAJOR HISTOCOMPATIBILITY COMPLEX (MHC)-ASSOCIATED PEPTIDES BY IMMUNOAFFINITY PURIFICATION

S.A. Penny and S.A. Malaker**. Isolation of Major Histocompatibility Complex (MHC)-Associated Peptides by Immunoaffinity Purification. In: Fulton K., Twine S. (eds) Immunoproteomics. Methods in Molecular Biology, 2019, vol 2024. Humana, New York, NY. link

2019

MASS SPECTROMETRIC IDENTIFICATION AND MOLECULAR MODELING OF GLYCOPEPTIDES PRESENTED BY MHC CLASS I AND II PROCESSING PATHWAYS

S.A. Malaker**, Michael J. Ferracane. Mass Spectrometric Identification and Molecular Modeling of Glycopeptides Presented by MHC Class I and II Processing Pathways. In: Fulton K., Twine S. (eds) Immunoproteomics. Methods in Molecular Biology, 2019, vol 2024. Humana, New York, NY. link

2019

MAMMALIAN Y-RNAS ARE GLYCOSYLATED AT DISCRETE GUANOSINE RESIDUES WITH N-TYPE GLYCANS

R.A. Flynn, B.A.H. Smith, A. Johnson, K. Pedram, B.M. George, S.A. Malaker, K. Majzoub, J.E. Carette, and C.R. Bertozzi. Mammalian Y-RNAs are glycosylated at discrete guanosine residues with N-type glycans. bioRXiv

2019

TARGETED DESIALYLATION OVERCOMES GLYCO-IMMUNE CHECKPOINTS AND POTENTIATES THE ANTICANCER IMMUNE RESPONSE IN VIVO

M.A. Gray, M.A. Stanczak, H. Xiao, J.F.A. Pijnenborg, N.R. Mantuano, S.A. Malaker, P.A. Weidenbacher, C.L. Miller, J. T. Tanzo, G. Ahn, E.C. Woods, H. Läubli, and C.R. Bertozzi. Targeted desialylation overcomes glyco-immune checkpoints and potentiates the anticancer immune response in vivo. Under Review. ChemRXiv

2019

METHODS MATTER -- STANDARD PRODUCTION PLATFORMS FOR RECOMBINANT AAV PRODUCE CHEMICALLY AND FUNCTIONALLY DISTINCT VECTORS

N.G. Rumachik, S.A. Malaker, N. Poweleit, L. Maynard, C.M. Adams, R. Leib, G. Cirolia, D. Thomas, S. Stamnes, K. Holt, P. Sinn, A.P. May, and N.K. Paulk. Methods Matter -- Standard Production Platforms for Recombinant AAV Produce Chemically and Functionally Distinct Vectors. Under Review. bioRXiv

2017

SHARED BINDING SPECIFICITIES OF HLA CLASS I AND CLASS II ALLELES ASSOCIATE WITH CUTANEOUS NEVIRAPINE HYPERSENSITIVITY AND IDENTIFY NOVEL RISK ALLELES

R. Pavlos, E.J. McKinnon, D.A. Ostrov, B. Peters , S. Buus, D. Koelle, A. Chopra, R. Schutte, C. Rive, A. Redwood, S. Restrepo, A. Bracey, T. Kaever, P.T. Myers, E.H. Spears, S.A. Malaker, J. Shabanowitz, J. Yuan, S. Gaudieri, D.F. Hunt, M. Carrington, D.W. Haas, S. Mallal, and E.J. Phillips. Shared binding specificities of HLA Class I and Class II Alleles Associate with Cutaneous Nevirapine Hypersensitivity and Identify Novel Risk Alleles. Scientific Reports. 2017 Aug 17;7(1):8653. link

2017

IDENTIFICATION OF GLYCOPEPTIDES AS POSTTRANSLATIONALLY MODIFIED NEOANTIGENS IN LEUKEMIA

S.A. Malaker ǂ, S.A. Penny ǂ, L. Steadman, P.T. Myers, J.C. Loke, M. Raghavan, D. L. Bai, J. Shabanowitz, D.F. Hunt, M. Cobbold. Identification of glycopeptides as post-translationally modified neoantigens in leukemia. Cancer Immunology Research. 2017, 5(5): 376-384. link

2017

PEPTIDE BINDING MOTIFS OF TWO COMMON EQUINE CLASS I MHC MOLECULES IN THOROUGHBRED HORSES

T. Bergmann, M. Lindvall, E. Moore, E. Moore, J. Sidney, D. Miller, R. Tallmadge, P.T. Myers, S.A. Malaker, J. Shabanowitz, N. Osterrieder, B. Peters, D.F. Hunt, D.F. Antczak, and A. Sette. Peptide binding motifs of two common equine class I MHC molecules in thoroughbred horses. Immunogenetics. 2017; 69(5): 351-358. link

2017

CANONICAL AND CROSS-REACTIVE BINDING OF NK CELL INHIBITORY RECEPTORS TO HLA-C ALLOTYPES IS DICTATED BY PEPTIDES BOUND TO HLA-C

M.J.W.Sim, S.A. Malaker, A. Khan, J.M. Stowell, J. Shabanowitz, M.E. Peterson, S. Rajagopalan, D.F. Hunt, D.M. Altmann, E.O. Long, and R.J. Boyton. Canonical and Cross-reactive Binding of NK Cell Inhibitory Receptors to HLA-C Allotypes Is Dictated by Peptides Bound to HLA-C. Frontiers Immunology. 2017, 8(193). link

2017

IDENTIFICATION AND CHARACTERIZATION OF COMPLEX GLYCOSYLATED PEPTIDES PRESENTED BY THE MHC CLASS II PROCESSING PATHWAY IN MELANOMA

S.A. Malaker, M.J. Ferracane, F.R. Depontieu, A.L. Zarling, J. Shabanowitz, D.L. Bai, S. Topalian, V.H. Engelhard, and D.F. Hunt. Identification and Characterization of Complex Glycosylated Peptides Presented by the MHC Class II Processing Pathway in Melanoma. Journal of Proteome Research. 2017, 16(1): 228-237. link

2013

MHC CLASS I–ASSOCIATED PHOSPHOPEPTIDES ARE THE TARGETS OF MEMORY-LIKE IMMUNITY IN LEUKEMIA

M. Cobbold, H. De La Pena, A. Norris, J. Polefrone, J.E. Turner, J. Qian, A.M. English, Je.G. Abelin, S.A. Malaker, A.L. Zarling, H-W. Huang, S.A. Penny, S. Freeman, J. Shabanowitz, G. Pratt, C. Craddock, M.E. Williams, D.F. Hunt, and V.H. Engelhard. MHC Class I–Associated Phosphopeptides Are the Targets of Memory-like Immunity in Leukemia. Science Translational Medicine. 5(203) 203ra125 (2013). link