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Zhenqin Wu · SciRah

Researcher profile · Semantic Scholar

Zhenqin Wu

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Zhenqin Wu — researcher profile on SciRah

h-index: 14
Works: 45
Citations: 4,660

Most-cited papers

MoleculeNet: a benchmark for molecular machine learning
Zhenqin Wu, B. Ramsundar, Evan N. Feinberg, Joseph Gomes +4 more
2017Chemical Science2,866 citations Open access
Semantic Scholar
enchmark for molecular machine learning †
Zhenqin Wu, B. Ramsundar, Evan N. Feinberg, Joseph Gomes +4 more
2017488 citations
Semantic Scholar
PotentialNet for Molecular Property Prediction
Evan N. Feinberg, Debnil Sur, Zhenqin Wu, B. Husic +6 more
2018ACS Central Science444 citations Open access
Semantic Scholar
Is Multitask Deep Learning Practical for Pharma?
B. Ramsundar, Bowen Liu, Zhenqin Wu, A. Verras +3 more
2017Journal of Chemical Information and Modeling244 citations Open access
Semantic Scholar
Graph deep learning for the characterization of tumour microenvironments from spatial protein profiles in tissue specimens
Zhenqin Wu, Alexandro E. Trevino, E. Wu, Kyle Swanson +10 more
2022Nature Biomedical Engineering150 citations Open access
Semantic Scholar
Large dataset enables prediction of repair after CRISPR-Cas9 editing in primary T cells.
Ryan T. Leenay, Amirali Aghazadeh, J. Hiatt, David Tse +12 more
2019Nature Biotechnology124 citations Open access
Semantic Scholar
Mapping single-cell developmental potential in health and disease with interpretable deep learning
M. Kang, J. J. A. Armenteros, G. Gulati, Rachel Gleyzer +11 more
2024bioRxiv99 citations Open access
Semantic Scholar
DynaMorph: self-supervised learning of morphodynamic states of live cells
Zhenqin Wu, Bryant B. Chhun, Galina Popova, Syuan-Ming Guo +5 more
2022Molecular Biology of the Cell37 citations Open access
Semantic Scholar
ROSIE: AI generation of multiplex immunofluorescence staining from histopathology images
Eric Wu, Matthew Bieniosek, Zhenqin Wu, Nitya Thakkar +13 more
2024bioRxiv35 citations Open access
Semantic Scholar
7-UP: Generating in silico CODEX from a small set of immunofluorescence markers
E. Wu, Alexandro E. Trevino, Zhenqin Wu, Kyle Swanson +16 more
2022bioRxiv26 citations Open access
Semantic Scholar
ROSIE: AI generation of multiplex immunofluorescence staining from histopathology images
Eric Wu, Matthew Bieniosek, Zhenqin Wu, Nitya Thakkar +13 more
2025Nature Communications22 citations Open access
Semantic Scholar
PB-Net: Automatic peak integration by sequential deep learning for multiple reaction monitoring.
Zhenqin Wu, D. Serie, Gege Xu, James Y. Zou
2020Journal of Proteomics22 citations
Semantic Scholar
SPACE-GM: geometric deep learning of disease-associated microenvironments from multiplex spatial protein profiles
Zhenqin Wu, Alexandro E. Trevino, E. Wu, Kyle Swanson +10 more
2022bioRxiv16 citations Open access
Semantic Scholar
Discovery and generalization of tissue structures from spatial omics data
Zhenqin Wu, Ayano Kondo, Monee Y. McGrady, E. Baker +11 more
2024Cell Reports Methods15 citations Open access
Semantic Scholar
Spatial proteomics of human diabetic kidney disease, from health to class III
Ayano Kondo, Monee Y. McGrady, Dhiraj Nallapothula, Hira Ali +15 more
2023bioRxiv14 citations Open access
Semantic Scholar
Spatial proteomics of human diabetic kidney disease, from health to class III
Ayano Kondo, Monee Y. McGrady, Dhiraj Nallapothula, Hira Ali +15 more
2024Diabetologia12 citations Open access
Semantic Scholar
OmicsNavigator: an LLM-driven multi-agent system for autonomous zero-shot biological analysis in spatial omics
Yi-Yao Li, Nirvi Vakharia, Weixin Liang, Aaron T. Mayer +2 more
11 citations
Semantic Scholar
DynaMorph: learning morphodynamic states of human cells with live imaging and sc-RNAseq
Zhenqin Wu, Bryant B. Chhun, G. Schmunk, Chang N. Kim +4 more
2020bioRxiv10 citations Open access
Semantic Scholar
Spatial multi-omics and deep learning reveal fingerprints of immunotherapy response and resistance in hepatocellular carcinoma
Zhenqin Wu, Joseph Boen, Sonali Jindal, S. Basu +8 more
2025bioRxiv9 citations Open access
Semantic Scholar
Modeling patient tissues at molecular resolution with Eva
Yufan Liu, Rishabh Sharma, Matthew Bieniosek, Amy Kang +17 more
2026bioRxiv7 citations Open access
Semantic Scholar
Learning single-cell spatial context through integrated spatial multiomics with CORAL
Siyu He, Matthew Bieniosek, Dong-Yuan Song, Jing-Tian Zhou +6 more
2025bioRxiv7 citations Open access
Semantic Scholar
Predicting target genes of non-coding regulatory variants with IRT
Zhenqin Wu, N. Ioannidis, James Y. Zou, R. Schwartz
2020Bioinform.7 citations Open access
Semantic Scholar
Systematic characterization of genome editing in primary T cells reveals proximal genomic insertions and enables machine learning prediction of CRISPR-Cas9 DNA repair outcomes
Ryan T. Leenay, Amirali Aghazadeh, J. Hiatt, David Tse +6 more
2018bioRxiv6 citations Open access
Semantic Scholar
Deep learning for biomedical videos: perspective and recommendations
David Ouyang, Zhenqin Wu, B. He, James Y. Zou
2021Artificial Intelligence in Medicine5 citations
Semantic Scholar
Gungnir codec enabling high error-tolerance and low-redundancy DNA storage through substantial computing power
Jing-Cheng Zhang, Lei Chen, Jinlin Sun, Shumin Li +5 more
2026Nature Communications3 citations Open access
Semantic Scholar
Mechanical properties and ceramification process of composite-filled flame-retardant silicone rubber
Yuliang Han, Jiajia Deng, Xinyuan Ji, Zhenqin Wu +1 more
2026Ceramics International3 citations
Semantic Scholar
Identifying spatial cellular structures with SPACE-GM
Zhenqin Wu
2023Nature Reviews. Cancer3 citations
Semantic Scholar
Learning spatial cellular motifs predictive of the responses of patients to cancer treatments
Zhenqin Wu, James Zou
2022Nature Biomedical Engineering2 citations
Semantic Scholar
478 Spatial omics and deep learning define an immunotherapy resistance niche in hepatocellular carcinoma
Alexandro E. Trevino, Zhenqin Wu, Joseph Boen, Sonali Jindal +8 more
2025Regular and Young Investigator Award Abstracts1 citations Open access
Semantic Scholar
PEPSI: Polarity measurements from spatial proteomics imaging suggest immune cell engagement
Eric Wu, Zhenqin Wu, Aaron T. Mayer, Alexandro E. Trevino +1 more
2023bioRxiv1 citations Open access
Semantic Scholar
Linking spatial biology and clinical histology via Haiku
Yan Cui, Jacob S. Leiby, Wenhui Lei, Do Kyoon Kim +5 more
2026arXiv.org0 citations
Semantic Scholar
CP-Agent: Context-Aware Multimodal Reasoning for Cellular Morphological Profiling under Chemical Perturbations
Yu-Xing Zhang, Yi-Yao Li, P. Ho, Simon See +2 more
2026arXiv.org0 citations
Semantic Scholar
HOPE: Interpretable Histology Analysis with Spatial Omics-Derived Signatures for Precision Oncology
Tian-Yi Wang, Matthew Bieniosek, T. J. Krpicak, Ming-Yuan Luan +6 more
2026bioRxiv0 citations Open access
Semantic Scholar
OmicsNavigator: An auditable scientific partner for scalable hypothesis validation in spatial omics
Yi-Yao Li, Nirvi Vakharia, Weixin Liang, Aaron T. Mayer +3 more
2026bioRxiv0 citations Open access
Semantic Scholar
Guess till correct: Gungnir codec enabling high error-tolerance and low-redundancy DNA storage through substantial computing power
Jing-Cheng Zhang, Lei Chen, Jinlin Sun, Shumin Li +5 more
2025bioRxiv0 citations Open access
Semantic Scholar
1373 Search and retrieval of detailed disease-associated cell microenvironments via conventional histopathology
Matthew Bieniosek, Zhenqin Wu, Aaron T. Mayer, Alexandro E. Trevino
2024Regular and Young Investigator Award Abstracts0 citations Open access
Semantic Scholar
A Study on the Definition and Antitrust Regulation of Intellectual Property Abuse in the Age of Digital Economy: A Structuralist Perspective
Zhenqin Wu, Qijun Wang, Ziyan Lin
2024Academic Journal of Humanities & Social Sciences0 citations Open access
Semantic Scholar
1415 Multimodal spatial signatures of immunotherapy response in hepatocellular carcinoma
Alexandro E. Trevino, Zhenqin Wu, Joseph Boen, Sonali Jindal +5 more
2024Regular and Young Investigator Award Abstracts0 citations Open access
Semantic Scholar
A Multi-Granularity Approach to Similarity Search in Multiplexed Immunofluorescence Images
Jen-Chieh Yu, Zhenqin Wu, Aaron T. Mayer, Alexandro E. Trevino +1 more
2023bioRxiv0 citations Open access
Semantic Scholar
Abstract 4627: Immune profiling of immunotherapy and adjuvant chemotherapy pretreatment NSCLC tissues by CODEX
J. Monkman, A. Moradi, C. O'Leary, Zhenqin Wu +7 more
2023Cancer Research0 citations
Semantic Scholar
Abstract 5648: Single cell spatial phenotyping of bladder tumors with a novel mechanism of NKG2A and HLA-E mediated resistance to BCG immunotherapy
D. Klymyshyn, N. Jhaveri, Nadine Nelson, Michael Prater +8 more
2023Cancer Research0 citations
Semantic Scholar
1315 Identification and generalization of tissue structures with spatial cellular graph partitioning (SCGP)
Zhenqin Wu, James Zou, Aaron T. Mayer, Alexandro E. Trevino
2023Regular and Young Investigator Award Abstracts0 citations Open access
Semantic Scholar
Characterizing Tissue Structures from Spatial Omics with Spatial Cellular Graph Partition
Zhenqin Wu, Ayano Kondo, Monee Y. McGrady, E. Baker +10 more
2023bioRxiv0 citations Open access
Semantic Scholar
DynaMorph: self-supervised learning of morphodynamic states of live cells
Zhenqin Wu, Bryant B. Chhun, Galina Popova, Syuan-Ming Guo +6 more
20210 citations
Semantic Scholar
List of contributors
Jeffery B. Alvarez, J. Bibault, A. Burgun, Jinzheng Cai +86 more
2021Artificial Intelligence in Medicine0 citations
Semantic Scholar

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