Chen Y - Search Results

1

mosGraphGen: a novel tool to generate multi-omics signaling graphs to facilitate integrative and interpretable graph AI model development.

Zhang H, Cao D, Chen Z, Zhang X, Chen Y, Sessions C, Cruchaga C, Payne P, Li G, Province M, Li F. Zhang H, et al. Among authors: chen z, chen y. Bioinform Adv. 2024 Oct 8;4(1):vbae151. doi: 10.1093/bioadv/vbae151. eCollection 2024. Bioinform Adv. 2024. PMID: 39506989 Free PMC article.

2

Predicting Anticancer Drug Response With Deep Learning Constrained by Signaling Pathways.

Zhang H, Chen Y, Li F. Zhang H, et al. Among authors: chen y. Front Bioinform. 2021 Apr 29;1:639349. doi: 10.3389/fbinf.2021.639349. eCollection 2021. Front Bioinform. 2021. PMID: 36303766 Free PMC article.

3

Interpreting the Mechanism of Synergism for Drug Combinations Using Attention-Based Hierarchical Graph Pooling.

Dong Z, Zhang H, Chen Y, Payne PRO, Li F. Dong Z, et al. Among authors: chen y. Cancers (Basel). 2023 Aug 22;15(17):4210. doi: 10.3390/cancers15174210. Cancers (Basel). 2023. PMID: 37686486 Free PMC article.

4

Highly accurate disease diagnosis and highly reproducible biomarker identification with PathFormer.

Dong Z, Zhao Q, Payne PRO, Province MA, Cruchaga C, Zhang M, Zhao T, Chen Y, Li F. Dong Z, et al. Among authors: chen y. Res Sq [Preprint]. 2023 Nov 16:rs.3.rs-3576068. doi: 10.21203/rs.3.rs-3576068/v1. Res Sq. 2023. PMID: 38014034 Free PMC article. Preprint.

5

PathFinder: a novel graph transformer model to infer multi-cell intra- and inter-cellular signaling pathways and communications.

Feng J, Song H, Province M, Li G, Payne PRO, Chen Y, Li F. Feng J, et al. Among authors: chen y. Front Cell Neurosci. 2024 May 23;18:1369242. doi: 10.3389/fncel.2024.1369242. eCollection 2024. Front Cell Neurosci. 2024. PMID: 38846640 Free PMC article.

6

Using DeepSignalingFlow to mine signaling flows interpreting mechanism of synergy of cocktails.

Zhang H, Chen Y, Payne P, Li F. Zhang H, et al. Among authors: chen y. NPJ Syst Biol Appl. 2024 Aug 21;10(1):92. doi: 10.1038/s41540-024-00421-w. NPJ Syst Biol Appl. 2024. PMID: 39169016 Free PMC article.

7

BoostGAPFILL: improving the fidelity of metabolic network reconstructions through integrated constraint and pattern-based methods.

Oyetunde T, Zhang M, Chen Y, Tang Y, Lo C. Oyetunde T, et al. Among authors: chen y. Bioinformatics. 2017 Feb 15;33(4):608-611. doi: 10.1093/bioinformatics/btw684. Bioinformatics. 2017. PMID: 27797784

8

WUFlux: an open-source platform for ¹³C metabolic flux analysis of bacterial metabolism.

He L, Wu SG, Zhang M, Chen Y, Tang YJ. He L, et al. Among authors: chen y. BMC Bioinformatics. 2016 Nov 4;17(1):444. doi: 10.1186/s12859-016-1314-0. BMC Bioinformatics. 2016. PMID: 27814681 Free PMC article.

9

Large-language-model empowered 3D dose prediction for intensity-modulated radiotherapy.

Dong Z, Chen Y, Gay H, Hao Y, Hugo GD, Samson P, Zhao T. Dong Z, et al. Among authors: chen y. Med Phys. 2024 Sep 24. doi: 10.1002/mp.17416. Online ahead of print. Med Phys. 2024. PMID: 39316523

10

Mortality Prediction in ICUs Using A Novel Time-Slicing Cox Regression Method.

Wang Y, Chen W, Heard K, Kollef MH, Bailey TC, Cui Z, He Y, Lu C, Chen Y. Wang Y, et al. Among authors: chen w, chen y. AMIA Annu Symp Proc. 2015 Nov 5;2015:1289-95. eCollection 2015. AMIA Annu Symp Proc. 2015. PMID: 26958269 Free PMC article.

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