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Steven P. Gygi

Steven P. Gygi

Harvard University

ORCID: 0000-0001-7626-0034

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 1%percentile

17.3Author DataRank

Indexed papers

8in 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 8 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 →

Top data-sharing exemplar

The highest-impact dataset this researcher has shared, ranked by DataRank — the single contribution doing the most to lift their data-sharing standing.

Quantitative Proteomics of the Cancer Cell Line Encyclopedia

Cell(2020)10.1016/j.cell.2019.12.023

Top 3%

5.9DataRank

Top 3%1051 citations

John Szpyt, Mahmoud Ghandi, Christopher M. Rose, E. Robert McDonald, Marian Kalocsay +15 more

Papers

Driven by 190 papers — median percentile 91. Top paper: “3D Culture Models with CRISPR Screens Reveal Hyperactive NRF2 as a Prerequisite for Spheroid Formation via Regulation of Proliferation and Ferroptosis”.

3D Culture Models with CRISPR Screens Reveal Hyperactive NRF2 as a Prerequisite for Spheroid Formation via Regulation of Proliferation and Ferroptosis

Molecular Cell(2020)10.1016/j.molcel.2020.10.010

N/A

6.1DataRank · unranked

201 citations

Patricia Cho, Laura M. Selfors, Hendrik J. Kuiken, Roma Kaul, Takuro Fujiwara +5 more

Quantitative Proteomics of the Cancer Cell Line Encyclopedia

Cell(2020)10.1016/j.cell.2019.12.023

Top 3%

5.9DataRank

Top 3%1051 citations

John Szpyt, Mahmoud Ghandi, Christopher M. Rose, E. Robert McDonald, Marian Kalocsay +15 more

Defective NADPH production in mitochondrial disease complex I causes inflammation and cell death

Nature Communications(2020)10.1038/s41467-020-16423-1

N/A

4.1DataRank · unranked

141 citations

Elizabeth A. Perry, Christopher F. Bennett, Mark P. Jedrychowski, Steven P. Gygi, John G. Doench +2 more

Dual Proteome-scale Networks Reveal Cell-specific Remodeling of the Human Interactome

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.19.905109

Top 6%

3.7DataRank

Top 6%121 citations

Raphael J. Bruckner, José Navarrete-Perea, Joe R. Cannon, Kurt Baltier, Fana Gebreab +21 more

A proteome-wide atlas of drug mechanism of action

Nature Biotechnology(2023)10.1038/s41587-022-01539-0

Top 7%

3.4DataRank

Top 7%148 citations

Miljan Kuljanin, Jiaming Li, Jonathan G. Van Vranken, Nathan J. Bulloch, Devin K. Schweppe +3 more

Proteomic and transcriptomic profiling reveal different aspects of aging in the kidney

eLife(2021)10.7554/elife.62585

N/A

2.9DataRank · unranked

125 citations

Joel M. Chick, Isabela Gerdes Gyuricza, Daniel A. Skelly, Olivier Devuyst, Steven P. Gygi +3 more

Mitochondrial fatty acid synthesis coordinates oxidative metabolism in mammalian mitochondria

eLife(2020)10.7554/elife.58041

N/A

2.8DataRank · unranked

142 citations

Ashley Solmonson, Scott Rusin, J. Alan Maschek, Claire Bensard, Sarah Fogarty +14 more

A multi-scale map of cell structure fusing protein images and interactions

Nature(2021)10.1038/s41586-021-04115-9

Top 9%

2.3DataRank

Top 9%80 citations

Edward L. Huttlin, Casper Winsnes, Maya L. Gosztyla, Ludivine Wacheul, Marcus R. Kelly +23 more

The biochemical basis of mitochondrial dysfunction in Zellweger Spectrum Disorder

EMBO Reports(2021)10.15252/embr.202051991

N/A

1.8DataRank · unranked

61 citations

Jeffrey T. Morgan, Sarah Fogarty, Jacob M. Winter, Sandra Lettlová, Jordan A. Berg +14 more

Regulation of protein abundance in genetically diverse mouse populations

Cell Genomics(2021)10.1016/j.xgen.2021.100003

Top 19%

1.1DataRank

Top 19%50 citations

Tian Zhang, Duy T. Pham, Matthew Vincent, Timothy A. Bell, Pablo Hock +8 more

Obesity Shapes Metabolism in the Tumor Microenvironment to Suppress Anti-Tumor Immunity

Cell(2020)10.1016/j.cell.2020.11.009

N/A

0.999DataRank · unranked

778 citations

Jefte M. Drijvers, Gregory J. Baker, Alessia Catozzi, Juan Carlos García‐Cañaveras, Brandon M. Gassaway +17 more

Phosphate starvation signaling increases mitochondrial membrane potential through respiration-independent mechanisms

eLife(2024)10.7554/elife.84282

N/A

0.972DataRank · unranked

33 citations

Mi‐Young Jeong, Corey N. Cunningham, Jordan A. Berg, Ashish G Toshniwal, Casey E. Hughes +15 more

A Quantitative Tissue-Specific Landscape of Protein Redox Regulation during Aging

Cell(2020)10.1016/j.cell.2020.02.012

N/A

0.908DataRank · unranked

424 citations

Mark P. Jedrychowski, Devin K. Schweppe, Edward L. Huttlin, Qing Yu, David E. Heppner +15 more

Integrated Proteogenomic Characterization across Major Histological Types of Pediatric Brain Cancer

Cell(2020)10.1016/j.cell.2020.10.044

N/A

0.878DataRank · unranked

347 citations

Nicole Tignor, Boris Reva, Mateusz P. Koptyra, Shrabanti Chowdhury, Dmitry Rykunov +94 more

Reimagining high-throughput profiling of reactive cysteines for cell-based screening of large electrophile libraries

Nature Biotechnology(2021)10.1038/s41587-020-00778-3

N/A

0.873DataRank · unranked

335 citations

Dylan C. Mitchell, Devin K. Schweppe, Ajami Gikandi, David P. Nusinow, Nathan J. Bulloch +7 more

Reuterin in the healthy gut microbiome suppresses colorectal cancer growth through altering redox balance

Cancer Cell(2021)10.1016/j.ccell.2021.12.001

N/A

0.852DataRank · unranked

292 citations

Ryan J. Rebernick, Joshua Goyert, Rashi Singhal, Miljan Kuljanin, Samuel A. Kerk +12 more

pH-Gated Succinate Secretion Regulates Muscle Remodeling in Response to Exercise

Cell(2020)10.1016/j.cell.2020.08.039

N/A

0.845DataRank · unranked

278 citations

Luiz H. M. Bozi, Omar Yaghi, Evanna L. Mills, Haopeng Xiao, Hilary E. Nicholson +15 more

Proteomic Profiling of Extracellular Vesicles Derived from Cerebrospinal Fluid of Alzheimer’s Disease Patients: A Pilot Study

Cells(2020)10.3390/cells9091959

N/A

0.789DataRank · unranked

192 citations

Mark P. Jedrychowski, Kiran Yanamandra, Seiko Ikezu, Steven P. Gygi, Tsuneya Ikezu +1 more

Multi-omics characterization of partial chemical reprogramming reveals evidence of cell rejuvenation

eLife(2023)10.7554/elife.90579

N/A

0.781DataRank · unranked

25 citations

Ludger J.E. Goeminne, Alexander Tyshkovskiy, Sirui Zhang, Julie Chen, Joao A. Paulo +6 more

Cdk1 Controls Global Epigenetic Landscape in Embryonic Stem Cells

Molecular Cell(2020)10.1016/j.molcel.2020.03.010

N/A

0.723DataRank · unranked

123 citations

Joel M. Chick, Chen Chu, Aleksandra Kołodziejczyk, Yichen Wang, Jan M. Suski +24 more

Multimodal cell maps as a foundation for structural and functional genomics

Nature(2025)10.1038/s41586-025-08878-3

Top 29%

0.697DataRank

Top 29%36 citations

Mengzhou Hu, Gege Qian, Kyung‐Mee Moon, Abantika Pal, Neelesh Soni +29 more

mTMT: An Alternative, Nonisobaric, Tandem Mass Tag Allowing for Precursor-Based Quantification

Analytical Chemistry(2019)10.1021/acs.analchem.9b03162

N/A

0.678DataRank · unranked

12 citations

Steven P. Gygi, Joao A. Paulo

Multi-omics analysis identifies drivers of protein phosphorylation

Genome biology(2023)10.1186/s13059-023-02892-2

N/A

0.676DataRank · unranked

23 citations

Gregory R. Keele, Isabela Gerdes Gyuricza, Matthew Vincent, Catherine Brunton, Timothy A. Bell +9 more

Irisin acts through its integrin receptor in a two-step process involving extracellular Hsp90α

Molecular Cell(2023)10.1016/j.molcel.2023.05.008

N/A

0.628DataRank · unranked

65 citations

Thomas E. Wales, Haixia Zhou, Sorin-Valeriu Draga-Coletă, Christoph Gorgulla, Katherine Blackmore +17 more

Spatial snapshots of amyloid precursor protein intramembrane processing via early endosome proteomics

Nature Communications(2022)10.1038/s41467-022-33881-x

N/A

0.614DataRank · unranked

59 citations

Frances V Hundley, Qing Yu, Katherine A. Overmyer, Dain R. Brademan, Lia R. Serrano +7 more

Homogeneous Oligomers of Pro-apoptotic BAX Reveal Structural Determinants of Mitochondrial Membrane Permeabilization

Molecular Cell(2020)10.1016/j.molcel.2020.05.029

N/A

0.598DataRank · unranked

53 citations

Edward P. Harvey, Catherine E. Newman, Thomas E. Wales, Joel C. Bucci, Julian Mintseris +14 more

Achieving a 35-Plex Tandem Mass Tag Reagent Set through Deuterium Incorporation

Journal of Proteome Research(2024)10.1021/acs.jproteome.4c00668

N/A

0.587DataRank · unranked

49 citations

Dustin C. Frost, Karsten Kuhn, Myungsun Shin, Rebecca L. Whitehouse, Ting-Yu Wei +7 more

Genetic dissection of the pluripotent proteome through multi-omics data integration

Cell Genomics(2023)10.1016/j.xgen.2023.100283

N/A

0.570DataRank · unranked

18 citations

Duy T. Pham, Tian Zhang, Gregory R. Keele, Daniel A. Skelly, Joao A. Paulo +8 more

The Hao-Fountain syndrome protein USP7 regulates neuronal connectivity in the brain via a novel p53-independent ubiquitin signaling pathway

Cell Reports(2025)10.1016/j.celrep.2025.115231

N/A

0.562DataRank · unranked

10 citations

Cole Ferguson, Dylan C. Mitchell, Isabel Risch, Amanda Titus, Joao A. Paulo +13 more

Architecture of the outbred brown fat proteome defines regulators of metabolic physiology

Cell(2022)10.1016/j.cell.2022.10.003

N/A

0.553DataRank · unranked

39 citations

Luiz H. M. Bozi, Yizhi Sun, Christopher L. Riley, Vivek M. Philip, Mandy Chen +41 more

Mechanism of p38 MAPK–induced EGFR endocytosis and its crosstalk with ligand-induced pathways

The Journal of Cell Biology(2021)10.1083/jcb.202102005

N/A

0.553DataRank · unranked

39 citations

Tian Zhang, Joao A. Paulo, Steven P. Gygi, Simon C. Watkins, Hiroaki Sakurai +2 more

Rixosomal RNA degradation contributes to silencing of Polycomb target genes

Nature(2022)10.1038/s41586-022-04598-0

N/A

0.546DataRank · unranked

37 citations

Chad B. Stein, Tiasha A. Shafiq, Gergana Shipkovenska, Marian Kalocsay, Joao A. Paulo +6 more

Sample multiplexing-based targeted pathway proteomics with real-time analytics reveals the impact of genetic variation on protein expression

Nature Communications(2023)10.1038/s41467-023-36269-7

N/A

0.538DataRank · unranked

35 citations

Xinyue Liu, Mark P. Keller, José Navarrete-Perea, Tian Zhang, Sipei Fu +14 more

Development of a functional beige fat cell line uncovers independent subclasses of cells expressing UCP1 and the futile creatine cycle

Cell Metabolism(2024)10.1016/j.cmet.2024.07.002

N/A

0.533DataRank · unranked

34 citations

Yizhi Sun, Amanda L. Smythers, Louisa Grauvogel, Phillip A. Dumesic, Margo P. Emont +13 more

Concurrent inhibition of CDK2 adds to the anti-tumour activity of CDK4/6 inhibition in GIST

British Journal of Cancer(2022)10.1038/s41416-022-01990-5

N/A

0.500DataRank · unranked

27 citations

Matthew L. Hemming, Meijun Z. Lundberg, Matthew Serrata, Isabel Goldaracena, Ninning Liu +17 more

Membrane skeleton modulates erythroid proteome remodeling and organelle clearance

Blood(2020)10.1182/blood.2020006673

N/A

0.477DataRank · unranked

23 citations

Yang Mei, Xu Han, Farida Korobova, Miguel A. Prado, Jing Yang +6 more

Self-assembling short immunostimulatory duplex RNAs with broad-spectrum antiviral activity

Molecular Therapy — Nucleic Acids(2022)10.1016/j.omtn.2022.08.031

N/A

0.464DataRank · unranked

21 citations

Haiqing Bai, Crystal Yuri Oh, Amanda Jiang, Fan Hong, Tian Zhang +17 more

Regulation of protein abundance in genetically diverse mouse populations

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.18.296657

N/A

0.373DataRank · unranked

11 citations

Tian Zhang, Duy T. Pham, Matthew Vincent, Timothy A. Bell, Pablo Hock +7 more

Mapping cell structure across scales by fusing protein images and interactions

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.21.163709

Top 49%

0.365DataRank

Top 49%7 citations

Casper Winsnes, Edward L. Huttlin, Fan Zheng, Wei Ouyang, Jisoo Park +8 more

Metabolic modulation of mitochondrial mass during CD4+ T cell activation

Cell chemical biology(2023)10.1016/j.chembiol.2023.08.008

N/A

0.360DataRank · unranked

10 citations

Dan Liang, Robert van de Ven, Peter Georgiev, Brandon M. Gassaway, SeongJun Han +15 more

Potent and selective SETDB1 covalent negative allosteric modulator reduces methyltransferase activity in cells

Nature Communications(2025)10.1038/s41467-025-57005-3

N/A

0.330DataRank · unranked

8 citations

Devan J. Shell, Madhushika Silva, Yu Deng, Fengling Li, Magdalena M. Szewczyk +21 more

Translocation of polyubiquitinated protein substrates by the hexameric Cdc48 ATPase

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.10.21.465358

N/A

0.312DataRank · unranked

7 citations

Hao Li, Daniele Peterle, Joao A. Paulo, Scott B. Ficarro, Thomas E. Wales +5 more

Expanding the landscape of aging via orbitrap astral mass spectrometry and tandem mass tag integration

Nature Communications(2025)10.1038/s41467-025-60022-x

N/A

0.312DataRank · unranked

7 citations

Yue Dou, Seth P. Kodikara, Erin D. Jeffery, Dina L. Bai, Erik Hultenius +6 more

Inhibition of oligomeric BAX by an anti-apoptotic dimer

Cell(2025)10.1016/j.cell.2025.10.037

N/A

0.292DataRank · unranked

6 citations

Micah A. Gygi, Haleh Alimohamadi, Thomas M. DeAngelo, Christina M. Camara, Julian Mintseris +16 more

Time-resolved proteomic profiling of the ciliary Hedgehog response reveals that GPR161 and PKA undergo regulated co-exit from cilia

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.29.225797

N/A

0.269DataRank · unranked

5 citations

Marian Kalocsay, Inès Galtier D’Auriac, Steven P. Gygi, Maxence V. Nachury, David U. Mick +1 more

Enrichment-Free, Targeted Covalent Drug Discovery in Live Cells

ACS Chemical Biology(2025)10.1021/acschembio.5c00581

N/A

0.246DataRank · unranked

4 citations

Qing Yu, Ka Yang, Bertrand J. Wong, Yue Hong, Sipei Fu +4 more

Highly specific intracellular ubiquitination of a small molecule

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.26.577493

N/A

0.241DataRank · unranked

4 citations

Enrique Garcia-Rivera, Dylan C. Mitchell, Joel M. Chick, Micah Maetani, John M. Knapp +13 more

Therapeutic remodeling of the ceramide backbone prevents kidney injury

Cell Metabolism(2025)10.1016/j.cmet.2025.10.006

N/A

0.241DataRank · unranked

4 citations

Luis Cedeño-Rosario, J. Alan Maschek, Trevor Lonergan, Jonathan G. Van Vranken, Angela Kruse +23 more

Multi-omics characterization of partial chemical reprogramming reveals evidence of cell rejuvenation

(2023)10.7554/elife.90579.1

N/A

0.165DataRank · unranked

2 citations

Ludger J.E. Goeminne, Alexander Tyshkovskiy, Sirui Zhang, Joao A. Paulo, Kerry A. Pierce +5 more

A human lysosomal storage disorder toolkit for decoding proteome landscapes in cortical and dopaminergic-like induced neurons

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.08.681047

N/A

0.104DataRank · unranked

1 citations

Yuchen He, Yizhi Jiang, D. Li, Yohannes A Ambaw, Federico M. Gasparoli +7 more

Cell-surface proteomic profiling identifies CD72 as a regulator of microglial tiling

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.06.02.657480

N/A

0.104DataRank · unranked

1 citations

Mohit Rastogi, Micah X. Williams, Samuel Zhang, Sophia Shi, Steven R. Shuken +19 more

Liver RBFOX2 regulates cholesterol homeostasis via Scarb1 alternative splicing in mice

Nature Metabolism(2022)10.1038/s42255-022-00681-y

N/A

0DataRank · unranked

39 citations

Sijia Yu, Natalia Artigas, Miguel A. Prado, Nejc Haberman, Yi-Fang Wang +17 more

MCL-1 is a master regulator of cancer dependency on fatty acid oxidation

Cell Reports(2022)10.1016/j.celrep.2022.111445

N/A

0DataRank · unranked

34 citations

Utsarga Adhikary, Dong Wook Choi, Erika P. Portero, Joao A. Paulo, Pruthvi Gowda +6 more

Functional mapping of PHF6 complexes in chromatin remodeling, replication dynamics, and DNA repair

Blood(2022)10.1182/blood.2021014103

N/A

0DataRank · unranked

23 citations

Ana Carolina da Silva Almeida, Robert Alberó, Mayukh Biswas, Angelica Barreto-Galvez, Thomas S. Gunning +10 more

Proximity labeling for investigating protein-protein interactions

Methods in cell biology(2022)10.1016/bs.mcb.2021.12.006

N/A

0DataRank · unranked

21 citations

Joao A. Paulo, Steven P. Gygi, Howard A. Rockman, Conrad T. Pfeiffer

Fe3+-NTA magnetic beads as an alternative to spin column-based phosphopeptide enrichment

Journal of Proteomics(2022)10.1016/j.jprot.2022.104561

N/A

0DataRank · unranked

16 citations

Valentina Rossio, Sanjukta Guha Thakurta, Amarjeet Flora, Leigh Foster, Ryan Bomgarden +3 more

APC/CCdc20-mediated degradation of Clb4 prompts astral microtubule stabilization at anaphase onset

The Journal of Cell Biology(2022)10.1083/jcb.202203089

N/A

0DataRank · unranked

9 citations

Clara Visintin, Jiaming Li, Steven P. Gygi, Rosella Visintin, Federico Zucca

Kinase Domain Autophosphorylation Rewires the Activity and Substrate Specificity of CK1 Enzymes

The FASEB Journal(2022)10.1096/fasebj.2022.36.s1.0r463

N/A

0DataRank · unranked

1 citations

A. Chaikuad, Jun‐Song Chen, Jakob Gebel, Laura Tesmer, Rezart Zhubi +8 more

The ancestral ESCRT protein TOM1L2 selects ubiquitinated cargoes for retrieval from cilia

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.09.23.509287

N/A

0DataRank · unranked

7 citations

David U. Mick, Erika Aoki, Rachel B. Rodrigues, Steven P. Gygi, Maxence V. Nachury +1 more

Multi-omics analysis identifies drivers of protein phosphorylation

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.03.494740

N/A

0DataRank · unranked

7 citations

Gregory R. Keele, Isabela Gerdes Gyuricza, Matthew Vincent, Catherine Brunton, Timothy A. Bell +9 more

Global and tissue-specific aging effects on murine proteomes

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.05.17.492125

N/A

0DataRank · unranked

5 citations

Jigang Zhang, John Szpyt, Ron Korstanje, Steven P. Gygi, Gary A. Churchill +2 more

Time-resolved proximity labeling of protein networks associated with ligand-activated EGFR

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.01.07.475389

N/A

0DataRank · unranked

3 citations

Tian Zhang, Joao A. Paulo, Callen T. Wallace, Simon C. Watkins, Steven P. Gygi +2 more

The relaxin receptor RXFP1 signals through a mechanism of autoinhibition

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.01.22.477343

N/A

0DataRank · unranked

3 citations

Shaun Rawson, James Osei‐Owusu, Kelly P. Brock, Xinyue Liu, Joao A. Paulo +6 more

Genetic dissection of the pluripotent proteome through multi-omics data integration

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.04.22.489216

N/A

0DataRank · unranked

2 citations

Duy T. Pham, Tian Zhang, Gregory R. Keele, Daniel A. Skelly, Matthew Pankratz +7 more

Early Endosome Capture Proteomics and its Application to Amyloid Precursor Protein Intramembrane Processing by β and γ-Secretases

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.31.486371

N/A

0DataRank · unranked

0 citations

Qing Yu, Frances V Hundley, Katherine A. Overmyer, Lia R. Serrano, Joao A. Paulo +6 more

Lactate regulates cell cycle by remodelling the anaphase promoting complex

Nature(2023)10.1038/s41586-023-05939-3

N/A

0DataRank · unranked

210 citations

Yun Wang, Luiz H. M. Bozi, Patrick D. Fischer, Mark P. Jedrychowski, Haopeng Xiao +23 more

A disordered region controls cBAF activity via condensation and partner recruitment

Cell(2023)10.1016/j.cell.2023.08.032

N/A

0DataRank · unranked

157 citations

Amy R. Strom, Joao A. Paulo, Clayton K. Collings, Kiersten M. Ruff, Min Kyung Shinn +11 more

Structural insights into cytokine cleavage by inflammatory caspase-4

Nature(2023)10.1038/s41586-023-06751-9

N/A

0DataRank · unranked

83 citations

Ying Dong, Julian Mintseris, Weiyi Ma, Steven P. Gygi, Hao Wu +2 more

Isolation of extracellular fluids reveals novel secreted bioactive proteins from muscle and fat tissues

Cell Metabolism(2023)10.1016/j.cmet.2022.12.014

N/A

0DataRank · unranked

72 citations

Mark P. Jedrychowski, Jonathan G. Van Vranken, Hans‐Georg Sprenger, Sarah E. Wilensky, Phillip A. Dumesic +11 more

Global and tissue-specific aging effects on murine proteomes

Cell Reports(2023)10.1016/j.celrep.2023.112715

N/A

0DataRank · unranked

59 citations

Jigang Zhang, John Szpyt, Ron Korstanje, Steven P. Gygi, Gary A. Churchill +2 more

Accelerating multiplexed profiling of protein-ligand interactions: High-throughput plate-based reactive cysteine profiling with minimal input

Cell chemical biology(2023)10.1016/j.chembiol.2023.11.015

N/A

0DataRank · unranked

46 citations

Rebecca L. Whitehouse, S L Dawson, Lu Zhang, Jeffrey G. Martin, Douglas S. Johnson +4 more

Liver mitochondrial cristae organizing protein MIC19 promotes energy expenditure and pedestrian locomotion by altering nucleotide metabolism

Cell Metabolism(2023)10.1016/j.cmet.2023.06.015

N/A

0DataRank · unranked

35 citations

Beste Mutlu, Pedro Latorre‐Muro, Jiaxin Liang, Christopher F. Bennett, Kfir Sharabi +6 more

The ancestral ESCRT protein TOM1L2 selects ubiquitinated cargoes for retrieval from cilia

Developmental Cell(2023)10.1016/j.devcel.2023.03.003

N/A

0DataRank · unranked

33 citations

David U. Mick, Erika Aoki, Rachel B. Rodrigues, Steven P. Gygi, Maxence V. Nachury +1 more

MKRN3 inhibits puberty onset via interaction with IGF2BP1 and regulation of hypothalamic plasticity

JCI Insight(2023)10.1172/jci.insight.164178

N/A

0DataRank · unranked

30 citations

Alessandra Mancini, Sidney Alcântara Pereira, Brandon M. Gassaway, John R. Lydeard, John C Magnotto +9 more

The relaxin receptor RXFP1 signals through a mechanism of autoinhibition

Nature Chemical Biology(2023)10.1038/s41589-023-01321-6

N/A

0DataRank · unranked

28 citations

Shaun Rawson, James Osei‐Owusu, Kelly P. Brock, Xinyue Liu, Joao A. Paulo +6 more

A conserved membrane curvature-generating protein is crucial for autophagosome formation in fission yeast

Nature Communications(2023)10.1038/s41467-023-40530-4

N/A

0DataRank · unranked

22 citations

Yoko Shibata, Joao A. Paulo, Steven P. Gygi, Tom A. Rapoport, Ning Wang

Targeting MCL-1 triggers DNA damage and an anti-proliferative response independent from apoptosis induction

Cell Reports(2023)10.1016/j.celrep.2023.113176

N/A

0DataRank · unranked

15 citations

Joao A. Paulo, Marina Godes, Shrabasti Roychoudhury, Michelle S. Prew, Yael Ben‐Nun +7 more

Insulin sensitization by small molecules enhancing GLUT4 translocation

Cell chemical biology(2023)10.1016/j.chembiol.2023.06.012

N/A

0DataRank · unranked

12 citations

Jonathan G. Van Vranken, Dhiraj Srivastava, Ayushi Mittal, Paul Buscaglia, Autumn E. Moore +9 more

Enhancing Proteome Coverage by Using Strong Anion-Exchange in Tandem with Basic-pH Reversed-Phase Chromatography for Sample Multiplexing-Based Proteomics

Journal of Proteome Research(2023)10.1021/acs.jproteome.3c00492

N/A

0DataRank · unranked

12 citations

Xinyue Liu, Valentina Rossio, S L Dawson, Steven P. Gygi, Joao A. Paulo +1 more

The anaphase-promoting complex controls a ubiquitination-phosphoprotein axis in chromatin during neurodevelopment

Developmental Cell(2023)10.1016/j.devcel.2023.10.002

N/A

0DataRank · unranked

11 citations

Brandon M. Gassaway, Jonathan Tawil, Olivia Urso, Donald Pizzo, Kaeli A. Welsh +7 more

Causal ALS genes impact the MHC class II antigen presentation pathway

Proceedings of the National Academy of Sciences(2023)10.1073/pnas.2305756120

N/A

0DataRank · unranked

9 citations

Muhammet M. Öztürk, Christina L. Paraggio, Claudia E. Leonard, Maria E. Sanita, Mahtab Dastpak +8 more

Enriching Cysteine-Containing Peptides Using a Sulfhydryl-Reactive Alkylating Reagent with a Phosphonic Acid Group and Immobilized Metal Affinity Chromatography

Journal of Proteome Research(2023)10.1021/acs.jproteome.2c00806

N/A

0DataRank · unranked

11 citations

Valentina Rossio, Steven P. Gygi, Joao A. Paulo, Xinyue Liu

Targeting protein tyrosine phosphatases for CDK6-induced immunotherapy resistance

Cell Reports(2023)10.1016/j.celrep.2023.112314

N/A

0DataRank · unranked

10 citations

Yongxia Wu, Joel M. Chick, Andrea M. Abbott, Baishan Jiang, Jingxin Wang +13 more

SENP3 and USP7 regulate Polycomb-rixosome interactions and silencing functions

Cell Reports(2023)10.1016/j.celrep.2023.112339

N/A

0DataRank · unranked

10 citations

Wenzhi Feng, Juntao Yu, Tiasha A. Shafiq, Joao A. Paulo, Jiuchun Zhang +4 more

Quantitative proteomics defines mechanisms of antiviral defence and cell death during modified vaccinia Ankara infection

Nature Communications(2023)10.1038/s41467-023-43299-8

N/A

0DataRank · unranked

10 citations

Joanne Kite, Marisa Oliveira, Hanqi Li, Ying Di, Maria H. Christensen +8 more

Human Polo-like Kinase Inhibitors as Antiplasmodials

ACS Infectious Diseases(2023)10.1021/acsinfecdis.3c00025

N/A

0DataRank · unranked

8 citations

Jinhua Wang, Eva S. Istvan, Madeline R. Luth, Jennifer E. Collins, Edward L. Huttlin +12 more

After virus exposure, early bystander naïve CD8 T cell activation relies on NAD+ salvage metabolism

Frontiers in Immunology(2023)10.3389/fimmu.2022.1047661

N/A

0DataRank · unranked

6 citations

Barry E. Kennedy, J. Patrick Murphy, Prathyusha Konda, Michael Giacomantonio, Tatjana Brauer-Chapin +10 more

Adapting an Isobaric Tag-Labeled Yeast Peptide Standard to Develop Targeted Proteomics Assays

Journal of Proteome Research(2023)10.1021/acs.jproteome.3c00493

N/A

0DataRank · unranked

5 citations

E. Schmid, Ryan Bomgarden, Jae Hyuk Choi, Steven P. Gygi, Qing Yu +2 more

Synaptic Activity Causes Minute-scale Changes in BAF Complex Composition and Function

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.13.562244

N/A

0DataRank · unranked

5 citations

Wendy Wenderski, Joao A. Paulo, Sung Hyun Kim, Katharina Roepke, Christine Ellis +3 more

Substrate identification and specificity profiling of deubiquitylases against endogenously-generated ubiquitin-protein conjugates

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.20.572581

N/A

0DataRank · unranked

3 citations

Joao A. Paulo, Xinyue Liu, Steven P. Gygi, Randall W. King, Valentina Rossio

Multi-omics characterization of partial chemical reprogramming reveals evidence of cell rejuvenation

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.06.30.546730

N/A

0DataRank · unranked

2 citations

Ludger J.E. Goeminne, Alexander Tyshkovskiy, Sirui Zhang, Julie Y. Chen, Joao A. Paulo +6 more

The Hao-Fountain syndrome protein USP7 regulates neuronal connectivity in the brain via a novel p53-independent ubiquitin signaling pathway

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.10.24.563880

N/A

0DataRank · unranked

2 citations

Cole Ferguson, Dylan C. Mitchell, Amanda Titus, Joao A. Paulo, Andrew Hwang +9 more

Cell growth and nutrient availability control the mitotic exit signaling network in budding yeast

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.04.552008

N/A

0DataRank · unranked

0 citations

Beth E. Prichard, Robert A. Sommer, Ricardo Leitão, Christopher J. Sarabia, Semin Hazir +4 more

A replisome-associated histone H3-H4 chaperone required for epigenetic inheritance

Cell(2024)10.1016/j.cell.2024.07.006

N/A

0DataRank · unranked

48 citations

Yujie Zhang, Yimeng Fang, Joao A. Paulo, Dadmehr Yaghoubi, Xu Hua +8 more

Covalent inhibition of pro-apoptotic BAX

Nature Chemical Biology(2024)10.1038/s41589-023-01537-6

N/A

0DataRank · unranked

23 citations

Peiwen Shi, Christina M. Camara, Daniel T. Cohen, T.J. Rettenmaier, Utsarga Adhikary +8 more

RNA quality control factors nucleate Clr4/SUV39H and trigger constitutive heterochromatin assembly

Cell(2024)10.1016/j.cell.2024.04.042

N/A

0DataRank · unranked

17 citations

Richard Joh, M. Perez, Joao A. Paulo, Christina M. Palmieri, Jingyu Zhang +5 more

Structural basis of respiratory complex adaptation to cold temperatures

Cell(2024)10.1016/j.cell.2024.09.029

N/A

0DataRank · unranked

15 citations

Pedro Latorre‐Muro, Amina Djurabekova, Oleksii Zdorevskyi, Christopher F. Bennett, Nils Burger +8 more

Specificity profiling of deubiquitylases against endogenously generated ubiquitin-protein conjugates

Cell chemical biology(2024)10.1016/j.chembiol.2024.05.001

N/A

0DataRank · unranked

14 citations

Joao A. Paulo, Xinyue Liu, Steven P. Gygi, Randall W. King, Valentina Rossio

Phosphorylation patterns in the AT1R C-terminal tail specify distinct downstream signaling pathways

Science Signaling(2024)10.1126/scisignal.adk5736

N/A

0DataRank · unranked

13 citations

Conrad T. Pfeiffer, Xue Jiang, Joao A. Paulo, Steven P. Gygi, Uyen Pham +10 more

Profiling Proteins and Phosphorylation Sites During T Cell Activation Using an Integrated Thermal Shift Assay

Molecular & Cellular Proteomics(2024)10.1016/j.mcpro.2024.100801

N/A

0DataRank · unranked

5 citations

Edward L. Huttlin, Emily M. Huntsman, Tomer M. Yaron-Barir, Jared L. Johnson, Kiran Kurmi +6 more

Next-generation Drosophila protein interactome map and its functional implications

Developmental Cell(2024)10.1016/j.devcel.2024.06.002

N/A

0DataRank · unranked

4 citations

Kejie Li, George Locke, Marina Theodorou, Krishna Praneeth Kilambi, Kazuya Hori +11 more

Enhanced Sample Multiplexing-Based Targeted Proteomics with Intelligent Data Acquisition

Journal of the American Society for Mass Spectrometry(2024)10.1021/jasms.4c00234

N/A

0DataRank · unranked

4 citations

Joao A. Paulo, Steven P. Gygi, Qing Yu, Ka Yang

Cell growth and nutrient availability control the mitotic exit signaling network in budding yeast

The Journal of Cell Biology(2024)10.1083/jcb.202305008

N/A

0DataRank · unranked

7 citations

Beth E. Prichard, Robert A. Sommer, Ricardo Leitão, Christopher J. Sarabia, Semin Hazir +4 more

Pleiotropic tumor suppressive functions of PTEN missense mutations during gliomagenesis

iScience(2024)10.1016/j.isci.2024.111278

N/A

0DataRank · unranked

4 citations

Joao A. Paulo, Victoria A. Appleman, Tomer M. Yaron, Jared L. Johnson, Alan T. Yeo +7 more

Inserting Pre-analytical Chromatographic Priming Runs Significantly Improves Targeted Pathway Proteomics with Sample Multiplexing

Journal of Proteome Research(2024)10.1021/acs.jproteome.4c00096

N/A

0DataRank · unranked

3 citations

Qing Yu, Steven P. Gygi, Steven R. Shuken

The DNA Damage Repair Function of Fission Yeast CK1 Involves Targeting Arp8, a Subunit of the INO80 Chromatin Remodeling Complex

Molecular and Cellular Biology(2024)10.1080/10985549.2024.2408016

N/A

0DataRank · unranked

1 citations

Kazutoshi Akizuki, Yufan Shan, Eric Zhang, Liping Ren, Rodrigo X. Guillen +7 more

Ergothioneine boosts mitochondrial respiration and exercise performance via direct activation of MPST

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.04.10.588849

N/A

0DataRank · unranked

6 citations

Melanie J. Mittenbühler, Yizhi Sun, Jonathan G. Van Vranken, Sebastian Schindler, Abhilash Jayaraj +21 more

Multi-omic Analysis of Human B-cell Activation Reveals a Key Lysosomal BCAT1 Role in mTOR Hyperactivation by B-cell receptor and TLR9

Research Square(2024)10.21203/rs.3.rs-4413958/v1

N/A

0DataRank · unranked

2 citations

Matthew Lim, Hardik Shah, Joao A. Paulo, Yuchen Zhang, Haopeng Yang +18 more

Potent and Selective SETDB1 Covalent Negative Allosteric Modulator Reduces Methyltransferase Activity in Cells

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.09.27.615363

N/A

0DataRank · unranked

2 citations

Devan J. Shell, Madhushika Silva, Yu Deng, Fengling Li, Magdalena M. Szewczyk +21 more

Reviewer #2 (Public Review): Multi-omics characterization of partial chemical reprogramming reveals evidence of cell rejuvenation

(2024)10.7554/elife.90579.2.sa0

N/A

0DataRank · unranked

0 citations

Ludger J.E. Goeminne, Alexander Tyshkovskiy, Sirui Zhang, Julie Chen, Joao A. Paulo +6 more

Global cellular proteo-lipidomic profiling of diverse lysosomal storage disease mutants using nMOST

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.26.586828

N/A

0DataRank · unranked

0 citations

Yuchen He, Sharan Swarup, Katherine A. Overmyer, Yizhi Jiang, Johann Brenner +15 more

APC7 mediates ubiquitin signaling in constitutive heterochromatin in the developing mammalian brain

UNC Libraries(2024)10.17615/65fs-db82

N/A

0DataRank · unranked

0 citations

Raquel C. Martinez‐Chacin, Nicholas G. Brown, Steven P. Gygi, Robert N. Jinks, Pablo Lara-González +16 more

Paradoxical mitotic exit induced by a small molecule inhibitor of APC/CCdc20

UNC Libraries(2024)10.17615/sjqr-7680

N/A

0DataRank · unranked

0 citations

Joao A. Paulo, Randall W. King, Katharine L. Sackton, Masaya Yamaguchi, Katherine V. Richeson +4 more

Potent and Selective SETDB1 Covalent Negative Allosteric Modulator Reduces Methyltransferase Activity in Cells

Research Square(2024)10.21203/rs.3.rs-5039962/v1

N/A

0DataRank · unranked

0 citations

Mélanie Uguen, Devan J. Shell, Madhushika Silva, Yu Deng, Fengling Li +21 more

Isobaric Tagging and Data Independent Acquisition as Complementary Strategies for Proteome Profiling on an Orbitrap Astral Mass Spectrometer

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.12.17.628765

N/A

0DataRank · unranked

0 citations

S L Dawson, Steven P. Gygi, Joao A. Paulo, Xinyue Liu

Ergothioneine controls mitochondrial function and exercise performance via direct activation of MPST

Cell Metabolism(2025)10.1016/j.cmet.2025.01.024

N/A

0DataRank · unranked

45 citations

Melanie J. Mittenbühler, Yizhi Sun, Jonathan G. Van Vranken, Sebastian Schindler, Abhilash Jayaraj +23 more

RBM43 controls PGC1α translation and a PGC1α-STING signaling axis

Cell Metabolism(2025)10.1016/j.cmet.2025.01.013

N/A

0DataRank · unranked

17 citations

Sarah E. Wilensky, Symanthika Bose, Jonathan G. Van Vranken, Steven P. Gygi, Bruce M. Spiegelman +1 more

GUK1 activation is a metabolic liability in lung cancer

Cell(2025)10.1016/j.cell.2025.01.024

N/A

0DataRank · unranked

16 citations

Kiran Kurmi, Yutong Dai, Ishita Dhiman, Shakchhi Joshi, Brandon M. Gassaway +21 more

Structural basis for the midnolin-proteasome pathway and its role in suppressing myeloma

Molecular Cell(2025)10.1016/j.molcel.2025.05.030

N/A

0DataRank · unranked

16 citations

Jingjing Gao, Hyuk‐Soo Seo, Julian Mintseris, Lucy Ort, Matthew C. J. Yip +12 more

Isobaric Tagging and Data Independent Acquisition as Complementary Strategies for Proteome Profiling on an Orbitrap Astral Mass Spectrometer

Journal of Proteome Research(2025)10.1021/acs.jproteome.4c01107

N/A

0DataRank · unranked

11 citations

S L Dawson, Steven P. Gygi, Joao A. Paulo, Xinyue Liu

TMT-Based Multiplexed (Chemo)Proteomics on the Orbitrap Astral Mass Spectrometer

Molecular & Cellular Proteomics(2025)10.1016/j.mcpro.2025.100968

N/A

0DataRank · unranked

11 citations

Ka Yang, S. Li, Martin Zeller, Graeme C. McAlister, Hamish Stewart +7 more

CRISPR screens and quantitative proteomics reveal remodeling of the aryl hydrocarbon receptor–driven proteome through PARP7 activity

Proceedings of the National Academy of Sciences(2025)10.1073/pnas.2424985122

N/A

0DataRank · unranked

8 citations

Joao A. Paulo, Christina B. Schroeter, Melanie Lad, Abigail Shurr, Chara Mastrokalou +9 more

CEBPA repression by MECOM blocks differentiation to drive aggressive leukemias

Blood(2025)10.1182/blood.2025028954

N/A

0DataRank · unranked

6 citations

Mateusz Antoszewski, Sander Lambo, Michael C. Gundry, Riccardo Piussi, Lara Wahlster +19 more

Synaptic activity causes minute-scale changes in BAF complex composition and function

Molecular Cell(2025)10.1016/j.molcel.2025.05.017

N/A

0DataRank · unranked

5 citations

Sabin A. Nettles, Wendy Wenderski, Joao A. Paulo, Sam H. Kim, Kyra C Roepke +5 more

Multiomic analysis reveals a key BCAT1 role in mTOR activation by B cell receptor and TLR9

Journal of Clinical Investigation(2025)10.1172/jci186258

N/A

0DataRank · unranked

5 citations

Yizhe Sun, Matthew Lim, Hardik Shah, Joao A Paulo, R.G. Ahmed +22 more

Shifted assembly and function of mSWI/SNF family subcomplexes underlie targetable dependencies in dedifferentiated endometrial carcinomas

Nature Genetics(2025)10.1038/s41588-025-02333-9

N/A

0DataRank · unranked

2 citations

Grace Xu, Alexander W. Ying, Bengul Gokbayrak, Ajinkya Patil, Joao A. Paulo +14 more

Cardiac adaptation to endurance exercise training requires suppression of GDF15 via PGC-1α

Nature Cardiovascular Research(2025)10.1038/s44161-025-00712-3

N/A

0DataRank · unranked

5 citations

Haobo Li, Tevis Vitale, James Rhee, Saketh Challa, Claire Castro +31 more

Deazaguanylation is a nucleobase-protein conjugation required for type IV CBASS immunity

Science(2025)10.1126/science.adx6053

N/A

0DataRank · unranked

4 citations

Patrick Pfaff, Joao A. Paulo, Steven P. Gygi, Kevan M. Shokat, Philip J. Kranzusch +1 more

A triple-action PROTAC for wild-type p53 cancer therapy

Cell Reports Medicine(2025)10.1016/j.xcrm.2025.102467

N/A

0DataRank · unranked

2 citations

Utsarga Adhikary, J. Michael Schmidt, Marina Godes, Bethany Tesar, Christina M. Camara +11 more

Chaperone-mediated insertion of mitochondrial import receptor TOM70 protects against diet-induced obesity

Nature Cell Biology(2025)10.1038/s41556-024-01555-z

N/A

0DataRank · unranked

3 citations

Tevis Vitale, M. Ravichandran, Katherine Zhang, Jonathan M. Palozzi, Christopher F. Bennett +11 more

The network response to Egf is tissue-specific

iScience(2025)10.1016/j.isci.2025.112146

N/A

0DataRank · unranked

1 citations

Joao A. Paulo, Deborah L. Burkhart, Ian R. Smith, Ryan L. Collins, J. Wade Harper +3 more

Muscle-specific increased expression of JAG1 improves the skeletal muscle phenotype in dystrophin-deficient mice

Proceedings of the National Academy of Sciences(2025)10.1073/pnas.2506437122

N/A

0DataRank · unranked

1 citations

Matthias Lambert, Tracy Zhang, James R. Conner, Joao A. Paulo, Sheldon Furtado Oliveira +7 more

A SWI/SNF-specific Ig-like domain, SWIFT, is a transcription factor binding platform

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.08.01.667725

N/A

0DataRank · unranked

1 citations

Kaylyn E. Williamson, Alexander W. Ying, Aasha M. Turner, Ruidong Jiang, Shaunak Raval +16 more

Library-Free Multiplexed Targeted Proteomics Enables Quantitative Protein-Level Genotyping

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.10.675407

N/A

0DataRank · unranked

1 citations

Steven P. Gygi, Steven R. Shuken

Ribosome remodeling drives translation adaptation during viral infection and cellular stress

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.10.24.684008

N/A

0DataRank · unranked

1 citations

Luochen Liu, Rebecca H. Fleming, Julian Mintseris, Derrick Ekanayake, Xin Gu +3 more

Insights into the Absence of Lymphoma Despite Fulminant Epstein-Barr Virus Infection in Patients with XIAP Deficiency

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.01.17.633616

N/A

0DataRank · unranked

0 citations

Janet Chou, Kevin Dong, Steven P. Gygi, Benjamin E. Gewurz, Yizhe Sun

Insights into absence of lymphoma despite fulminant Epstein-Barr virus infection in patients with XIAP deficiency

JCI Insight(2025)10.1172/jci.insight.193787

N/A

0DataRank · unranked

0 citations

Janet Chou, Kevin Dong, Steven P. Gygi, Benjamin E. Gewurz, Yizhe Sun

Lysosome-dependent nutrient scavenging underlies stress adaptation during epithelial-to-mesenchymal transition

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.09.22.677807

N/A

0DataRank · unranked

0 citations

Paola Cavaliere, Friederike Dündar, David Spencer, Nikos Koundouros, Joana B. Nunes +16 more

Altered Molecular Regulation of TUG Is a Central Feature of Insulin-Resistant Human Adipose Tissue

Diabetes(2025)10.2337/db25-0488

N/A

0DataRank · unranked

0 citations

Kasper W. ter Horst, Daeun Sung, Aldo Jongejan, Aaron L. Slusher, Brandon M. Gassaway +10 more

Analysis of Confounding Factors in Reactive Cysteine Profiling Reveals Enhanced Chromatin-Protein Association via CDK7 Inhibition by THZ1

10.64898/2026.05.05.721470

N/A

0DataRank · unranked

0 citations

Shaoxian Li, Bohui Li, Daniel M. Richards, Kevin Dong, Uthpala Seneviratne +6 more

Selective Alanine Transporter Utilization Creates a Targetable Metabolic Niche in Pancreatic Cancer

Cancer Discovery(2020)10.1158/2159-8290.cd-19-0959

N/A

0DataRank · unranked

178 citations

Caroline R. Amendola, Kate E.R. Hollinshead, Qijia Yu, Keisuke Yamamoto, Joel Encarnación-Rosado +13 more

O-GlcNAc regulates gene expression by controlling detained intron splicing

Nucleic Acids Research(2020)10.1093/nar/gkaa263

N/A

0DataRank · unranked

123 citations

George Fei, Joao A. Paulo, Stanislav Bellaousov, Sara E. Martin, Damien Duveau +5 more

Selection of Heating Temperatures Improves the Sensitivity of the Proteome Integral Solubility Alteration Assay

Journal of Proteome Research(2020)10.1021/acs.jproteome.0c00063

N/A

0DataRank · unranked

62 citations

Jonathan G. Van Vranken, Joao A. Paulo, Edward L. Huttlin, Steven P. Gygi, Jiaming Li

Co-option of Plasmodium falciparum PP1 for egress from host erythrocytes

Nature Communications(2020)10.1038/s41467-020-17306-1

N/A

0DataRank · unranked

59 citations

Alexandra Miliu, Joao A. Paulo, Jonathan M. Goldberg, Arianna M. Bonilla, Laurence Berry +10 more

A conserved RNA degradation complex required for spreading and epigenetic inheritance of heterochromatin

eLife(2020)10.7554/elife.54341

N/A

0DataRank · unranked

49 citations

Alexander Durango, Marian Kalocsay, Steven P. Gygi, Danesh Moazed, Gergana Shipkovenska

Translation elongation factor 2 depletion by siRNA in mouse liver leads to mTOR-independent translational upregulation of ribosomal protein genes

Scientific Reports(2020)10.1038/s41598-020-72399-4

N/A

0DataRank · unranked

20 citations

Mikhail V. Nesterchuk, Elena M. Smekalova, Joao A. Paulo, Piotr S. Kowalski, Kseniya A. Akulich +8 more

The Insulin Receptor Adaptor IRS2 is an APC/C Substrate That Promotes Cell Cycle Protein Expression and a Robust Spindle Assembly Checkpoint

Molecular & Cellular Proteomics(2020)10.1074/mcp.ra120.002069

N/A

0DataRank · unranked

14 citations

Qing Yu, Steven P. Gygi, Randall W. King, Sandhya Manohar

Growth media selection alters the proteome profiles of three model microorganisms

Journal of Proteomics(2020)10.1016/j.jprot.2020.104006

N/A

0DataRank · unranked

13 citations

Steven P. Gygi, Joao A. Paulo, José Navarrete-Perea

Facultative protein selenation regulates redox sensitivity, adipose tissue thermogenesis, and obesity

Proceedings of the National Academy of Sciences(2020)10.1073/pnas.2001387117

N/A

0DataRank · unranked

39 citations

Gina Z. Lu, John Szpyt, Marco Mariotti, Ryan Garrity, Joao A. Paulo +9 more

Parallel Notched Gas-Phase Enrichment for Improved Proteome Identification and Quantification with Fast Spectral Acquisition Rates

Journal of Proteome Research(2020)10.1021/acs.jproteome.9b00715

N/A

0DataRank · unranked

3 citations

Devin K. Schweppe, Qing Yu, Ramin Rad, W.E. Haas, Graeme C. McAlister +2 more

Quantitative analysis of Y-Chromosome gene expression across 36 human tissues

Genome Research(2020)10.1101/gr.261248.120

N/A

0DataRank · unranked

132 citations

Sahin Naqvi, Lukáš Chmátal, Joel M. Chick, Richard N. Mitchell, Steven P. Gygi +3 more

O-GlcNAc regulates gene expression by controlling detained intron splicing

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.03.27.012781

N/A

0DataRank · unranked

12 citations

George Fei, Joao A. Paulo, Stanislav Bellaousov, Sara E. Martin, Damien Duveau +5 more

DPP9 directly sequesters the NLRP1 C-terminus to repress inflammasome activation

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.14.246132

N/A

0DataRank · unranked

6 citations

Humayun Sharif, Andrew R. Griswold, Pietro Fontana, Julian Mintseris, Kevin B. Dagbay +5 more

Proteomic and transcriptomic profiling reveal different aspects of aging in the kidney

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.27.270504

N/A

0DataRank · unranked

3 citations

Joel M. Chick, Isabela Gerdes Gyuricza, Daniel A. Skelly, Olivier Devuyst, Steven P. Gygi +3 more

Msp1/ATAD1 restores mitochondrial function in Zellweger Spectrum Disease

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.09.19.303826

N/A

0DataRank · unranked

3 citations

Jeffrey T. Morgan, Sarah Fogarty, Jacob M. Winter, Sandra Lettlová, Jordan A. Berg +14 more

Global proteomics of Ubqln 2-based murine models of ALS

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.02.22.956524

N/A

0DataRank · unranked

2 citations

Miguel A. Prado, Stefanie A.H. de Poot, Joao A. Paulo, Marissa Ashton, Sara L. Domínguez +11 more

Genome-wide transcript and protein analysis reveals distinct features of aging in the mouse heart

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.28.272260

N/A

0DataRank · unranked

2 citations

Joel M. Chick, Gregory R. Keele, Andrew Deighan, Steven C. Munger, Ron Korstanje +3 more

Enrichment of neurodegenerative microglia signature in brain-derived extracellular vesicles isolated from Alzheimer’s disease mouse model

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.11.05.369728

N/A

0DataRank · unranked

2 citations

Mark P. Jedrychowski, Naotoshi Iwahara, Mohammad Abdullah, Kristen D. Onos, Kelly J. Keezer +6 more

Proteomic analysis identifies the E3 ubiquitin ligase Pdzrn3 as a regulatory target of Wnt5a-Ror signaling

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.22.163790

N/A

0DataRank · unranked

1 citations

Michael W. Susman, Ryan C. Kunz, Jia Tan, Srisathya Srinivasan, Michael D. Cohen +9 more

Co-option of Plasmodium falciparum PP1 for egress from host erythrocytes

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.01.05.890483

N/A

0DataRank · unranked

0 citations

Alexandra Miliu, Joao A. Paulo, Jonathan M. Goldberg, Arianna M. Bonilla, Laurence Berry +10 more

Dual proteome-scale networks reveal cell-specific remodeling of the human interactome

Cell(2021)10.1016/j.cell.2021.04.011

N/A

0DataRank · unranked

1006 citations

Raphael J. Bruckner, José Navarrete-Perea, Joe R. Cannon, Kurt Baltier, Fana Gebreab +23 more

A human-airway-on-a-chip for the rapid identification of candidate antiviral therapeutics and prophylactics

Nature Biomedical Engineering(2021)10.1038/s41551-021-00718-9

N/A

0DataRank · unranked

434 citations

Haiqing Bai, Melissa Rodas, Wuji Cao, Crystal Yuri Oh, Amanda Jiang +33 more

Proteome-wide mapping of short-lived proteins in human cells

Molecular Cell(2021)10.1016/j.molcel.2021.09.015

N/A

0DataRank · unranked

179 citations

Zhenying Cai, Laura Pontano Vaites, Ning Shen, Dylan C. Mitchell, Edward L. Huttlin +4 more

A cold-stress-inducible PERK/OGT axis controls TOM70-assisted mitochondrial protein import and cristae formation

Cell Metabolism(2021)10.1016/j.cmet.2021.01.013

N/A

0DataRank · unranked

115 citations

Katherine E. O’Malley, Christopher F. Bennett, Elizabeth A. Perry, Eduardo Balsa, Clint D.J. Tavares +4 more

Time-resolved proteomics profiling of the ciliary Hedgehog response

The Journal of Cell Biology(2021)10.1083/jcb.202007207

N/A

0DataRank · unranked

96 citations

Marian Kalocsay, Inès Galtier D’Auriac, Patrick S. Schuster, Steven P. Gygi, Maxence V. Nachury +2 more

Translocation of polyubiquitinated protein substrates by the hexameric Cdc48 ATPase

Molecular Cell(2021)10.1016/j.molcel.2021.11.033

N/A

0DataRank · unranked

81 citations

Hao Li, Daniele Peterle, Joao A. Paulo, Scott B. Ficarro, Thomas E. Wales +5 more

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eLife(2021)10.7554/elife.70784

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77 citations

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Cell Reports Medicine(2021)10.1016/j.xcrm.2021.100471

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75 citations

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Tetracyclines promote survival and fitness in mitochondrial disease models

Nature Metabolism(2021)10.1038/s42255-020-00334-y

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63 citations

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Cysteine 253 of UCP1 regulates energy expenditure and sex-dependent adipose tissue inflammation

Cell Metabolism(2021)10.1016/j.cmet.2021.11.003

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58 citations

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eLife(2021)10.7554/elife.64251

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40 citations

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Science Advances(2021)10.1126/sciadv.abd6263

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47 citations

Leslie Duplaquet, Benjamin L. Lampson, Adam C. Wang, Amin H. Sabet, Mette Ishoey +21 more

Structures of chaperone-associated assembly intermediates reveal coordinated mechanisms of proteasome biogenesis

Nature Structural & Molecular Biology(2021)10.1038/s41594-021-00583-9

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46 citations

Richard M. Walsh, Shaun Rawson, Mandeep Kaur, Meera K. Bhanu, Geng Tian +8 more

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Proceedings of the National Academy of Sciences(2021)10.1073/pnas.2023157118

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36 citations

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Journal of Experimental Biology(2021)10.1242/jeb.230342

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0DataRank · unranked

34 citations

Jeremy D. O’Connell, Joao A. Paulo, Sunia A. Trauger, Steven P. Gygi, Andrew W. Murray +1 more

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Molecular Cell(2021)10.1016/j.molcel.2021.07.017

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0DataRank · unranked

31 citations

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Proceedings of the National Academy of Sciences(2021)10.1073/pnas.2104944118

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0DataRank · unranked

20 citations

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APC7 mediates ubiquitin signaling in constitutive heterochromatin in the developing mammalian brain

Molecular Cell(2021)10.1016/j.molcel.2021.11.031

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0DataRank · unranked

19 citations

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Molecular & Cellular Proteomics(2021)10.1016/j.mcpro.2021.100182

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8 citations

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Strain-Specific Peptide (SSP) Interference Reference Sample: A Genetically Encoded Quality Control for Isobaric Tagging Strategies

Analytical Chemistry(2021)10.1021/acs.analchem.0c05483

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0DataRank · unranked

13 citations

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Journal of Proteomics(2021)10.1016/j.jprot.2021.104244

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0DataRank · unranked

6 citations

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Nature Methods(2021)10.1038/s41592-021-01077-8

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0DataRank · unranked

9 citations

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Clonal populations of a human TNBC model display significant functional heterogeneity and divergent growth dynamics in distinct contexts

Oncogene(2021)10.1038/s41388-021-02075-y

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0DataRank · unranked

9 citations

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Super Heavy TMTpro Labeling Reagent: An Alternative and Higher-Charge-State-Amenable Stable-Isotope-Labeled TMTpro Variant

Journal of Proteome Research(2021)10.1021/acs.jproteome.0c01056

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0DataRank · unranked

4 citations

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The fission yeast FLCN/FNIP complex augments TORC1 repression or activation in response to amino acid (AA) availability

iScience(2021)10.1016/j.isci.2021.103338

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0DataRank · unranked

3 citations

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bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.22.453338

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0DataRank · unranked

5 citations

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Integrative analyses uncover mechanisms by which aging drives B cell lymphoma

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.02.23.432500

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0DataRank · unranked

4 citations

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A peroxisomal ubiquitin ligase complex forms a retrotranslocation channel

Nature(2022)10.1038/s41586-022-04903-x

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0DataRank · unranked

65 citations

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Pathogenesis of Cardiomyopathy Caused by Variants in ALPK3 , an Essential Pseudokinase in the Cardiomyocyte Nucleus and Sarcomere

Circulation(2022)10.1161/circulationaha.122.059688

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0DataRank · unranked

50 citations

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Time-resolved proximity labeling of protein networks associated with ligand-activated EGFR

Cell Reports(2022)10.1016/j.celrep.2022.110950

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0DataRank · unranked

40 citations

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