Matthew Bogyo

Also affiliated with Stanford University

MedicineMaterials ScienceNeuroscienceChemistry

Pilot corpus only

This score is computed over theSindex pilot corpus and does not cover the full scientific literature. Scores are relative to papers we have ingested — papers, authors, and institutions outside the pilot are not represented. Methodology.

Top 100%percentile

0Author DataRank

Indexed papers

2in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

An author's DataRank is the sum of the DataRanks of all 2 indexed papers attributed to them. A prolific author with many moderate-impact papers can outrank one with a single high-impact paper.

Author scores recompute whenever paper DataRanks are refreshed, so this number lags the underlying paper scores by at most one batch run.

Read the full methodology →

Papers

Driven by 50 papers. Top paper: “Activity-Based Profiling of Proteases”.

Activity-Based Profiling of Proteases

Annual Review of Biochemistry(2014)10.1146/annurev-biochem-060713-035352

N/A

9.5DataRank · unranked

345 citations

Matthew Bogyo, Laura E. Sanman

The Clinical Drug Ebselen Attenuates Inflammation and Promotes Microbiome Recovery in Mice after Antibiotic Treatment for CDI

Cell Reports Medicine(2020)10.1016/j.xcrm.2020.100005

N/A

1.8DataRank · unranked

47 citations

Andrew J. Hryckowian, Martina Tholen, Kristina Oresic Bender, William W. Van Treuren, Sebastian Loscher +3 more

The glucosyltransferase activity of C. difficile Toxin B is required for disease pathogenesis

PLoS Pathogens(2020)10.1371/journal.ppat.1008852

N/A

0.520DataRank · unranked

31 citations

Megan Garland, Rory Cave, Michelle L. Kelly, Martina Tholen, Donna M. Bouley +6 more

Covalent Macrocyclic Proteasome Inhibitors Mitigate Resistance in Plasmodium falciparum

ACS Infectious Diseases(2023)10.1021/acsinfecdis.3c00310

N/A

0.477DataRank · unranked

13 citations

Kurt E. Ward, Ryan K. Muir, Stephanie Kabeche, Euna Yoo, Tomas Yeo +11 more

Phosphoramidates as Novel Activity‐Based Probes for Serine Proteases

ChemBioChem(2014)10.1002/cbic.201400013

N/A

0.416DataRank · unranked

15 citations

Sandra C. Frommel, Fabian Hansen, Hannes Hahne, Bernhard Kuster, Matthew Bogyo +2 more

Identification of covalent inhibitors of Staphylococcus aureus serine hydrolases important for virulence and biofilm formation

Nature Communications(2025)10.1038/s41467-025-60367-3

N/A

0.373DataRank · unranked

11 citations

Emily C. Woods, Stephen Dela Ahator, Kjersti Julin, Franco F. Faucher, Md Jalal Uddin +14 more

Solid Phase Synthesis of Fluorosulfate Containing Macrocycles for Chemoproteomic Workflows

Israel Journal of Chemistry(2023)10.1002/ijch.202300020

N/A

0.360DataRank · unranked

10 citations

Daniel Abegg, Phillip Ipock, Alexander Adibekian, S. Lovell, Matthew Bogyo +1 more

A recombinant expression system for the Plasmodium falciparum proteasome enables structural analysis of its assembly and the design of selective inhibitors

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.13.670186

N/A

0.208DataRank · unranked

3 citations

Hanxiao Zhang, Liam Urich, Elany Barbosa da Silva, Cesar Hoffmann da Silva, Jehad Almaliti +10 more

Trypanosoma brucei Acyl-Protein Thioesterase-like (TbAPT-L) Is a Lipase with Esterase Activity for Short and Medium-Chain Fatty Acids but Has No Depalmitoylation Activity

Pathogens(2022)10.3390/pathogens11111245

N/A

0.165DataRank · unranked

2 citations

Aabha Sharma, Miguel Rey Villanueva, Xiaomo Li, Ouma Onguka, Leeor Zilbermintz +11 more

A caspase-1-cathepsin AND-gate probe for selective imaging of inflammasome activation

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.05.27.656501

N/A

0.104DataRank · unranked

1 citations

Una Goncin, Jiyun Zhu, Shih‐Po Su, Traci A. Czyzyk, Corin O. Miller +3 more

An mRNA Display Approach for Covalent Targeting of a Staphylococcus aureus Virulence Factor

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.11.06.622387

N/A

0.104DataRank · unranked

1 citations

Emily C. Woods, Jeyun Jo, Jiyun Zhu, Althea Hansel-Harris, Matthew Holcomb +12 more

Identification of covalent inhibitors that disrupt M. tuberculosis growth by targeting multiple serine hydrolases involved in lipid metabolism

Cell chemical biology(2021)10.1016/j.chembiol.2021.08.013

N/A

0DataRank · unranked

28 citations

Laura J. Keller, Yishay Pinto, Veronica L. Li, Andrew S. Eneim, Summer E. Vance +5 more

Toxoplasma gondii serine hydrolases regulate parasite lipid mobilization during growth and replication within the host

Cell chemical biology(2021)10.1016/j.chembiol.2021.05.001

N/A

0DataRank · unranked

9 citations

Brett M. Babin, Markus Lakemeyer, Ian T. Foe, Neri Amara, Stephanie M. Terrell +6 more

A screen of covalent inhibitors in Mycobacterium tuberculosis identifies serine hydrolases involved in lipid metabolism as potential therapeutic targets

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.06.07.447460

N/A

0DataRank · unranked

2 citations

Laura J. Keller, Yishay Pinto, Veronica L. Li, Andrew S. Eneim, Summer E. Vance +5 more

A Cathepsin-Targeted Quenched Activity–Based Probe Facilitates Enhanced Detection of Human Tumors during Resection

Clinical Cancer Research(2022)10.1158/1078-0432.ccr-22-1215

N/A

0DataRank · unranked

48 citations

David E. Holt, Feredun Azari, Elizabeth Bernstein, Bilal Nadeem, Ashley Chang +15 more

Formulation of a Thermosensitive Imaging Hydrogel for Topical Application and Rapid Visualization of Tumor Margins in the Surgical Cavity

Cancers(2022)10.3390/cancers14143459

N/A

0DataRank · unranked

12 citations

Daan G. J. Linders, Eric Abenojar, Xinning Wang, Hans Marten Hazelbag, Marieke E. Straver +8 more

Finding optimal drug target sites in parasite pathogens

Trends in Parasitology(2022)10.1016/j.pt.2022.12.003

N/A

0DataRank · unranked

3 citations

Matthew Bogyo

Chemoproteomic identification of a dipeptidyl peptidase 4 (DPP4) homolog in Bacteroides thetaiotaomicron important for envelope integrity and fitness

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.07.25.501481

N/A

0DataRank · unranked

0 citations

Taylor H. Nguyen, Lawrence Liu, Markus Lakemeyer, Danielle J. Gelsinger, Rachael B. Chanin +10 more

Chemoproteomic identification of a dipeptidyl peptidase 4 (DPP4) homolog in Bacteroides thetaiotaomicron important for envelope integrity and fitness

Research Square(2022)10.21203/rs.3.rs-1918112/v1

N/A

0DataRank · unranked

0 citations

Taylor H. Nguyen, Lawrence Liu, Markus Lakemeyer, Danielle Gelsinger, Rachel Chanin +10 more

Mitigating the risk of antimalarial resistance via covalent dual-subunit inhibition of the Plasmodium proteasome

Cell chemical biology(2023)10.1016/j.chembiol.2023.03.002

N/A

0DataRank · unranked

29 citations

Barbara H. Stokes, Kurt E. Ward, Kate J. Fairhurst, Charisse Flerida A. Pasaje, Tomas Yeo +21 more

Solid Phase Synthesis of Fluorosulfate Containing Macrocycles for Chemoproteomic Workflows

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.02.17.529022

N/A

0DataRank · unranked

1 citations

Daniel Abegg, Phillip Ipock, Alexander Adibekian, S. Lovell, Matthew Bogyo +1 more

Covalent macrocyclic proteasome inhibitors mitigate resistance in Plasmodium falciparum

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.07.03.547579

N/A

0DataRank · unranked

0 citations

Kurt E. Ward, Ryan T. Muir, Stephanie Kabeche, Euna Yoo, Tomas Yeo +11 more

Development of Oxadiazolone Activity-Based Probes Targeting FphE for Specific Detection of Staphylococcus aureus Infections

Journal of the American Chemical Society(2024)10.1021/jacs.3c13974

N/A

0DataRank · unranked

27 citations

Tulsi Upadhyay, Emily C. Woods, Ki Wan Park, Nichole J. Pedowitz, Joanna Jaworek-Korjakowska +5 more

Discovery of Thioether-Cyclized Macrocyclic Covalent Inhibitors by mRNA Display

Journal of the American Chemical Society(2024)10.1021/jacs.4c07851

N/A

0DataRank · unranked

21 citations

Cheng Peng, Xiyuan Yao, R. Chan, Tongyao Wei, Anuchit Rupanya +8 more

Recent advances in ratiometric fluorescence imaging of enzyme activity in vivo

Current Opinion in Chemical Biology(2024)10.1016/j.cbpa.2024.102441

N/A

0DataRank · unranked

14 citations

Matthew Bogyo, Emily D. Cosco

Molecularly targeted protease-activated probes for visualization of glioblastoma: a comparison with 5-ALA

Journal of neurosurgery(2024)10.3171/2024.1.jns231137

N/A

0DataRank · unranked

8 citations

P Výmola, N Ternerová, B Vymolová, Elena Garcia‐Borja, Rosana Mateu +8 more

AND-gate contrast agents for enhanced fluorescence-guided surgery

Nature Biomedical Engineering(2020)10.1038/s41551-020-00616-6

N/A

0DataRank · unranked

141 citations

Martina Tholen, Joshua J. Yim, Alexander L. Antaris, Kerriann M. Casey, Stephan Rogalla +4 more

Mixed alkyl/aryl phosphonates identify metabolic serine hydrolases as antimalarial targets

Cell chemical biology(2024)10.1016/j.chembiol.2024.07.006

N/A

0DataRank · unranked

4 citations

Sunil Kumar Narwal, Stephanie Kabeche, Daniel Abegg, Vandana Thathy, Fiona Hackett +11 more

Ex vivo fluorescence-guided resection margin assessment in breast cancer surgery using a topically applied, cathepsin-activatable imaging agent

Pharmacological Research(2024)10.1016/j.phrs.2024.107464

N/A

0DataRank · unranked

1 citations

Okker D. Bijlstra, Ethan Walker, Taryn L. March, Martin Pool, A. Rob P.M. Valentijn +19 more

Mixed Alkyl/Aryl Phosphonates Identify Metabolic Serine Hydrolases as Antimalarial Targets

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.11.575224

N/A

0DataRank · unranked

0 citations

Sunil Kumar Narwal, Stephanie Kabeche, Daniel Abegg, Fiona Hackett, Tomas Yeo +10 more

Identification of Covalent Cyclic Peptide Inhibitors Targeting Protein-Protein Interactions Using Phage Display

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.11.08.622749

N/A

0DataRank · unranked

0 citations

Franco F. Faucher, Matilde Bertolini, Heeyoung Kim, Bingchen Yu, Li Cao +8 more

Covalent-fragment screening identifies selective inhibitors of multiple Staphylococcus aureus serine hydrolases important for growth and biofilm formation

Research Square(2024)10.21203/rs.3.rs-5494070/v1

N/A

0DataRank · unranked

0 citations

Tulsi Upadhyay, Emily C. Woods, Stephen Dela Ahator, Kjersti Julin, Franco F. Faucher +13 more

An mRNA Display Approach for Covalent Targeting of a Staphylococcus aureus Virulence Factor

Journal of the American Chemical Society(2025)10.1021/jacs.4c15713

N/A

0DataRank · unranked

15 citations

Emily C. Woods, Jeyun Jo, Jiyun Zhu, Althea Hansel-Harris, Matthew Holcomb +13 more

A Bacteroides fragilis protease activates host PAR2 to induce intestinal pain and inflammation

Cell Host & Microbe(2025)10.1016/j.chom.2025.09.010

N/A

0DataRank · unranked

12 citations

Rocco Latorre, Kristýna Blažková, Hannah M. Wood, Dane D. Jensen, Nayab Shakil +14 more

Macrocyclic Phage Display for Identification of Selective Protease Substrates

Journal of the American Chemical Society(2025)10.1021/jacs.5c04424

N/A

0DataRank · unranked

2 citations

Kristýna Blažková, S. Lovell, Matilde Bertolini, Juan Herrero-Bourdieu, Emily D. Cosco +3 more

Identification of a secreted protease from Bacteroides fragilis that induces intestinal pain and inflammation by cleavage of PAR2

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.15.633241

N/A

0DataRank · unranked

9 citations

Rocco Latorre, Kristýna Blažková, Dane D. Jensen, Hannah M. Wood, Najam Akhtar Shakil +12 more

A Two-Step Synthesis of Covalent Genetically-Encoded Libraries of Peptide-Derived Macrocycles (cGELs) enables use of electrophiles with diverse reactivity

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.25.672157

N/A

0DataRank · unranked

1 citations

Arunika I. Ekanayake, Nichole J. Pedowitz, Ryan Qiu, Peter Girnt, Brett M. Babin +5 more

Unique structural and ligand binding properties of the Staphylococcus aureus serine hydrolase FphE

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.12.681921

N/A

0DataRank · unranked

1 citations

Tulsi Upadhyay, Xiangyan You, John M. Bennett, Hyunbin Lee, Matthew Bogyo +2 more

Chemiluminescent probes for imaging cysteine cathepsin activity

Bioorganic & Medicinal Chemistry Letters(2025)10.1016/j.bmcl.2025.130480

N/A

0DataRank · unranked

0 citations

Sara Gutkin, Shiyu Chen, Shih‐Po Su, Hai Phan, Doron Shabat +2 more

Polymer-Tethered Quenched Fluorescent Probes for Enhanced Imaging of Tumor-Associated Proteases

ACS Sensors(2024)10.1021/acssensors.4c00912

N/A

0DataRank · unranked

4 citations

Franco F. Faucher, Kristýna Blažková, Joshua J. Yim, Matteo Guerra, Shiyu Chen +10 more

Strategies for Tuning the Selectivity of Chemical Probes that Target Serine Hydrolases

Cell chemical biology(2020)10.1016/j.chembiol.2020.07.008

N/A

0DataRank · unranked

78 citations

John M. Bennett, Matthew Bogyo, S. Lovell, Franco F. Faucher

Discovery of small molecules that normalize the transcriptome and enhance cysteine cathepsin activity in progranulin-deficient microglia

Scientific Reports(2020)10.1038/s41598-020-70534-9

N/A

0DataRank · unranked

20 citations

Kai Liu, Faten A. Sayed, Jon Iker Etchegaray, Min Xie, Lihong Zhan +8 more

Pre-Trained Deep Convolutional Neural Network for Clostridioides Difficile Bacteria Cytotoxicity Classification Based on Fluorescence Images

Sensors(2020)10.3390/s20236713

N/A

0DataRank · unranked

26 citations

Joanna Jaworek-Korjakowska, Paweł Kłeczek, Megan Garland, Matthew Bogyo, Andrzej Brodzicki

Challenges for targeting SARS-CoV-2 proteases as a therapeutic strategy for COVID-19

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.21.392753

N/A

0DataRank · unranked

12 citations

Heeyoung Kim, John C. Widen, Brett M. Babin, Ouma Onguka, S. Lovell +10 more

Blocking palmitoylation of Toxoplasma gondii myosin light chain 1 disrupts glideosome composition but has little impact on parasite motility

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.13.250399

N/A

0DataRank · unranked

3 citations

Ian T. Foe, Bin Deng, Matthew Bogyo, Gary E. Ward, Pramod Kumar Rompikuntal

A chemiluminescent protease probe for rapid, sensitive, and inexpensive detection of live Mycobacterium tuberculosis

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.14.296772

N/A

0DataRank · unranked

3 citations

Gabriela Fernández‐Cuervo, Jessica Sheng, Ori Green, Alvaro A. Ordoñez, Mitchell L. Turner +5 more

Design of optical imaging probes by screening of diverse substrate libraries directly in disease tissue extracts

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.08.140947

N/A

0DataRank · unranked

0 citations

Joshua J. Yim, Katarzyna Groborz, Euna Yoo, Brock A. Martin, Nynke S. van den Berg +3 more

Toxoplasma gondii serine hydrolases regulate parasite lipid mobilization during growth and replication within the host

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.24.396663

N/A

0DataRank · unranked

0 citations

Brett M. Babin, Markus Lakemeyer, Ian T. Foe, Neri Amara, Stephanie M. Terrell +6 more

Selective activation of PFKL suppresses the phagocytic oxidative burst

Cell(2021)10.1016/j.cell.2021.07.004

N/A

0DataRank · unranked

160 citations

Madison P. Cooper, Maria A. Voronkova, Bradley A. Webb, Eric M. Lynch, Justin M. Kollman +10 more

Chemiluminescent Protease Probe for Rapid, Sensitive, and Inexpensive Detection of Live Mycobacterium tuberculosis

ACS Central Science(2021)10.1021/acscentsci.0c01345

N/A

0DataRank · unranked

72 citations

Gabriela Fernández‐Cuervo, Jessica Sheng, Ori Green, Alvaro A. Ordoñez, Mitchell L. Turner +5 more