David Fenyö

Also affiliated with NYU Langone Health, Indiana University School of Medicine, New York University

ChemistryBiochemistry, Genetics and Molecular BiologyAgricultural and Biological Sciences

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 2%percentile

3.5Author DataRank

Indexed papers

5in 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 5 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 →

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

Proteogenomic data and resources for pan-cancer analysis

Cancer Cell(2023)10.1016/j.ccell.2023.06.009

Top 6%

3.4DataRank

Top 6%241 citations

Yongchao Dou, Felipe da Veiga Leprevost, Yifat Geffen, Anna Calinawan, François Aguet +93 more

Papers

Driven by 112 papers — median percentile 11. Top paper: “Proteogenomics connects somatic mutations to signalling in breast cancer”.

Proteogenomics connects somatic mutations to signalling in breast cancer

Nature(2016)10.1038/nature18003

N/A

12.7DataRank · unranked

1777 citations

Philipp Mertins, D. R. Mani, Kelly V. Ruggles, Michael A. Gillette, Karl R. Clauser +31 more

Proteogenomic Characterization Reveals Therapeutic Vulnerabilities in Lung Adenocarcinoma

Cell(2020)10.1016/j.cell.2020.06.013

N/A

9.1DataRank · unranked

837 citations

Shankha Satpathy, Song Cao, Saravana M. Dhanasekaran, Suhas Vasaikar, Karsten Krug +95 more

Proteogenomic and metabolomic characterization of human glioblastoma

Cancer Cell(2021)10.1016/j.ccell.2021.01.006

N/A

8.7DataRank · unranked

702 citations

Alla Y. Karpova, Marina A. Gritsenko, Jennifer Kyle, Song Cao, Yize Li +95 more

Proteogenomic Landscape of Breast Cancer Tumorigenesis and Targeted Therapy

Cell(2020)10.1016/j.cell.2020.10.036

N/A

8.1DataRank · unranked

565 citations

Eric J. Jaehnig, Shankha Satpathy, Lili M. Blumenberg, Alla Y. Karpova, Meenakshi Anurag +85 more

Proteogenomic characterization of pancreatic ductal adenocarcinoma

Cell(2021)10.1016/j.cell.2021.08.023

N/A

7.9DataRank · unranked

606 citations

Chen Huang, Daniel Cui Zhou, Yingwei Hu, T. Mamie Lih, Sara R. Savage +95 more

A proteogenomic portrait of lung squamous cell carcinoma

Cell(2021)10.1016/j.cell.2021.07.016

N/A

7.2DataRank · unranked

392 citations

Karsten Krug, Pierre M. Jean Beltran, Sara R. Savage, Francesca Petralia, Chandan Kumar‐Sinha +95 more

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

Nature Communications(2017)10.1038/ncomms14864

N/A

4.9DataRank · unranked

155 citations

Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles +40 more

Histopathologic and proteogenomic heterogeneity reveals features of clear cell renal cell carcinoma aggressiveness

Cancer Cell(2022)10.1016/j.ccell.2022.12.001

N/A

3.6DataRank · unranked

216 citations

T. Mamie Lih, Saravana M. Dhanasekaran, Rahul Mannan, Lijun Chen, Marcin Cieślik +95 more

Pan-cancer analysis of post-translational modifications reveals shared patterns of protein regulation

Cell(2023)10.1016/j.cell.2023.07.013

N/A

3.5DataRank · unranked

197 citations

Shankara Anand, Yo Akiyama, Tomer M. Yaron, Yizhe Song, Jared L. Johnson +90 more

Proteogenomic data and resources for pan-cancer analysis

Cancer Cell(2023)10.1016/j.ccell.2023.06.009

Top 6%

3.4DataRank

Top 6%241 citations

Yongchao Dou, Felipe da Veiga Leprevost, Yifat Geffen, Anna Calinawan, François Aguet +93 more

Baseline Serum Autoantibody Signatures Predict Recurrence and Toxicity in Melanoma Patients Receiving Adjuvant Immune Checkpoint Blockade

Clinical Cancer Research(2022)10.1158/1078-0432.ccr-22-0404

N/A

1.9DataRank · unranked

41 citations

Wenke Liu, David Fenyö, Megan Wind‐Rotolo, Michelle Krogsgaard, Janice M. Mehnert +4 more

Integrative multi-omic cancer profiling reveals DNA methylation patterns associated with therapeutic vulnerability and cell-of-origin

Cancer Cell(2023)10.1016/j.ccell.2023.07.013

N/A

1.8DataRank · unranked

107 citations

Rita Jui-Hsien Lu, Reyka G. Jayasinghe, Steven M. Foltz, Eduard Porta‐Pardo, Yifat Geffen +95 more

Pan-cancer proteogenomics characterization of tumor immunity

Cell(2024)10.1016/j.cell.2024.01.027

N/A

1.7DataRank · unranked

91 citations

Weiping Ma, Tomer M. Yaron, Francesca Pia Caruso, Nicole Tignor, Joshua M. Wang +95 more

Deep Learning and Pathomics Analyses Reveal Cell Nuclei as Important Features for Mutation Prediction of BRAF-Mutated Melanomas

Journal of Investigative Dermatology(2021)10.1016/j.jid.2021.09.034

N/A

1.4DataRank · unranked

49 citations

Sofia Nomikou, Nicolas Coudray, George Jour, Zarmeena Dawood, Runyu Hong +15 more

Breast tumors educate the proteome of stromal tissue in an individualized but coordinated manner

Science Signaling(2017)10.1126/scisignal.aam8065

N/A

1.2DataRank · unranked

24 citations

Arshag D. Mooradian, Petra Erdmann-Gilmore, Qiang Zhang, Rosa Viner, Sherri R. Davies +12 more

Proteogenomic insights suggest druggable pathways in endometrial carcinoma

Cancer Cell(2023)10.1016/j.ccell.2023.07.007

N/A

1.2DataRank · unranked

54 citations

Lizabeth Katsnelson, Marina A. Gritsenko, Yingwei Hu, Boris Reva, Runyu Hong +95 more

Integrative omics analyses broaden treatment targets in human cancer

Genome Medicine(2018)10.1186/s13073-018-0564-z

N/A

1.2DataRank · unranked

26 citations

Sam Qiancheng Sun, Kuan-lin Huang, Clara Oh, Matthew H. Bailey, Rajees Varghese +16 more

Community Assessment of the Predictability of Cancer Protein and Phosphoprotein Levels from Genomics and Transcriptomics

Cell Systems(2020)10.1016/j.cels.2020.06.013

N/A

1.1DataRank · unranked

32 citations

Francesca Petralia, Zhi Li, Hongyang Li, Weiping Ma, Xiaoyu Song +87 more

Comprehensive proteogenomic characterization of rare kidney tumors

Cell Reports Medicine(2024)10.1016/j.xcrm.2024.101547

N/A

0.920DataRank · unranked

46 citations

Lijun Chen, Yi Hsiao, Rahul Mannan, Yuping Zhang, Jie Luo +95 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

Deep learning integrates histopathology and proteogenomics at a pan-cancer level

Cell Reports Medicine(2023)10.1016/j.xcrm.2023.101173

N/A

0.843DataRank · unranked

33 citations

Runyu Hong, Elizabeth G. Demicco, Jimin Tan, Rossana Lazcano, André L. Moreira +95 more

Correction: Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

Nature Communications(2017)10.1038/ncomms15479

N/A

0.843DataRank · unranked

11 citations

Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles +40 more

Spatially interacting phosphorylation sites and mutations in cancer

Nature Communications(2021)10.1038/s41467-021-22481-w

N/A

0.745DataRank · unranked

27 citations

Daniel Cui Zhou, Liang-Bo Wang, Amila Weerasinghe, Abdülkadir Elmas, Ruiyang Liu +16 more

Predicting endometrial cancer subtypes and molecular features from histopathology images using multi-resolution deep learning models

Cell Reports Medicine(2021)10.1016/j.xcrm.2021.100400

N/A

0.744DataRank · unranked

142 citations

Wenke Liu, Deborah F. DeLair, Narges Razavian, David Fenyö, Runyu Hong

LINE-1 expression in cancer correlates with p53 mutation, copy number alteration, and S phase checkpoint

Proceedings of the National Academy of Sciences(2022)10.1073/pnas.2115999119

N/A

0.709DataRank · unranked

112 citations

Xuya Wang, Carlos Mendez‐Dorantes, Paolo Mita, Song Cao, Mark Grivainis +6 more

Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer

Cell(2023)10.1016/j.cell.2023.07.004

N/A

0.680DataRank · unranked

92 citations

Jacob J. Kennedy, Richard G. Ivey, Oscar Murillo, Noshad Hosseini, Xiaoyu Song +42 more

Multi-scale signaling and tumor evolution in high-grade gliomas

Cancer Cell(2024)10.1016/j.ccell.2024.06.004

N/A

0.612DataRank · unranked

58 citations

Song Cao, Kathleen J. Imbach, Marina A. Gritsenko, T. Mamie Lih, Jennifer Kyle +91 more

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

UNC Libraries(2020)10.17615/0xdg-yq72

N/A

0.552DataRank · unranked

6 citations

Shunqiang Li, Philipp Mertins, Song Cao, Harsha P. Gunawardena, Kelly V. Ruggles +40 more

Human transposon insertion profiling by sequencing (TIPseq) to map LINE-1 insertions in single cells

Philosophical Transactions of the Royal Society B Biological Sciences(2020)10.1098/rstb.2019.0335

N/A

0.533DataRank · unranked

10 citations

Zuojian Tang, Jared P. Steranka, Lindsay M. Payer, Jef D. Boeke, David L. Keefe +4 more

Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer

Cell(2025)10.1016/j.cell.2025.10.043

N/A

0.529DataRank · unranked

33 citations

Tao Liu, Zhen Zhang, Bai Zhang, Vladislav A. Petyuk, Li Chen +55 more

Affinity proteomic dissection of the human nuclear cap-binding complex interactome

Nucleic Acids Research(2020)10.1093/nar/gkaa743

N/A

0.524DataRank · unranked

32 citations

Svetlana Kalmykova, Maria Pashkova, Mehrnoosh Oghbaie, Hua Jiang, Kelly R. Molloy +7 more

The expression profile and tumorigenic mechanisms of CD97 (ADGRE5) in glioblastoma render it a targetable vulnerability

Cell Reports(2023)10.1016/j.celrep.2023.113374

N/A

0.494DataRank · unranked

26 citations

Nainita Roy, Takamitsu Hattori, Devin Bready, Hayley Donaldson, Christopher M. Lawson +28 more

Cell type-specific prediction of 3D chromatin organization enables high-throughput in silico genetic screening

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.03.05.483136

N/A

0.425DataRank · unranked

8 citations

Nina Shenker-Tauris, Javier Rodriguez-Hernaez, Eric Wang, Theodore Sakellaropoulos, Francesco Boccalatte +7 more

Deep Learning and Its Applications in Computational Pathology

BioMedInformatics(2022)10.3390/biomedinformatics2010010

N/A

0.396DataRank · unranked

13 citations

David Fenyö, Runyu Hong

A new generation of nanobody research tools using improved mass spectrometry-based discovery methods

Journal of Biological Chemistry(2024)10.1016/j.jbc.2024.107623

N/A

0.385DataRank · unranked

12 citations

Ryan Farrell, Kelly R. Molloy, Sarah Keegan, Junjie Wang, Erica Y. Jacobs +8 more

Proteogenomic analysis of chemo-refractory high-grade serous ovarian cancer

Cell(2024)10.1016/j.cell.2024.01.016

N/A

0.373DataRank · unranked

11 citations

Jacob J. Kennedy, Richard G. Ivey, Oscar Murillo, Noshad Hosseini, Xiaoyu Song +42 more

Diversity of Functionally Distinct Clonal Sets of Human Conventional Memory B Cells That Bind Staphylococcal Protein A

Frontiers in Immunology(2021)10.3389/fimmu.2021.662782

N/A

0.360DataRank · unranked

10 citations

Li Zhi, David N. Hernandez, Hanane El Bannoudi, Sergei L. Kosakovsky Pond, Bo Shopsin +4 more

Adenosine A2A receptor null chondrocyte transcriptome resembles that of human osteoarthritic chondrocytes

Purinergic Signalling(2021)10.1007/s11302-021-09788-5

N/A

0.345DataRank · unranked

9 citations

Carmen Corciulo, Benjamin H. Friedman, Zhi Li, Samson T. Jacob, David Fenyö +2 more

Precision proteogenomics reveals pan-cancer impact of germline variants

Cell(2025)10.1016/j.cell.2025.03.026

N/A

0.341DataRank · unranked

8 citations

Nadezhda V. Terekhanova, Kathleen J. Imbach, Karl R. Clauser, Myvizhi Esai Selvan, Isabel Mendizabal +132 more

Predictive modeling of morbidity and mortality in COVID-19 hospitalized patients and its clinical implications

medRxiv(2020)10.1101/2020.12.02.20235879

N/A

0.330DataRank · unranked

8 citations

Wenke Liu, Xiaoshan Chen, Michael P. McRae, John T. McDevitt, David Fenyö +1 more

Proteogenomics connects somatic mutations to signalling in breast cancer

UNC Libraries(2020)10.17615/mepw-5x28

N/A

0.269DataRank · unranked

5 citations

Mani, Kelly V. Ruggles, Michael A. Gillette, Karl R. Clauser, Pei Wang +31 more

MED19 encodes two unique protein isoforms that confer prostate cancer growth under low androgen through distinct gene expression programs

Scientific Reports(2023)10.1038/s41598-023-45199-9

N/A

0.269DataRank · unranked

5 citations

Hannah Weber, Ying Wang, Hongying Huang, Ellen Shapiro, David Fenyö +2 more

Proteomic-based stemness score measures oncogenic dedifferentiation and enables the identification of druggable targets

Cell Genomics(2025)10.1016/j.xgen.2025.100851

N/A

0.254DataRank · unranked

4 citations

Renan Simões, Emerson de Souza Santos, Elizabeth G. Demicco, Rossana N. Lazcano Segura, Ma Weiping +95 more

D-type cyclins regulate DNA mismatch repair in the G1 and S phases of the cell cycle, maintaining genome stability

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.01.12.575420

N/A

0.241DataRank · unranked

4 citations

Bearach Miwatani-Minter, Qingyue Zhang, Hailey V. Goldberg, Marc Kerzhnerman, Jesse B. Howard +19 more

SLFN11 counteracts the RFWD3-PRIMPOL DNA damage tolerance axis to restrain gapped DNA synthesis in response to replication stress

Nature Communications(2025)10.1038/s41467-025-66068-1

N/A

0.241DataRank · unranked

4 citations

Dong-Woo Shin, Liana Goehring, Beáta Szeitz, David Fenyö, Eli Rothenberg +3 more

Lupus disease flares are concordant with immune responses to blooms of lipoglycan-expressing Ruminococcus blautia gnavus strains arising from unstable gut microbiota communities

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.28.498027

N/A

0.176DataRank · unranked

2 citations

Ze Chen, Peter Izmirly, Lea Ann Chen, Zhi Li, Alejandro Pironti +11 more

Deep Learning and Its Applications in Computational Pathology

Preprints.org(2022)10.20944/preprints202201.0224.v1

N/A

0.165DataRank · unranked

2 citations

David Fenyö, Runyu Hong

Engineered transcription-associated Cas9 targeting in eukaryotic cells

Nature Communications(2024)10.1038/s41467-024-54629-9

N/A

0.135DataRank · unranked

1 citations

Manjunatha Kogenaru, Sarah Keegan, Max A. B. Haase, Larisa Kagermazova, Mauricio A. Arias +7 more

An Analysis of the Sensitivity of Proteogenomic Mapping of Somatic Mutations and Novel Splicing Events in Cancer

UNC Libraries(2020)10.17615/rdzv-r921

Top 78%

0.104DataRank

Top 78%1 citations

Richard D. Smith, Robbert J.C. Slebos, Shisheng Sun, Zhen Zhang, Hui Zhang +33 more

In vivo metabolomics identifies CD38 as an emergent vulnerability in LKB1 -mutant lung cancer

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.04.18.537350

N/A

0.104DataRank · unranked

1 citations

David H. Peng, David Fenyö, Hao Yuan, Alfonso Lopez, Daniel Levin +26 more

B cell-extrinsic and intrinsic factors linked to early immune repletion after anti-CD20 therapy in patients with multiple sclerosis of African ancestry

Frontiers in Immunology(2025)10.3389/fimmu.2025.1590165

N/A

0.104DataRank · unranked

1 citations

Abhimanyu N. Amarnani, Arnaldo A. Arbini, Angie Kim, Hannah Kopinsky, David Fenyö +2 more

Dissecting the Structural Dynamics of the Nuclear Pore Complex

Molecular Cell(2020)10.1016/j.molcel.2020.11.032

N/A

0DataRank · unranked

60 citations

Kelly R. Molloy, Sarah Keegan, Thurston Herricks, Dante Lepore, Mary Munson +7 more

RIP-seq reveals LINE-1 ORF1p association with p-body enriched mRNAs

Mobile DNA(2021)10.1186/s13100-021-00233-3

N/A

0DataRank · unranked

36 citations

Wilson McKerrow, Paolo Mita, Jef D. Boeke, Susan K. Logan, David Fenyö +1 more

Predictive Modeling of Morbidity and Mortality in Patients Hospitalized With COVID-19 and its Clinical Implications: Algorithm Development and Interpretation

Journal of Medical Internet Research(2021)10.2196/29514

N/A

0DataRank · unranked

17 citations

Wenke Liu, Xiaoshan Chen, Michael P. McRae, John T. McDevitt, David Fenyö +1 more

Supplementary File 5 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416119.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Clinical decision support tool and rapid point-of-care platform for determining disease severity in patients with COVID-19

Lab on a Chip(2020)10.1039/d0lc00373e

N/A

0DataRank · unranked

101 citations

Glennon W. Simmons, Nicolaos Christodoulides, Zhibing Lu, Stella K. Kang, David Fenyö +10 more

Predicting and Visualizing STK11 Mutation in Lung Adenocarcinoma Histopathology Slides Using Deep Learning

BioMedInformatics(2021)10.3390/biomedinformatics2010006

N/A

0DataRank · unranked

7 citations

Wenke Liu, David Fenyö, Runyu Hong

nucGEMs probe the biophysical properties of the nucleoplasm

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.11.18.469159

N/A

0DataRank · unranked

29 citations

Tamás Szórádi, Gururaj Rao Kidiyoor, Ying Xie, Nora L. Herzog, Andrew Bazley +11 more

Nanobody Repertoires for Exposing Vulnerabilities of SARS-CoV-2

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.04.08.438911

N/A

0DataRank · unranked

10 citations

Peter C. Fridy, Natalia E. Ketaren, Junjie Wang, Erica Y. Jacobs, Jean Paul Olivier +23 more

511 Disease flares in lupus are concordant with Ruminococcus Blautia Gnavus blooms arising within unstable gut microbiota communities

Abstracts(2021)10.1136/lupus-2021-lupus21century.29

N/A

0DataRank · unranked

0 citations

Ze Chen, Peter Izmirly, David Fenyö, Jill P. Buyon, Alexander V. Alekseyenko +2 more

Proteogenomic analysis of aneuploidy reveals divergent types of gene expression regulation across cellular pathways

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.12.07.471176

N/A

0DataRank · unranked

0 citations

Xin Zhao, Lizabeth Katsnelson, Raquel Moya, Jasmine Shwetar, David Fenyö +2 more

Supplementary Figures from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416134.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Extended Methods from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416140.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

USP1-trapping lesions as a source of DNA replication stress and genomic instability

Nature Communications(2022)10.1038/s41467-022-29369-3

N/A

0DataRank · unranked

51 citations

Yandong Yin, Sarah Kit Leng Lui, Sarah Keegan, David Fenyö, Duncan J. Smith +3 more

Supplementary File 4 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416122.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Prediction of Maternal Hemorrhage Using Machine Learning: Retrospective Cohort Study

Journal of Medical Internet Research(2022)10.2196/34108

N/A

0DataRank · unranked

40 citations

Francine Hughes, Wenke Liu, Mark Grivainis, Iffath A. Hoskins, David Fenyö +1 more

Proteogenomic analysis of cancer aneuploidy and normal tissues reveals divergent modes of gene regulation across cellular pathways

eLife(2022)10.7554/elife.75227

N/A

0DataRank · unranked

29 citations

Xin Zhao, Lizabeth Katsnelson, Elaine M Camacho-Hernandez, Angela Mermerian, Joseph C. Mays +8 more

Spatially Interacting Phosphorylation Sites and Mutations in Cancer

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.02.14.431184

N/A

0DataRank · unranked

0 citations

Daniel Cui Zhou, Liang-Bo Wang, Amila Weerasinghe, Ruiyang Liu, Yige Wu +16 more

Supplementary File 2 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.22416128

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

PTK7 is a positive allosteric modulator of GPR133 (ADGRD1) signaling in GBM

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.15.496232

N/A

0DataRank · unranked

1 citations

Hediye Erdjument‐Bromage, Wenke Liu, Gabriele Stephan, Niklas Ravn-Boess, Devin Bready +12 more

MenDEL: PCR Primer Design as Constrained Optimization Process

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.26.496474

N/A

0DataRank · unranked

1 citations

Leslie A. Mitchell, Antonio Vela Gartner, David Fenyö, Jef D. Boeke, Sergei German

MenDEL: automated search of BAC sets covering long DNA regions of interest

bioRxiv (Cold Spring Harbor Laboratory)(2022)10.1101/2022.06.26.496179

N/A

0DataRank · unranked

1 citations

Sudarshan Pinglay, Brendan R. Camellato, David Fenyö, Jef D. Boeke, Sergei German

Extended Methods from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.22416140

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Data from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.c.6509465

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Cell-type-specific prediction of 3D chromatin organization enables high-throughput in silico genetic screening

Nature Biotechnology(2023)10.1038/s41587-022-01612-8

N/A

0DataRank · unranked

130 citations

Nina Shenker-Tauris, Javier Rodriguez-Hernaez, Eric Wang, Theodore Sakellaropoulos, Francesco Boccalatte +7 more

Supplementary tables 1 and 2 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416116.v1

Top 100%

0DataRank

Top 100%0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Supplementary File 5 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.22416119

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

KaryoCreate: A CRISPR-based technology to study chromosome-specific aneuploidy by targeting human centromeres

Cell(2023)10.1016/j.cell.2023.03.029

N/A

0DataRank · unranked

71 citations

Aleah Goldberg, Xin Zhao, Joseph C. Mays, Pan Cheng, Adam F. Johnson +23 more

Longitudinal gut microbiome analyses and blooms of pathogenic strains during lupus disease flares

Annals of the Rheumatic Diseases(2023)10.1136/ard-2023-223929

N/A

0DataRank · unranked

66 citations

Ze Chen, Peter Izmirly, Lea Ann Chen, Zhi Li, Chongda Zhang +12 more

Supplementary File 1 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416131.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

LINE-1 retrotransposon expression in cancerous, epithelial and neuronal cells revealed by 5′ single-cell RNA-Seq

Nucleic Acids Research(2023)10.1093/nar/gkad049

N/A

0DataRank · unranked

28 citations

Larisa Kagermazova, Nicole Doudican, Nicholas Frazzette, Efiyenia Ismini Kaparos, Shane A. Evans +7 more

PTK7 is a positive allosteric modulator of GPR133 signaling in glioblastoma

Cell Reports(2023)10.1016/j.celrep.2023.112679

N/A

0DataRank · unranked

16 citations

Hediye Erdjument‐Bromage, Gabriele Stephan, Niklas Ravn-Boess, Shuai Wang, Wenke Liu +13 more

PhosphoDisco: A Toolkit for Co-regulated Phosphorylation Module Discovery in Phosphoproteomic Data

Molecular & Cellular Proteomics(2023)10.1016/j.mcpro.2023.100596

N/A

0DataRank · unranked

2 citations

Lili M. Blumenberg, Grant Hussey, Sabrina George, Brecca Miller, Nithu Mathew +7 more

Simultaneous Quantitative SARS-CoV-2 Antigen and Host Antibody Detection and Pre-Screening Strategy at the Point of Care

Bioengineering(2023)10.3390/bioengineering10060670

N/A

0DataRank · unranked

2 citations

Michael P. McRae, Nicolaos Christodoulides, Isaac Dapkins, Glennon W. Simmons, Hanover Matz +4 more

KaryoTap Enables Cost-Effective High-Throughput Single-Cell Aneuploidy Profiling and Reveals How Positive and Negative Selection Shapes Cancer Genomes

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.09.08.555746

N/A

0DataRank · unranked

6 citations

Fabio Alfieri, Maria Trifas, Manjunatha Kogenaru, Helberth M. Quysbertf, Sally Mei +9 more

The expression profile and tumorigenic mechanisms of CD97 (ADGRE5) in glioblastoma render it a targetable vulnerability

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.08.31.555733

N/A

0DataRank · unranked

2 citations

Nainita Roy, Takamitsu Hattori, Devin Bready, Hayley Donaldson, Christopher M. Lawson +26 more

Modulation of GPR133 (ADGRD1) Signaling by its Intracellular Interaction Partner Extended Synaptotagmin 1 (ESYT1)

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.02.09.527921

N/A

0DataRank · unranked

0 citations

Hediye Erdjument‐Bromage, Wenke Liu, Joshua D. Frenster, Niklas Ravn-Boess, Devin Bready +5 more

Data from Baseline Serum Autoantibody Signatures Predict Recurrence and Toxicity in Melanoma Patients Receiving Adjuvant Immune Checkpoint Blockade

(2023)10.1158/1078-0432.c.6532566

N/A

0DataRank · unranked

0 citations

Wenke Liu, David Fenyö, Megan Wind‐Rotolo, Michelle Krogsgaard, Janice M. Mehnert +4 more

Data from Baseline Serum Autoantibody Signatures Predict Recurrence and Toxicity in Melanoma Patients Receiving Adjuvant Immune Checkpoint Blockade

(2023)10.1158/1078-0432.c.6532566.v1

N/A

0DataRank · unranked

0 citations

Wenke Liu, David Fenyö, Megan Wind‐Rotolo, Michelle Krogsgaard, Janice M. Mehnert +4 more

Supplementary Figures from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.22416134

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Data from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.c.6509465.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Supplementary tables 1 and 2 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.22416116

Top 100%

0DataRank

Top 100%0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

CDK-independent role of D-type cyclins in regulating DNA mismatch repair

Molecular Cell(2024)10.1016/j.molcel.2024.02.010

N/A

0DataRank · unranked

29 citations

Bearach Miwatani-Minter, Qingyue Zhang, Hailey V. Goldberg, Marc Kerzhnerman, Jesse B. Howard +19 more

Supplementary File 4 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

(2023)10.1158/0008-5472.22416122

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Supplementary File 2 from Mass Spectrometry–Based Proteomics Reveals Potential Roles of NEK9 and MAP2K4 in Resistance to PI3K Inhibition in Triple-Negative Breast Cancers

INDIGO (University of Illinois at Chicago)(2023)10.1158/0008-5472.22416128.v1

N/A

0DataRank · unranked

0 citations

Sandeep Rajput, Shunqiang Li, Kelly V. Ruggles, Arshag D. Mooradian, Philipp Mertins +28 more

Modulation of GPR133 (ADGRD1) signaling by its intracellular interaction partner extended synaptotagmin 1

Cell Reports(2024)10.1016/j.celrep.2024.114229

N/A

0DataRank · unranked

4 citations

Sara Haddock, Shuai Wang, Hediye Erdjument‐Bromage, Wenke Liu, Niklas Ravn-Boess +9 more

The MTIST platform: a microbiome time series inference standardized test

Research Square(2024)10.21203/rs.3.rs-4343683/v1

N/A

0DataRank · unranked

4 citations

Grant Hussey, João Valeriano, Chenzhen Zhang, Alexis Sullivan, David Fenyö +1 more

Machine Learning Classification of 53BP1 Foci

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.02.28.582150

N/A

0DataRank · unranked

0 citations

Sarah Keegan, Sebastian Jamshahi, David Fenyö, María Xóchitl Benítez-Jones

Clinical Decision Support Tool and Rapid Point-of-Care Platform for Determining Disease Severity in Patients with COVID-19

medRxiv(2020)10.1101/2020.04.16.20068411

N/A

0DataRank · unranked

22 citations

Glennon W. Simmons, Nicolaos Christodoulides, Zhibing Lu, Stella K. Kang, David Fenyö +10 more

A shotgun approach for highly multiplexed mammalian metabolic engineering

bioRxiv (Cold Spring Harbor Laboratory)(2025)10.1101/2025.07.08.663766

N/A

0DataRank · unranked

0 citations

Sara Sessa, Tori Rodrick, Drew R. Jones, David Fenyö, Sudarshan Pinglay +2 more

LINE-1 expression in cancer correlates with DNA damage response, copy number variation, and cell cycle progression

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.26.174052

N/A

0DataRank · unranked

3 citations

Xuya Wang, Paolo Mita, Song Cao, Mark Grivainis, Li Ding +4 more

Affinity proteomic dissection of the human nuclear cap-binding complex interactome

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.04.20.048470

N/A

0DataRank · unranked

2 citations

Svetlana Kalmykova, Maria Pashkova, Mehrnoosh Oghbaie, Hua Jiang, Kelly R. Molloy +7 more

Discovery of protein modifications using high resolution differential mass spectrometry proteomics

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.06.19.162321

N/A

0DataRank · unranked

1 citations

Zhi Li, Danmeng Luo, Mark Grivainis, Andrew M. Intlekofer, David Fenyö +2 more

TranspoScope: interactive visualization of retrotransposon insertions

Bioinformatics(2020)10.1093/bioinformatics/btaa244

N/A

0DataRank · unranked

0 citations

Zuojian Tang, David Fenyö, Mark Grivainis

Prediction of Maternal Hemorrhage: Using Machine Learning to Identify Patients at Risk

medRxiv(2020)10.1101/2020.06.04.20122663

N/A

0DataRank · unranked

0 citations

Francine Hughes, Wenke Liu, Mark Grivainis, David Fenyö, Jill M. Westcott

LINE-1 ORF1p RIP-seq reveals widespread association with p-body enriched mRNAs

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.08.20.259424

N/A

0DataRank · unranked

0 citations

Wilson McKerrow, Paolo Mita, Jef D. Boeke, Susan K. Logan, David Fenyö +1 more

Organization and dynamics of the nonhomologous end-joining machinery during DNA double-strand break repair

UNC Libraries(2020)10.17615/z9ca-qd07

N/A

0DataRank · unranked

0 citations

Eli Rothenberg, Howard H. Chang, Michael R. Lieber, David Fenyö, Go Watanabe +6 more

Structural and Functional Characterization of a Na v 1.5-Mitochondrial Couplon

Circulation Research(2020)10.1161/circresaha.120.318239

N/A

0DataRank · unranked

29 citations

Alejandra Leo‐Macías, Sarah Keegan, Mariam Jouni, Joon‐Chul Kim, Esperanza Agulló-Pascual +8 more

Expression profiling of the adhesion G protein-coupled receptor GPR133 (ADGRD1) in glioma subtypes

Neuro-Oncology Advances(2020)10.1093/noajnl/vdaa053

N/A

0DataRank · unranked

19 citations

Michael Kader, Scott Kamen, James Sun, Luis Chiriboga, Jonathan Serrano +22 more

CRL4AMBRA1 is a master regulator of D-type cyclins

Nature(2021)10.1038/s41586-021-03445-y

N/A

0DataRank · unranked

185 citations

Gergely Róna, Nan Zhou, Yeon‐Tae Jeong, Shaowen Jiang, Giacomo Milletti +16 more

Intraarticular injection of liposomal adenosine reduces cartilage damage in established murine and rat models of osteoarthritis

Scientific Reports(2020)10.1038/s41598-020-68302-w

N/A

0DataRank · unranked

40 citations

Cristina Castro, Thomas R. Coughlin, Samson T. Jacob, Li Zhu, David Fenyö +4 more

Highly synergistic combinations of nanobodies that target SARS-CoV-2 and are resistant to escape

eLife(2021)10.7554/elife.73027

N/A

0DataRank · unranked

71 citations

Peter C. Fridy, Natalia E. Ketaren, Junjie Wang, Erica Y. Jacobs, Jean Paul Olivier +24 more

David Fenyö

Indexed papers

Top data-sharing exemplar

Papers