Andrew Emili

Also affiliated with Oregon Health & Science University, Center for Systems Biology

ChemistryBiochemistry, 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

2in pilot corpus

datarank_citation_only_1hop_v6· scope data_onlyMethodology

Why this DataRank?

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

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

Read the full methodology →

Papers

Driven by 66 papers. Top paper: “PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs”.

PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs

BMC Bioinformatics(2006)10.1186/1471-2105-7-365

N/A

0.809DataRank · unranked

219 citations

Frank Dehne, Albert Chan, Jim Cheetham, Alex Duong, Andrew Emili +7 more

Organoids Model Transcriptional Hallmarks of Oncogenic KRAS Activation in Lung Epithelial Progenitor Cells

Cell stem cell(2020)10.1016/j.stem.2020.07.022

N/A

0.773DataRank · unranked

172 citations

Aaron L. Moye, Marall Vedaie, Linh M. Tran, Eileen Fung, Dar Heinze +21 more

PDX-derived organoids model in vivo drug response and secrete biomarkers

JCI Insight(2020)10.1172/jci.insight.135544

N/A

0.734DataRank · unranked

132 citations

Bruno Bockorny, Indranil Paul, Dipikaa Akshinthala, Pierre‐Olivier Frappart, Omar Gandarilla +20 more

SARS-CoV-2 Spike Protein Interacts with Multiple Innate Immune Receptors

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.07.29.227462

N/A

0.722DataRank · unranked

122 citations

Junwei Zeng, Nan Jia, Kathrin Stavenhagen, Yasuyuki Matsumoto, Hua Zhang +9 more

Patient-specific iPSCs carrying an SFTPC mutation reveal the intrinsic alveolar epithelial dysfunction at the inception of interstitial lung disease

Cell Reports(2021)10.1016/j.celrep.2021.109636

N/A

0.709DataRank · unranked

112 citations

Scott J. Russo, Anton Petcherski, Evan P. Taddeo, Rebeca Acín‐Pérez, Carlos Villacorta-Martín +22 more

The cyclin dependent kinase inhibitor Roscovitine prevents diet-induced metabolic disruption in obese mice

Scientific Reports(2021)10.1038/s41598-021-99871-z

N/A

0.633DataRank · unranked

8 citations

Kathleen Desevin, Briana N. Cortez, Ryan Hekman, Jean Z. Lin, Andrew Emili +2 more

Modulation of lymphocyte-mediated tissue repair by rational design of heterocyclic aryl hydrocarbon receptor agonists

Science Advances(2020)10.1126/sciadv.aay8230

N/A

0.604DataRank · unranked

55 citations

Carolyn A. Haller, Finith E. Jernigan, Steffi Koerner, Daniel J. Wong, Yiqiang Wang +16 more

Humanized mice reveal a macrophage-enriched gene signature defining human lung tissue protection during SARS-CoV-2 infection

Cell Reports(2022)10.1016/j.celrep.2022.110714

N/A

0.529DataRank · unranked

33 citations

Aoife K. O’Connell, Jacquelyn Turcinovic, Paige Montanaro, Ryan Hekman, Tomokazu Tamura +31 more

Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT

Nature Communications(2023)10.1038/s41467-023-36122-x

N/A

0.510DataRank · unranked

29 citations

Dante Bolzan, Ahmed Youssef, Keith A. Gagnon, Heather Hook, Gopal Karemore +17 more

Poly(GR) interacts with key stress granule factors promoting its assembly into cytoplasmic inclusions

Cell Reports(2023)10.1016/j.celrep.2023.112822

N/A

0.505DataRank · unranked

28 citations

Yanwei Wu, Wei Shao, Tania F. Gendron, Sophie J. F. van der Spek, Grigorii Sultanakhmetov +20 more

MKRN2 Physically Interacts with GLE1 to Regulate mRNA Export and Zebrafish Retinal Development

Cell Reports(2020)10.1016/j.celrep.2020.107693

N/A

0.464DataRank · unranked

21 citations

Amanda Miles, Eliza S. Lee, Syed Nabeel‐Shah, Jack Greenblatt, Alexander F. Palazzo +3 more

Neuralized-like protein 4 (NEURL4) mediates ADP-ribosylation of mitochondrial proteins

The Journal of Cell Biology(2021)10.1083/jcb.202101021

N/A

0.425DataRank · unranked

16 citations

Yuan Gao, Julian Kwan, Vanessa Hayashi, Megan Sheeran, Junxiang Xu +5 more

Enrichment of Phosphorylated Tau (Thr181) and Functionally Interacting Molecules in Chronic Traumatic Encephalopathy Brain-derived Extracellular Vesicles

Aging and Disease(2021)10.14336/ad.2020.1007

N/A

0.396DataRank · unranked

13 citations

Weiwei Lin, Kayo Takamatsu-Yukawa, Jianqiao Hu, Seiko Ikezu, Michael DeTure +4 more

Zhx2 Is a Candidate Gene Underlying Oxymorphone Metabolite Brain Concentration Associated with State-Dependent Oxycodone Reward

Journal of Pharmacology and Experimental Therapeutics(2022)10.1124/jpet.122.001217

N/A

0.360DataRank · unranked

10 citations

Emily J. Yao, Stanley I. Goldstein, William B. Lynch, Julia L. Scotellaro, Anyaa A. Shah +11 more

Multi-modal comparison of molecular programs driving nurse cell death and clearance in Drosophila melanogaster oogenesis

PLoS Genetics(2025)10.1371/journal.pgen.1011220

N/A

0.359DataRank · unranked

7 citations

Diane Patricia Vig Lebo, Albert A. Mondragon, Sandy B. Serizier, Julian Kwan, Jeanne S. Peterson +8 more

The influences of ApoE isoforms on endothelial adherens junctions and actin cytoskeleton responding to mCRP

Angiogenesis(2024)10.1007/s10456-024-09946-4

N/A

0.345DataRank · unranked

9 citations

Weiwei Lin, Qini Gan, Maohua Lei, Bin Gong, Chao Zhang +9 more

Phospho-Tune: Enhanced Structural Modeling of Phosphorylated Protein Interactions

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.02.29.582580

N/A

0.312DataRank · unranked

7 citations

Veranika Averkava, Sergei Kotelnikov, Darya Stepanenko, Thu Nguyen, Julie C. Mitchell +6 more

ADP-ribosylation of mitochondrial proteins is mediated by Neuralized-like protein 4 (NEURL4)

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.12.28.424513

N/A

0.269DataRank · unranked

5 citations

Yuan Gao, Julian Kwan, Vanessa Hayashi, Megan Sheeran, Junxiang Xu +5 more

Toward standardization and a concerted vision for platelet proteomics research: communication from the SSC of the ISTH

Journal of Thrombosis and Haemostasis(2025)10.1016/j.jtha.2025.02.002

N/A

0.241DataRank · unranked

4 citations

Samuel Tassi Yunga, Paulina B. Szklanna, Özgün Babur, Andrew Emili, Phillip A. Wilmarth +8 more

Platelet proteomics emerges from the womb: mass spectrometry insights into neonatal platelet biology

Journal of Thrombosis and Haemostasis(2024)10.1016/j.jtha.2024.01.020

N/A

0.208DataRank · unranked

3 citations

Andrew Emili, Joseph E. Aslan, Özgün Babur

Macrophages govern antiviral responses in human lung tissues protected from SARS-CoV-2 infection

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.17.452554

N/A

0.165DataRank · unranked

2 citations

Aoife K. O’Connell, Jacquelyn Turcinovic, Paige Montanaro, Ryan Hekman, Tomokazu Tamura +28 more

Recombinant Lloviu virus as a model to study inaccessible zoonotic viruses

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.08.02.454777

N/A

0.104DataRank · unranked

1 citations

Baylee Heiden, Judith Olejnik, Ellen L. Suder, Stephen Ross, Whitney A. Scoon +20 more

Patient-Specific iPSCs Carrying an SFTPC Mutation Reveal the Intrinsic Alveolar Epithelial Dysfunction at the Inception of Interstitial Lung Disease

SSRN Electronic Journal(2020)10.2139/ssrn.3757687

N/A

0.104DataRank · unranked

1 citations

Scott J. Russo, Anton Petcherski, Evan P. Taddeo, Rebeca Acín‐Pérez, Carlos Villacorta-Martín +18 more

Inhibition of Mul1-mediated ubiquitination promotes mitochondria-associated translation

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.07.28.454107

N/A

0DataRank · unranked

0 citations

Maria Dafne Cardamone, Julian Kwan, Joseph Orofino, Ryan Hekman, Shawn M. Lyons +3 more

DNAJB1-PRKACA in HEK293T cells induces LINC00473 overexpression that depends on PKA signaling

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.08.11.455931

N/A

0DataRank · unranked

0 citations

Ina Kycia, Michael Karski, K. Rosanna, Evan A. Bordt, Julian Kwan +9 more

The cyclin dependent kinase inhibitor Roscovitine reverses diet- induced metabolic disruption in obese mice

Research Square(2021)10.21203/rs.3.rs-537133/v1

N/A

0DataRank · unranked

0 citations

Kathleen Desevin, Briana N. Cortez, Ryan Hekman, Jean Z. Lin, Andrew Emili +2 more

Cotranscriptional Set2 Methylation of Histone H3 Lysine 36 Recruits a Repressive Rpd3 Complex

UNC Libraries(2021)10.17615/97ha-3103

N/A

0DataRank · unranked

0 citations

Maya Schuldiner, Stephen Buratowski, Natalie Thompson, Jonathan S. Weissman, S. Ahn +14 more

The protein organization of a red blood cell

Cell Reports(2022)10.1016/j.celrep.2022.111103

N/A

0DataRank · unranked

82 citations

Caitlyn L McCafferty, Eric J. Verbeke, Pierre C. Havugimana, Ophelia Papoulas, Claire D. McWhite +8 more

Loss of G-Protein Pathway Suppressor 2 Promotes Tumor Growth Through Activation of AKT Signaling

Frontiers in Cell and Developmental Biology(2021)10.3389/fcell.2020.608044

N/A

0DataRank · unranked

25 citations

Emma Smith, Yuan Gao, Julian Kwan, Benjamin C. Blum, Andrew Tilston-Lünel +7 more

Recombinant Lloviu virus as a tool to study viral replication and host responses

PLoS Pathogens(2022)10.1371/journal.ppat.1010268

N/A

0DataRank · unranked

29 citations

Baylee Heiden, Judith Olejnik, Ellen L. Suder, Stephen Ross, Whitney A. Scoon +20 more

Proteomic and phosphoproteomic profiling in heart failure with preserved ejection fraction (HFpEF)

Frontiers in Cardiovascular Medicine(2022)10.3389/fcvm.2022.966968

N/A

0DataRank · unranked

24 citations

Eng Leng Saw, Ryan Hekman, Benjamin C. Blum, Zaynab Hourani, Henk Granzier +3 more

DNAJB1-PRKACA in HEK293T cells induces LINC00473 overexpression that depends on PKA signaling

PLoS ONE(2022)10.1371/journal.pone.0263829

N/A

0DataRank · unranked

11 citations

Ina Kycia, Michael Karski, K. Rosanna, Evan A. Bordt, Julian Kwan +9 more

SARS-CoV-2 Disrupts Proximal Elements in the JAK-STAT Pathway

Journal of Virology(2021)10.1128/jvi.00862-21

N/A

0DataRank · unranked

85 citations

Nazimuddin Khan, Brianna J. Close, Raghuveera Kumar Goel, Benjamin C. Blum, Alexander H. Tavares +14 more

Factor quinolinone inhibitors disrupt spindles and multiple LSF (TFCP2)-protein interactions in mitosis, including with microtubule-associated proteins

PLoS ONE(2022)10.1371/journal.pone.0268857

N/A

0DataRank · unranked

3 citations

Jennifer L. S. Willoughby, Julian Kwan, Jessica M. Biagi, Niranjana Pokharel, Hang Gyeong Chin +8 more

Inhibition of K63 ubiquitination by G-Protein pathway suppressor 2 (GPS2) regulates mitochondria-associated translation

Research Square(2022)10.21203/rs.3.rs-1772179/v1

N/A

0DataRank · unranked

1 citations

Julian Kwan, Joseph Orofino, Justin English, Ryan Hekman, Shawn M. Lyons +4 more

Genetic basis of thermal nociceptive sensitivity and brain weight in a BALB/c reduced complexity cross

UNC Libraries(2022)10.17615/z75e-jt40

N/A

0DataRank · unranked

0 citations

Stanley I. Goldstein, Adam Willits, Julia L. Scotellaro, Gary Peltz, Leena Kader +8 more

Proteomic and phosphoproteomic profiling in heart failure with preserved ejection fraction (HFpEF)

European Heart Journal(2022)10.1093/eurheartj/ehac544.769

N/A

0DataRank · unranked

0 citations

E L Saw, Ryan Heckman, Benjamin C. Blum, Andrew Emili, F Sam +1 more

Interaction of tau with HNRNPA2B1 and N6-methyladenosine RNA mediates the progression of tauopathy

Molecular Cell(2021)10.1016/j.molcel.2021.07.038

N/A

0DataRank · unranked

194 citations

Weiwei Lin, Cheng Zhang, Peter E.A. Ash, Mamta Verma, Julian Kwan +21 more

SND1 binds to ERG and promotes tumor growth in genetic mouse models of prostate cancer

Nature Communications(2023)10.1038/s41467-023-43245-8

N/A

0DataRank · unranked

21 citations

Dmytro Rudoy, Sander B. Frank, Luan T. Phan, Olga Klezovitch, Julian Kwan +7 more

Discovery of a chemical probe for the L3MBTL3 methyllysine reader domain

UNC Libraries(2020)10.17615/17wc-xm97

N/A

0DataRank · unranked

0 citations

Christopher J. MacNevin, Stephen V. Frye, William P. Janzen, Dalia Barsyte-Lovejoy, Xi‐Ping Huang +19 more

State‐of‐the‐art computational methods to predict protein–protein interactions with high accuracy and coverage

PROTEOMICS(2023)10.1002/pmic.202200292

N/A

0DataRank · unranked

16 citations

Andrew Emili, Mark Crovella, Neal Kewalramani

Human herpesvirus 8 ORF57 protein is able to reduce TDP-43 pathology: network analysis identifies interacting pathways

Human Molecular Genetics(2023)10.1093/hmg/ddad122

N/A

0DataRank · unranked

3 citations

Caroline N. Murphy, Alejandro N. Rondón-Ortiz, Sophie J. F. van der Spek, Elena X. Kelly, Noah M. Lampl +5 more

The Influences of ApoE Isoforms on Endothelial Adherens Junctions and Actin Cytoskeleton Responding to mCRP

Research Square(2023)10.21203/rs.3.rs-3491703/v1

N/A

0DataRank · unranked

1 citations

Zhengrong Zhang, Weiwei Lin, Qini Gan, Maohua Lei, Bin Gong +9 more

Human Herpesvirus 8 ORF57 protein is able to reduce TDP-43 pathology: Network analysis Identifies Interacting Pathways

bioRxiv (Cold Spring Harbor Laboratory)(2023)10.1101/2023.05.18.540717

N/A

0DataRank · unranked

0 citations

Caroline N. Murphy, Alejandro N. Rondón-Ortiz, Sophie J. F. van der Spek, Elena X. Kelly, Noah M. Lampl +5 more

Inhibition of K63 ubiquitination by G-Protein pathway suppressor 2 (GPS2) regulates mitochondria-associated translation

Pharmacological Research(2024)10.1016/j.phrs.2024.107336

N/A

0DataRank · unranked

7 citations

Julian Kwan, Joseph Orofino, Giulia Burrone, Sahana Mitra, Tingyu Fan +7 more

ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii

PLoS Computational Biology(2024)10.1371/journal.pcbi.1012208

N/A

0DataRank · unranked

6 citations

Grant C. Stevens, Aline Sardinha-Silva, Lucas ZhongMing Hu, Verena Brand, Daniel D. Fusca +7 more

Proximity labeling reveals dynamic changes in the SQSTM1 protein network

Journal of Biological Chemistry(2024)10.1016/j.jbc.2024.107621

N/A

0DataRank · unranked

1 citations

Lushuang Zhang, Peter E.A. Ash, Avik Basu, Sambhavi Puri, Sophie J. F. van der Spek +5 more

A Complex Containing HNRNPA2B1 and N 6 -methyladenosine Modified Transcripts Mediates Actions of Toxic Tau Oligomers

bioRxiv (Cold Spring Harbor Laboratory)(2020)10.1101/2020.12.03.409334

N/A

0DataRank · unranked

0 citations

Weiwei Lin, Cheng Zhang, Mamta Verma, Julian Kwan, Emily van Vliet +16 more

TIA1 Mediates Divergent Inflammatory Responses to Tauopathy in Microglia and Macrophages

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.11.06.622325

N/A

0DataRank · unranked

5 citations

Sophie J. F. van der Spek, Anna Lourdes Cruz, Sambhavi Puri, Cheng Zhang, Jacqueline T. M. Aw +14 more

Discovery of RNA-Protein Molecular Clamps Using Proteome-Wide Stability Assays

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.04.19.590252

N/A

0DataRank · unranked

2 citations

Alice C. Fan, Zihao Wang, Sai Kiran Naineni, Regina Cencic, Steve B. Garcia-Gutierrez +6 more

DOT1L stimulates MYC/Mondo transcription factor activity by promoting its degradation cycle on chromatin

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.02.06.579191

N/A

0DataRank · unranked

1 citations

Ekaterina Gushchanskaia, Alexandra Mora-Martin, Ruben Esse, Iana Nikorich, Ainhoa Ceballos +8 more

Multi-modal comparison of molecular programs driving nurse cell death and clearance in Drosophila melanogaster oogenesis

bioRxiv (Cold Spring Harbor Laboratory)(2024)10.1101/2024.03.12.584558

N/A

0DataRank · unranked

0 citations

Diane PV Lebo, Albert A. Mondragon, Sandy B. Serizier, Julian Kwan, Jeanne S. Peterson +8 more

DESP demixes cell-state profiles from dynamic bulk molecular measurements

Cell Reports Methods(2024)10.1016/j.crmeth.2024.100729

N/A

0DataRank · unranked

0 citations

Indranil Paul, Mark Crovella, Andrew Emili, Ahmed Youssef

Beyond Glycolysis: Aldolase A Is a Novel Effector in Reelin-Mediated Dendritic Development

Journal of Neuroscience(2024)10.1523/jneurosci.0072-24.2024

N/A

0DataRank · unranked

0 citations

Mingqi Sha, Weiwei Lin, Sahana Natarajan, Marcus Kankkunen, Sabrina Kistler +7 more

Empagliflozin enhances metabolic efficiency and improves left ventricular hypertrophy in a hypertrophic cardiomyopathy mouse model

European Heart Journal(2025)10.1093/eurheartj/ehaf324

N/A

0DataRank · unranked

16 citations

Jarrod Moore, Fuzhong Qin, Salva R. Yurista, Aifeng Zhang, Huamei He +18 more

Protein Interaction Network Biology in Neuroscience

PROTEOMICS(2020)10.1002/pmic.201900311

N/A

0DataRank · unranked

23 citations

Peter E. A. Ash, Benjamin Wolozin, Andrew Emili, Avik Basu

Discovery of RNA-Protein Molecular Clamps Using Proteome-Wide Stability Assays

Journal of Proteome Research(2025)10.1021/acs.jproteome.4c01129

N/A

0DataRank · unranked

2 citations

Alice C. Fan, Zihao Wang, Sai Kiran Naineni, Regina Cencic, Steve B. Garcia-Gutierrez +6 more

Assessment of separation methods for extracellular vesicles from human and mouse brain tissues and human cerebrospinal fluids

Methods(2020)10.1016/j.ymeth.2020.02.002

N/A

0DataRank · unranked

81 citations

Weiwei Lin, Mei Chen, Samuel Hersh, Andrew Emili, Weiming Xia +2 more

Microenvironmental signals combine to induce non-additive molecular and phenotypic responses in mammary epithelial cells

iScience(2025)10.1016/j.isci.2025.113407

N/A

0DataRank · unranked

1 citations

Sean M. Gross, Jeremy Copperman, Daniel S. Derrick, Indranil Paul, Andrew Emili +2 more

Validation studies and multiomics analysis of Zhx2 as a candidate quantitative trait gene underlying brain oxycodone metabolite (oxymorphone) levels and behavior

Journal of Pharmacology and Experimental Therapeutics(2025)10.1016/j.jpet.2025.103557

N/A

0DataRank · unranked

1 citations

Sophia A. Miracle, Stanley I. Goldstein, Jacob A. Beierle, Rhea Bhandari, Ethan T. Gerhardt +12 more

Photo-proximity labeling in live primary neurons identifies an AMPA-receptor signal transducer in homeostatic synaptic plasticity

Cell chemical biology(2025)10.1016/j.chembiol.2025.11.006

N/A

0DataRank · unranked

0 citations

Tian Yuan, Sergei Kotelnikov, Gabriel Cohn, Sadhna Phanse, Dima Kozakov +3 more

BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain

Cell Systems(2020)10.1016/j.cels.2020.03.003

N/A

0DataRank · unranked

87 citations

Peter E.A. Ash, Sadhna Phanse, Florian Goebels, Lucas ZhongMing Hu, Siwei Chen +30 more

Mass Spectrometry-Based Phosphoproteomics and Systems Biology: Approaches to Study T Lymphocyte Activation and Exhaustion

Journal of Molecular Biology(2021)10.1016/j.jmb.2021.167318

N/A

0DataRank · unranked

8 citations

Andrew Emili, Matthew Lawton

Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2

Molecular Cell(2020)10.1016/j.molcel.2020.11.028

N/A

0DataRank · unranked

131 citations

Adam J. Hume, Raghuveera Kumar Goel, Kristine M. Abo, Jessie Huang, Benjamin C. Blum +45 more

ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii reveals novel virulence factors implicated in host cell invasion

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.09.14.460186

N/A

0DataRank · unranked

5 citations

Grant C. Stevens, Aline Sardinha-Silva, Lucas ZhongMing Hu, Verena Brand, Daniel D. Fusca +6 more

The protein organization of a red blood cell

bioRxiv (Cold Spring Harbor Laboratory)(2021)10.1101/2021.12.10.472004

N/A

0DataRank · unranked

3 citations

Caitlyn L McCafferty, Eric J. Verbeke, Pierre C. Havugimana, Ophelia Papoulas, Claire D. McWhite +8 more