Zhuorui Xie

According to our database, Zhuorui Xie authored at least 10 papers between 2021 and 2025.

Collaborative distances:

• Dijkstra number of five.
• Erdős number of three.

2025

Playbook workflow builder: Interactive construction of bioinformatics workflows.

Daniel J. B. Clarke, John Erol Evangelista, Zhuorui Xie, Giacomo B. Marino, Anna I. Byrd, Mano Ram Maurya, Sumana Srinivasan, Keyang Yu, Varduhi Petrosyan, Matthew E. Roth, Miroslav Milinkov, Charles Hadley King, Jeet Kiran Vora, Jonathon Keeney, Christopher Nemarich, William Khan, Alexander Lachmann, Nasheath Ahmed, Alexandra Agris, Juncheng Pan, Srinivasan Ramachandran, Eoin Fahy, Emmanuel Esquivel, Aleksandar Mihajlovic, Bosko Jevtic, Vuk Milinovic, Sean Kim, Patrick McNeely, Tianyi Wang, Eric Wenger, Miguel A. Brown, Alexander Sickler, Yuankun Zhu, Sherry L. Jenkins, Philip D. Blood, Deanne M. Taylor, Adam C. Resnick, Raja Mazumder, Aleksandar Milosavljevic, Shankar Subramaniam, Avi Ma'ayan

PLoS Comput. Biol., 2025

2023

GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery.

Giacomo B. Marino, Michael Ngai, Daniel J. B. Clarke, Reid H. Fleishman, Eden Z. Deng, Zhuorui Xie, Nasheath Ahmed, Avi Ma'ayan

Nucleic Acids Res., July, 2023

Enrichr-KG: bridging enrichment analysis across multiple libraries.

John Erol Evangelista, Zhuorui Xie, Giacomo B. Marino, Nhi Nguyen, Daniel J. B. Clarke, Avi Ma'ayan

Nucleic Acids Res., July, 2023

lncHUB2: aggregated and inferred knowledge about human and mouse lncRNAs.

Giacomo B. Marino, Megan L. Wojciechowicz, Daniel J. B. Clarke, Maxim V. Kuleshov, Zhuorui Xie, Minji Jeon, Alexander Lachmann, Avi Ma'ayan

Database J. Biol. Databases Curation, March, 2023

2022

SigCom LINCS: data and metadata search engine for a million gene expression signatures.

John Erol Evangelista, Daniel J. B. Clarke, Zhuorui Xie, Alexander Lachmann, Minji Jeon, Kerwin Chen, Kathleen M. Jagodnik, Sherry L. Jenkins, Maxim V. Kuleshov, Megan L. Wojciechowicz, Stephan C. Schürer, Mario Medvedovic, Avi Ma'ayan

Nucleic Acids Res., 2022

DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules.

Eryk Kropiwnicki, Alexander Lachmann, Daniel J. B. Clarke, Zhuorui Xie, Kathleen M. Jagodnik, Avi Ma'ayan

BMC Bioinform., 2022

Transforming L1000 profiles to RNA-seq-like profiles with deep learning.

Minji Jeon, Zhuorui Xie, John Erol Evangelista, Megan L. Wojciechowicz, Daniel J. B. Clarke, Avi Ma'ayan

BMC Bioinform., 2022

blitzGSEA: efficient computation of gene set enrichment analysis through gamma distribution approximation.

Alexander Lachmann, Zhuorui Xie, Avi Ma'ayan

Bioinform., 2022

2021

Appyters: Turning Jupyter Notebooks into data-driven web apps.

Daniel J. B. Clarke, Minji Jeon, Daniel J. Stein, Nicole Moiseyev, Eryk Kropiwnicki, Charles Dai, Zhuorui Xie, Megan L. Wojciechowicz, Skylar Litz, Jason Hom, John Erol Evangelista, Lucas Goldman, Serena Zhang, Christine Yoon, Tahmid Ahamed, Samantha Bhuiyan, Minxuan Cheng, Julie Karam, Kathleen M. Jagodnik, Ingrid Shu, Alexander Lachmann, Sam Ayling, Sherry L. Jenkins, Avi Ma'ayan

Patterns, 2021

KEA3: improved kinase enrichment analysis via data integration.

Maxim V. Kuleshov, Zhuorui Xie, Alexandra B. K. London, Janice Yang, John Erol Evangelista, Alexander Lachmann, Ingrid Shu, Denis Torre, Avi Ma'ayan

Nucleic Acids Res., 2021