Matthieu Schapira

Matthieu Schapira

SGC Toronto

Schapira

Matthieu Schapira

MaRS Centre, South Tower, 101 College St., Suite 700, Toronto, ON, M5G 1L7, Canada

Affiliations

Biography

Matthieu Schapira, PhD is a Professor in the Department of Pharmacology and Toxicology, UofT, and is the head of computational chemistry, protein bioinformatics, and data management at the SGC-Toronto. He leads the CACHE initiative for benchmarking computational ‘hit finding’. Dr. Schapira is a recognized authority in the structural chemistry of drug target classes such as chromatin regulators, ubiquitylation pathways and WDR proteins, and has created popular online informatics resources for these targets such as Chromohub, Ubihub and ChemBioPort. He is interested in novel strategies to expand and ML tools to exploit the accessible chemistry space. His trainees have gone on to become important innovators in AI-driven drug discovery at Toronto-born biotechs such as Atomwise and Cyclica.

Positions available

A chemical probe targeting the PWWP domain alters NSD2 nucleolar localization.

Dilworth D, Hanley RP, Ferreira de Freitas R, Allali-Hassani A, Zhou M, Mehta N, Marunde MR, Ackloo S, Carvalho Machado RA, Khalili Yazdi A, Owens DDG, Vu V, Nie DY, Alqazzaz M, Marcon E, Li F, Chau I, Bolotokova A, Qin S, Lei M, Liu Y, Szewczyk MM, Dong A, Kazemzadeh S, Abramyan T, Popova IK, Hall NW, Meiners MJ, Cheek MA, Gibson E, Kireev D, Greenblatt JF, Keogh MC, Min J, Brown PJ, Vedadi M, Arrowsmith CH, Barsyte-Lovejoy D, James LI, Schapira M

Nat Chem Biol. 2021 . doi: 10.1038/s41589-021-00898-0

PMID: 34782742

Structure-Activity Relationship of USP5 Inhibitors.

Mann MK, Zepeda-Velázquez CA, González-Álvarez H, Dong A, Kiyota T, Aman AM, Loppnau P, Li Y, Wilson B, Arrowsmith CH, Al-Awar R, Harding RJ, Schapira M

J Med Chem. 2021 . doi: 10.1021/acs.jmedchem.1c00889

PMID: 34648286

Genetic Variability of the SARS-CoV-2 Pocketome.

Yazdani S, De Maio N, Ding Y, Shahani V, Goldman N, Schapira M

J Proteome Res. 2021 . doi: 10.1021/acs.jproteome.1c00206

PMID: 34180678

Structure-based view of the druggable genome.

Wang J, Yazdani S, Han A, Schapira M

Drug Discov. Today. 2020 . doi: 10.1016/j.drudis.2020.02.006

PMID: 32084498

Targeted protein degradation: expanding the toolbox.

Schapira M, Calabrese MF, Bullock AN, Crews CM

Nat Rev Drug Discov. 2019 . doi: 10.1038/s41573-019-0047-y

PMID: 31666732

Discovery of small molecule antagonists of the USP5 zinc finger ubiquitin-binding domain.

Mann MK, Franzoni I, de Freitas RF, Tempel W, Houliston S, Smith L, Vedadi M, Arrowsmith CH, Harding RJ, Schapira M

J. Med. Chem.. 2019 . doi: 10.1021/acs.jmedchem.9b00988

PMID: 31663737

UbiHub: a data hub for the explorers of ubiquitination pathways.

Liu L, Damerell DR, Koukouflis L, Tong Y, Marsden BD, Schapira M

Bioinformatics. 2019 . doi: 10.1093/bioinformatics/bty1067

PMID: 30601939

Identification and Structure-Activity Relationship of HDAC6 Zinc-Finger Ubiquitin Binding Domain Inhibitors.

Ferreira de Freitas R, Harding RJ, Franzoni I, Ravichandran M, Mann MK, Ouyang H, Lautens M, Santhakumar V, Arrowsmith CH, Schapira M

J. Med. Chem.. 2018 . doi: 10.1021/acs.jmedchem.8b00258

PMID: 29741882

A systematic analysis of atomic protein-ligand interactions in the PDB.

Ferreira de Freitas R, Schapira M

Medchemcomm. 2017 8(10):1970-1981. doi: 10.1039/c7md00381a

PMID: 29308120

2024

Subpocket Similarity-Based Hit Identification for Challenging Targets: Application to the WDR Domain of LRRK2.

Eguida M, Bret G, Sindt F, Li F, Chau I, Ackloo S, Arrowsmith C, Bolotokova A, Ghiabi P, Gibson E, Halabelian L, Houliston S, Harding RJ, Hutchinson A, Loppnau P, Perveen S, Seitova A, Zeng H, Schapira M, Rognan D

J Chem Inf Model. 2024-6-25 . .doi: 10.1021/acs.jcim.4c00601

PMID: 38916159

The Pan-Canadian Chemical Library: A Mechanism to Open Academic Chemistry to High-Throughput Virtual Screening.

Bedart C, Shimokura G, West FG, Wood TE, Batey RA, Irwin JJ, Schapira M

Sci Data. 2024-6-6 . 11(1):597 .doi: 10.1038/s41597-024-03443-5

PMID: 38844472

A chemical probe to modulate human GID4 Pro/N-degron interactions.

Owens DDG, Maitland MER, Khalili Yazdi A, Song X, Reber V, Schwalm MP, Machado RAC, Bauer N, Wang X, Szewczyk MM, Dong C, Dong A, Loppnau P, Calabrese MF, Dowling MS, Lee J, Montgomery JI, O'Connell TN, Subramanyam C, Wang F, Adamson EC, Schapira M, Gstaiger M, Knapp S, Vedadi M, Min J, Lajoie GA, Barsyte-Lovejoy D, Owen DR, Schild-Poulter C, Arrowsmith CH

Nat Chem Biol. 2024-5-21 . .doi: 10.1038/s41589-024-01618-0

PMID: 38773330

Development of Peptide Displacement Assays to Screen for Antagonists of DDB1 Interactions.

Yong D, Ahmad S, Mabanglo MF, Halabelian L, Schapira M, Ackloo S, Perveen S, Ghiabi P, Vedadi M

Biochemistry. 2024-5-10 . .doi: 10.1021/acs.biochem.4c00044

PMID: 38729622

Emerging structure-based computational methods to screen the exploding accessible chemical space.

Bedart C, Simoben CV, Schapira M

Curr Opin Struct Biol. 2024-4-10 . 86:102812 .doi: 10.1016/j.sbi.2024.102812

PMID: 38603987

Big data and benchmarking initiatives to bridge the gap from AlphaFold to drug design.

Schapira M, Halabelian L, Arrowsmith CH, Harding RJ

Nat Chem Biol. 2024-3-8 . .doi: 10.1038/s41589-024-01570-z

PMID: 38459278

Small Molecule Screen Identifies Non-catalytic USP3 Chemical Handle.

Mann MK, Wolf E, Silva M, Kwak HA, Wilson B, Bolotokova A, Wilson DJ, Harding RJ, Schapira M

ACS Omega. 2024-1-9 . 9(1):917-924 .doi: 10.1021/acsomega.3c07070

PMID: 38222562

2023

Methods for computer-assisted PROTAC design.

Rovers E, Schapira M

Methods Enzymol. 2023-10-20 . 690:311-340 .doi: 10.1016/bs.mie.2023.06.020

PMID: 37858533

Discovery and Characterization of a Chemical Probe Targeting the Zinc-Finger Ubiquitin-Binding Domain of HDAC6.

Harding RJ, Franzoni I, Mann MK, Szewczyk MM, Mirabi B, Ferreira de Freitas R, Owens DDG, Ackloo S, Scheremetjew A, Juarez-Ornelas KA, Sanichar R, Baker RJ, Dank C, Brown PJ, Barsyte-Lovejoy D, Santhakumar V, Schapira M, Lautens M, Arrowsmith CH

J Med Chem. 2023-7-27 . .doi: 10.1021/acs.jmedchem.3c00314

PMID: 37499118

Discovery of a Novel DCAF1 Ligand Using a Drug-Target Interaction Prediction Model: Generalizing Machine Learning to New Drug Targets.

Kimani SW, Owen J, Green SR, Li F, Li Y, Dong A, Brown PJ, Ackloo S, Kuter D, Yang C, MacAskill M, MacKinnon SS, Arrowsmith CH, Schapira M, Shahani V, Halabelian L

J Chem Inf Model. 2023-6-23 . .doi: 10.1021/acs.jcim.3c00082

PMID: 37350740