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ORCIDZichen Wang 0002
Person information
- affiliation: Amazon AWS AI, New York, NY, USA
Other persons with the same name
- Zichen Wang — disambiguation page
- Zichen Wang 0001
![[0000-0001-8940-6792]](https://dblp1.uni-trier.de/img/orcid-mark.12x12.png "0000-0001-8940-6792")
— Tiangong University, Tianjin, China
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2020 – today
- 2025
[j17]Yingheng Wang, Zichen Wang, Gil Sadeh, Luca Zancato, Alessandro Achille, George Karypis, Huzefa Rangwala:
LC-PLM: Long-context Protein Language Modeling Using Bidirectional Mamba with Shared Projection Layers. Trans. Mach. Learn. Res. 2025 (2025)- [c9]Zihan Pengmei, Zhengyuan Shen, Zichen Wang, Marcus D. Collins, Huzefa Rangwala:
Pushing the Limits of All-Atom Geometric Graph Neural Networks: Pre-Training, Scaling, and Zero-Shot Transfer. ICLR 2025 - [c8]Xinyu Yuan, Zichen Wang, Marcus D. Collins, Huzefa Rangwala:
Protein Structure Tokenization: Benchmarking and New Recipe. ICML 2025 - [i8]Xinyu Yuan, Zichen Wang, Marcus D. Collins, Huzefa Rangwala:
Protein Structure Tokenization: Benchmarking and New Recipe. CoRR abs/2503.00089 (2025) - 2024
- [c7]Yuze Lou, Chuan Lei, Xiao Qin, Zichen Wang, Christos Faloutsos, Rishita Anubhai, Huzefa Rangwala:
DATALORE: Can a Large Language Model Find All Lost Scrolls in a Data Repository? ICDE 2024: 5170-5176 - [c6]Zifeng Wang, Zichen Wang, Balasubramaniam Srinivasan, Vassilis N. Ioannidis, Huzefa Rangwala, Rishita Anubhai:
BioBridge: Bridging Biomedical Foundation Models via Knowledge Graphs. ICLR 2024 - [c5]Da Zheng, Xiang Song, Qi Zhu, Jian Zhang, Theodore Vasiloudis, Runjie Ma, Houyu Zhang, Zichen Wang, Soji Adeshina, Israt Nisa, Alejandro Mottini, Qingjun Cui, Huzefa Rangwala, Belinda Zeng, Christos Faloutsos, George Karypis:
GraphStorm: All-in-one Graph Machine Learning Framework for Industry Applications. KDD 2024: 6356-6367 - [i7]Da Zheng, Xiang Song, Qi Zhu, Jiani Zhang, Theodore Vasiloudis, Runjie Ma, Houyu Zhang, Zichen Wang, Soji Adeshina, Israt Nisa, Alejandro Mottini, Qingjun Cui, Huzefa Rangwala, Belinda Zeng, Christos Faloutsos, George Karypis:
GraphStorm: all-in-one graph machine learning framework for industry applications. CoRR abs/2406.06022 (2024) - [i6]Zihan Pengmei, Zhengyuan Shen, Zichen Wang, Marcus D. Collins, Huzefa Rangwala:
Pushing the Limits of All-Atom Geometric Graph Neural Networks: Pre-Training, Scaling and Zero-Shot Transfer. CoRR abs/2410.21683 (2024) - [i5]Yingheng Wang, Zichen Wang, Gil Sadeh, Luca Zancato, Alessandro Achille, George Karypis, Huzefa Rangwala:
Long-context Protein Language Model. CoRR abs/2411.08909 (2024) - 2023
- [c4]Yulun Wu, Robert A. Barton, Zichen Wang, Vassilis N. Ioannidis, Carlo De Donno, Layne C. Price, Luis F. Voloch, George Karypis:
Predicting Cellular Responses with Variational Causal Inference and Refined Relational Information. ICLR 2023 - 2022
- [j16]Amanda B. Zheutlin, Luciana Vieira, Ryan A. Shewcraft, Shilong Li, Zichen Wang, Emilio Schadt, Susan Gross, Siobhan M. Dolan, Joanne Stone, Eric E. Schadt, Li Li:
Improving postpartum hemorrhage risk prediction using longitudinal electronic medical records. J. Am. Medical Informatics Assoc. 29(2): 296-305 (2022) - [j15]Amanda B. Zheutlin, Luciana Vieira, Ryan A. Shewcraft, Shilong Li, Zichen Wang, Emilio Schadt, Yu-Han Kao, Susan Gross, Siobhan M. Dolan, Joanne Stone, Eric E. Schadt, Li Li:
A comprehensive digital phenotype for postpartum hemorrhage. J. Am. Medical Informatics Assoc. 29(2): 321-328 (2022) - [j14]Shilong Li, Zichen Wang, Luciana Vieira, Amanda B. Zheutlin, Boshu Ru, Emilio Schadt, Pei Wang, Alan B. Copperman, Joanne Stone, Susan Gross, Yu-Han Kao, Yan Kwan Lau, Siobhan M. Dolan, Eric E. Schadt, Li Li:
Improving preeclampsia risk prediction by modeling pregnancy trajectories from routinely collected electronic medical record data. npj Digit. Medicine 5 (2022) - [c3]Zichen Wang, Vassilis N. Ioannidis, Huzefa Rangwala, Tatsuya Arai, Ryan Brand, Mufei Li, Yohei Nakayama:
Graph Neural Networks in Life Sciences: Opportunities and Solutions. KDD 2022: 4834-4835 - [i4]Yulun Wu, Layne C. Price, Zichen Wang, Vassilis N. Ioannidis, George Karypis:
Variational Causal Inference. CoRR abs/2209.05935 (2022) - [i3]Yulun Wu, Robert A. Barton, Zichen Wang, Vassilis N. Ioannidis, Carlo De Donno, Layne C. Price, Luis F. Voloch, George Karypis:
Predicting Cellular Responses with Variational Causal Inference and Refined Relational Information. CoRR abs/2210.00116 (2022) - [i2]Gil Sadeh, Zichen Wang, Jasleen Grewal, Huzefa Rangwala, Layne Price:
Training self-supervised peptide sequence models on artificially chopped proteins. CoRR abs/2211.06428 (2022)
2010 – 2019
- 2019
- [j13]Randall J. Ellis, Zichen Wang, Nicholas Genes, Avi Ma'ayan:
Predicting opioid dependence from electronic health records with machine learning. BioData Min. 12(1): 3:1-3:19 (2019) - [j12]Zichen Wang, Edward He, Kevin Sani, Kathleen M. Jagodnik, Moshe C. Silverstein, Avi Ma'ayan:
Drug Gene Budger (DGB): an application for ranking drugs to modulate a specific gene based on transcriptomic signatures. Bioinform. 35(7): 1247-1248 (2019) - [j11]Alexandra B. Keenan, Denis Torre, Alexander Lachmann, Ariel K. Leong, Megan L. Wojciechowicz, Vivian Utti, Kathleen M. Jagodnik, Eryk Kropiwnicki, Zichen Wang, Avi Ma'ayan:
ChEA3: transcription factor enrichment analysis by orthogonal omics integration. Nucleic Acids Res. 47(Webserver-Issue): W212-W224 (2019) - 2018
- [j10]Zichen Wang, Alexander Lachmann, Alexandra B. Keenan, Avi Ma'ayan:
L1000FWD: fireworks visualization of drug-induced transcriptomic signatures. Bioinform. 34(12): 2150-2152 (2018) - [j9]Daniel J. B. Clarke, Maxim V. Kuleshov, Brian M. Schilder, Denis Torre, Mary E. Duffy, Alexandra B. Keenan, Alexander Lachmann, Axel S. Feldmann, Gregory W. Gundersen, Moshe C. Silverstein, Zichen Wang, Avi Ma'ayan:
eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks. Nucleic Acids Res. 46(Webserver-Issue): W171-W179 (2018) - [c2]Rachel Hodos, Ping Zhang, Hao-Chih Lee, Qiaonan Duan, Zichen Wang, Neil R. Clark, Avi Ma'ayan, Fei Wang, Brian A. Kidd, Jianying Hu, David A. Sontag, Joel Dudley:
Cell-specific prediction and application of drug-induced gene expression . PSB 2018: 32-43 - 2017
- [j8]Zichen Wang, Li Li, Benjamin S. Glicksberg, Ariel Israel, Joel T. Dudley, Avi Ma'ayan:
Predicting age by mining electronic medical records with deep learning characterizes differences between chronological and physiological age. J. Biomed. Informatics 76: 59-68 (2017) - 2016
- [j7]Andrew D. Rouillard, Gregory W. Gundersen, Nicolas F. Fernandez, Zichen Wang, Caroline D. Monteiro, Michael G. McDermott, Avi Ma'ayan:
The harmonizome: a collection of processed datasets gathered to serve and mine knowledge about genes and proteins. Database J. Biol. Databases Curation 2016 (2016) - [j6]Zichen Wang, Neil R. Clark, Avi Ma'ayan:
Drug-induced adverse events prediction with the LINCS L1000 data. Bioinform. 32(15): 2338-2345 (2016) - [j5]Maxim V. Kuleshov, Matthew R. Jones, Andrew D. Rouillard, Nicolas F. Fernandez, Qiaonan Duan, Zichen Wang, Simon Koplev, Sherry L. Jenkins, Kathleen M. Jagodnik, Alexander Lachmann, Michael G. McDermott, Caroline D. Monteiro, Gregory W. Gundersen, Avi Ma'ayan:
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update. Nucleic Acids Res. 44(Webserver-Issue): W90-W97 (2016) - [i1]Zichen Wang, Avi Ma'ayan:
An open RNA-Seq data analysis pipeline tutorial with an example of reprocessing data from a recent Zika virus study. F1000Research 5: 1574 (2016) - 2015
- [j4]Zichen Wang, Neil R. Clark, Avi Ma'ayan:
Dynamics of the discovery process of protein-protein interactions from low content studies. BMC Syst. Biol. 9: 26 (2015) - [j3]Andrew D. Rouillard, Zichen Wang, Avi Ma'ayan:
Reprint of "Abstraction for data integration: Fusing mammalian molecular, cellular and phenotype big datasets for better knowledge extraction". Comput. Biol. Chem. 59: 123-138 (2015) - [c1]Neil R. Clark, Maciej Szymkiewicz, Zichen Wang, Caroline D. Monteiro, Matthew R. Jones, Avi Ma'ayan:
Principle Angle Enrichment Analysis (PAEA): Dimensionally reduced multivariate gene set enrichment analysis tool. BIBM 2015: 256-262 - 2014
- [j2]Qiaonan Duan, Zichen Wang, Nicolas F. Fernandez, Andrew D. Rouillard, Christopher M. Tan, Cyril H. Benes, Avi Ma'ayan:
Drug/Cell-line Browser: interactive canvas visualization of cancer drug/cell-line viability assay datasets. Bioinform. 30(22): 3289-3290 (2014) - 2013
- [j1]Edward Y. Chen, Christopher M. Tan, Yan Kou, Qiaonan Duan, Zichen Wang, Gabriela Vaz Meirelles, Neil R. Clark, Avi Ma'ayan:
Enrichr: interactive and collaborative HTML5 gene list enrichment analysis tool. BMC Bioinform. 14: 128 (2013)
Coauthor Index
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