John M. Koomen

Also affiliated with Moffitt Cancer Center, Molecular Oncology (United States)

MedicineChemistryBiochemistry, Genetics and Molecular Biology

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

0in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Papers

Driven by 43 papers. Top paper: “Targeted mass-spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP kinase, and AKT signaling”.

Targeted mass-spectrometry-based assays enable multiplex quantification of receptor tyrosine kinase, MAP kinase, and AKT signaling

Cell Reports Methods(2021)10.1016/j.crmeth.2021.100015

N/A

0.868DataRank · unranked

22 citations

Kanika Sharma, Melissa Hoffman, Eric Kuhn, Lei Zhao, Alexandra R. Cocco +19 more

HDAC8-mediated inhibition of EP300 drives a transcriptional state that increases melanoma brain metastasis

Nature Communications(2023)10.1038/s41467-023-43519-1

N/A

0.862DataRank · unranked

33 citations

Richard L. Bennett, Alberto Riva, Kanchan Gupta, Larissa Anastácio da Costa Carvalho, Chao Zhang +11 more

Macrophages use apoptotic cell-derived methionine and DNMT3A during efferocytosis to promote tissue resolution

Nature Metabolism(2022)10.1038/s42255-022-00551-7

N/A

0.775DataRank · unranked

174 citations

Bishuang Cai, Santosh R. Sukka, Brennan D. Gerlach, Arif Yurdagul, Xiaobo Wang +8 more

Metabolomics of primary cutaneous melanoma and matched adjacent extratumoral microenvironment

PLoS ONE(2020)10.1371/journal.pone.0240849

N/A

0.505DataRank · unranked

28 citations

Irina Gaynanova, Steven A. Eschrich, Eric A. Welsh, Timothy J. Garrett, Chris Beecher +6 more

Detectable Lipidomes and Metabolomes by Different Plasma Exosome Isolation Methods in Healthy Controls and Patients with Advanced Prostate and Lung Cancer

International Journal of Molecular Sciences(2023)10.3390/ijms24031830

N/A

0.500DataRank · unranked

27 citations

Yijun Tian, Paul Allen Stewart, Yury O. Núñez López, Brandon J. Manley, Bruna Pellini +9 more

CTEP 9557: A dose-escalation trial of combination dabrafenib, trametinib, and AT13387 in patients with BRAF mutant solid tumors.

Journal of Clinical Oncology(2020)10.1200/jco.2020.38.15_suppl.3609

N/A

0.293DataRank · unranked

4 citations

James M. Cleary, Justine V. Cohen, Donald P. Lawrence, Elizabeth I. Buchbinder, Anita Giobbie‐Hurder +11 more

Integrated proteomics identifies PARP inhibitor-induced prosurvival signaling changes as potential vulnerabilities in ovarian cancer

Journal of Biological Chemistry(2022)10.1016/j.jbc.2022.102550

N/A

0.269DataRank · unranked

5 citations

Sweta Dash, Thales C. Nepomuceno, Bin Fang, Sang Y. Yun, Eric A. Welsh +6 more

Macrophage-Derived Cholesterol Contributes to Therapeutic Resistance in Prostate Cancer

Cancer Research(2021)10.1158/0008-5472.can-20-4028

N/A

0DataRank · unranked

107 citations

William Dominguez‐Viqueira, Min Liu, Shivanshu Awasthi, Julieta Abraham-Miranda, Aysenur Keske +11 more

The non-canonical target PARP16 contributes to polypharmacology of the PARP inhibitor talazoparib and its synergy with WEE1 inhibitors

Cell chemical biology(2021)10.1016/j.chembiol.2021.07.008

N/A

0DataRank · unranked

38 citations

Claire E. Knezevic, Daniel S. Bejan, Yunting Luo, Xueli Li, Silvia Novakova +10 more

Global Phosphoproteomics Reveal CDK Suppression as a Vulnerability to KRas Addiction in Pancreatic Cancer

Clinical Cancer Research(2021)10.1158/1078-0432.ccr-20-4781

N/A

0DataRank · unranked

36 citations

Liwei Chen, Shengyan Xiang, Rajanikanth Vangipurapu, Hua Yang, Francisca Beato +11 more

Fucosylated Proteome Profiling Identifies a Fucosylated, Non-Ribosomal, Stress-Responsive Species of Ribosomal Protein S3

Cells(2021)10.3390/cells10061310

N/A

0DataRank · unranked

8 citations

Daniel Lester, Hui Ren, Connor M. Forsyth, Elliot Medina, David González-Pérez +7 more

Disrupting the MYC-TFEB Circuit Impairs Amino Acid Homeostasis and Provokes Metabolic Anergy

Cancer Research(2022)10.1158/0008-5472.can-21-1168

N/A

0DataRank · unranked

20 citations

Franz X. Schaub, Chunying Yang, Weimin Li, Seongseok Yun, Stephanie K. Schaub +10 more

Integrated Proteomics-Based Physical and Functional Mapping of AXL Kinase Signaling Pathways and Inhibitors Define Its Role in Cell Migration

Molecular Cancer Research(2022)10.1158/1541-7786.mcr-21-0275

N/A

0DataRank · unranked

11 citations

Sina Hosseinian, Mia Stroud, Emma Adhikari, James J. Saller, Matthew A. Smith +14 more

Histone H2A Lys130 acetylation epigenetically regulates androgen production in prostate cancer

Nature Communications(2023)10.1038/s41467-023-38887-7

N/A

0DataRank · unranked

42 citations

Dhivya Sridaran, Surbhi Chouhan, Cody Weimholt, Audrey Wilson, Jingqin Luo +9 more

A metabolic perspective on nitric oxide function in melanoma

Biochimica et Biophysica Acta (BBA) - Reviews on Cancer(2023)10.1016/j.bbcan.2023.189038

N/A

0DataRank · unranked

13 citations

Parul Dubey, Bethany Carter, John M. Koomen, Joseph Markowitz, John Jimenez

Network models of protein phosphorylation, acetylation, and ubiquitination connect metabolic and cell signaling pathways in lung cancer

PLoS Computational Biology(2023)10.1371/journal.pcbi.1010690

N/A

0DataRank · unranked

18 citations

Guolin Zhang, Cüneyt Gürcan Akçora, Yu Lin, Bin Fang, John M. Koomen +3 more

Differential network analysis of ROS1 inhibitors reveals lorlatinib polypharmacology through co-targeting PYK2

Cell chemical biology(2023)10.1016/j.chembiol.2023.09.011

N/A

0DataRank · unranked

7 citations

Lily L. Remsing Rix, Xueli Li, Bin Fang, Victoria Izumi, Eric A. Welsh +6 more

Differential Chemoproteomics Reveals MARK2/3 as Cell Migration‐Relevant Targets of the ALK Inhibitor Brigatinib

ChemBioChem(2023)10.1002/cbic.202200766

N/A

0DataRank · unranked

6 citations

Yi Liao, J. Cao, Bin Fang, Sang Y. Yun, Fumi Kinose +6 more

Data from Macrophage-Derived Cholesterol Contributes to Therapeutic Resistance in Prostate Cancer

(2023)10.1158/0008-5472.c.6513003

N/A

0DataRank · unranked

1 citations

William Dominguez‐Viqueira, Min Liu, Shivanshu Awasthi, Julieta Abraham-Miranda, Aysenur Keske +11 more

Branched-chain keto acids promote an immune-suppressive and neurodegenerative microenvironment in leptomeningeal disease

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.12.18.572239

N/A

0DataRank · unranked

1 citations

Yuan Ren, Ronak Kundalia, Hasan Alhaddad, Zhihua Chen, Gerald Wallace +17 more

Data from Macrophage-Derived Cholesterol Contributes to Therapeutic Resistance in Prostate Cancer

(2023)10.1158/0008-5472.c.6513003.v1

N/A

0DataRank · unranked

0 citations

William Dominguez‐Viqueira, Min Liu, Shivanshu Awasthi, Julieta Abraham-Miranda, Aysenur Keske +11 more

Data from PTEN Loss Confers BRAF Inhibitor Resistance to Melanoma Cells through the Suppression of BIM Expression

(2023)10.1158/0008-5472.c.6502911.v1

N/A

0DataRank · unranked

0 citations

Yun Xiang, Vito W. Rebecca, Ethan V. Abel, Y. Ann Chen, A. Cecilia Munko +11 more

Data from Tyrosine Phosphoproteomics Identifies Both Codrivers and Cotargeting Strategies for T790M-Related EGFR-TKI Resistance in Non–Small Cell Lung Cancer

(2023)10.1158/1078-0432.c.6522212

N/A

0DataRank · unranked

0 citations

Guolin Zhang, Matthew A. Smith, Alex S. López, Yun Bai, Jiannong Li +14 more

Data from Global Phosphoproteomics Reveal CDK Suppression as a Vulnerability to KRas Addiction in Pancreatic Cancer

(2023)10.1158/1078-0432.c.6530501

N/A

0DataRank · unranked

0 citations

Liwei Chen, Shengyan Xiang, Rajanikanth Vangipurapu, Hua Yang, Francisca Beato +11 more

Efferocytosis drives a tryptophan metabolism pathway in macrophages to promote tissue resolution

Nature Metabolism(2024)10.1038/s42255-024-01115-7

N/A

0DataRank · unranked

60 citations

Patrick B. Ampomah, Lancia Darville, David Ngai, Xiaobo Wang, George Kuriakose +6 more

Mapping the cancer surface proteome in search of target antigens for immunotherapy

Molecular Therapy(2024)10.1016/j.ymthe.2024.07.019

N/A

0DataRank · unranked

20 citations

Brandon Kale, John M. Koomen, Fabiana Perna, Francesco Di Meo

SHP2 as a primordial epigenetic enzyme expunges histone H3 pTyr-54 to amend androgen receptor homeostasis

Nature Communications(2024)10.1038/s41467-024-49978-4

N/A

0DataRank · unranked

8 citations

Dhivya Sridaran, Cody Weimholt, Jingqin Luo, Tiandao Li, Myles C. Hodgson +11 more

SART1 modulates poly-(ADP-ribose) chain accumulation and PARP1 chromatin localization

iScience(2024)10.1016/j.isci.2024.111252

N/A

0DataRank · unranked

0 citations

Thales C. Nepomuceno, Nicholas T. Woods, Uwe Rix, John M. Koomen, Achille Pellicioli +3 more

Blocking Nitrosylation Induces Immunogenic Cell Death by Sensitizing NRAS -Mutant Melanoma to MEK Inhibitors

Cancer Research(2025)10.1158/0008-5472.can-24-0693

N/A

0DataRank · unranked

14 citations

Vipin Yadav, Rachel V. Jimenez, Pravin R. Phadatare, Nitin Inamdar, Montana M. Young +10 more

A machine learning framework for classifying lipids in untargeted metabolomics using mass-to-charge ratios and retention times

Metabolomics(2025)10.1007/s11306-025-02343-y

N/A

0DataRank · unranked

1 citations

Yonatan Ayalew Mekonnen, Isis Narváez-Bandera, Vanessa Rubio, Dalia Ercan, Eric A. Welsh +13 more

Race-based differences in serum biomarkers for cancer-associated cachexia in a diverse cohort of patients with pancreatic ductal adenocarcinoma

Communications Medicine(2025)10.1038/s43856-025-01277-9

N/A

0DataRank · unranked

1 citations

Evan W. Davis, Solomon Alhassan, J. Pablo Arnoletti, Toni L. Basinski, Ashley B. McKee +42 more

Reproducible Sectioning and Sample Preparation for Mass Spectrometry Imaging of Cancer Metabolism in Frozen Lung Tissue

Methods in molecular biology(2025)10.1007/978-1-0716-4534-5_23

N/A

0DataRank · unranked

2 citations

Hayley D. Ackerman, Nicole Hackel, Christina L. Carr, Jaden R Baldwin, John H. Lockhart +10 more

CAR T cell-driven induction of iNOS in tumor-associated macrophages promotes CAR T cell resistance in B cell lymphoma

Research Square(2025)10.21203/rs.3.rs-3481746/v1

N/A

0DataRank · unranked

3 citations

Sae Bom Lee, Yun Pyo Kang, Justin C. Boucher, Jay K. Mandula, Emiliano Roselli +25 more

TAp73 mediates anti-tumor immunity through regulation of lipid metabolism in the lung tumor microenvironment

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.11.21.689807

N/A

0DataRank · unranked

1 citations

Vanessa Rubio, Andrew John Davis, John H. Lockhart, Nicole R. Hackel, Rachel V. Jimenez +21 more

Race-based differences in serum biomarkers for cancer-associated cachexia in a diverse cohort of patients with pancreatic ductal adenocarcinoma

Research Square(2025)10.21203/rs.3.rs-5690506/v1

N/A

0DataRank · unranked

0 citations

Margaret Park, Evan W. Davis, Solomon Alhassan, J. Pablo Arnoletti, Toni L. Basinski +42 more

Sirt2 Inhibition Enhances Metabolic Fitness and Effector Functions of Tumor-Reactive T Cells

Cell Metabolism(2020)10.1016/j.cmet.2020.07.008

N/A

0DataRank · unranked

162 citations

Lin Zhang, Nayoung Kim, Min-Hsuan Wang, Cristina Iclozan, Bin Fang +12 more

Dual targeting of RET and SRC synergizes in RET fusion‐positive cancer cells

Molecular Oncology(2025)10.1002/1878-0261.70155

N/A

0DataRank · unranked

0 citations

Lily L. Remsing Rix, Bin Fang, Eric A. Welsh, Nicole V. Bremer, Valentina Foglizzo +9 more

Macrophage Metabolism of Apoptotic Cell-Derived Arginine Promotes Continual Efferocytosis and Resolution of Injury

Cell Metabolism(2020)10.1016/j.cmet.2020.01.001

N/A

0DataRank · unranked

510 citations

Manikandan Subramanian, Xiaobo Wang, Scott B. Crown, Olga Ilkayeva, Lancia Darville +11 more

Proteomic Analysis of CSF from Patients with Leptomeningeal Melanoma Metastases Identifies Signatures Associated with Disease Progression and Therapeutic Resistance

Clinical Cancer Research(2020)10.1158/1078-0432.ccr-19-2840

N/A

0DataRank · unranked

57 citations

Vincent Law, Clayton Wyatt, Brittany Evernden, Bin Fang, John M. Koomen +5 more

Cereblon harnesses Myc-dependent bioenergetics and activity of CD8+ T lymphocytes

Blood(2020)10.1182/blood.2019003257

N/A

0DataRank · unranked

22 citations

Matthew Beatty, Ying Han, Mario R. Fernandez, Afua A. Akuffo, William E. Goodheart +26 more

Noncanonical EphA2 Signaling Is a Driver of Tumor-Endothelial Cell Interactions and Metastatic Dissemination in BRAF Inhibitor‒Resistant Melanoma

Journal of Investigative Dermatology(2020)10.1016/j.jid.2020.08.012

N/A

0DataRank · unranked

30 citations

Inna Smalley, Michael F. Emmons, Ritin Sharma, Victoria Izumi, Jane L. Messina +5 more

Ack1 Mediated AKT/PKB Tyrosine 176 Phosphorylation Regulates Its Activation

UNC Libraries(2020)10.17615/1nj4-9e17

N/A

0DataRank · unranked

0 citations

Saı̈d M. Sebti, Rebecca S. Muraoka-Cook, Robert W. Engelman, H. Shelton Earp, Bin Fang +11 more

Extracellular Signal-regulated Kinase (ERK) Phosphorylates Histone Deacetylase 6 (HDAC6) at Serine 1035 to Stimulate Cell Migration

UNC Libraries(2020)10.17615/3c6y-sj88

N/A

0DataRank · unranked

0 citations

Gerold Bepler, Santo V. Nicosia, Channing J. Der, Shengyan Xiang, Hu Chen +13 more