Ma J - Search Results

1

Large-scale foundation model on single-cell transcriptomics.

Hao M, Gong J, Zeng X, Liu C, Guo Y, Cheng X, Wang T, Ma J, Zhang X, Song L. Hao M, et al. Among authors: ma j. Nat Methods. 2024 Aug;21(8):1481-1491. doi: 10.1038/s41592-024-02305-7. Epub 2024 Jun 6. Nat Methods. 2024. PMID: 38844628

2

A multi-scale map of cell structure fusing protein images and interactions.

Qin Y, Huttlin EL, Winsnes CF, Gosztyla ML, Wacheul L, Kelly MR, Blue SM, Zheng F, Chen M, Schaffer LV, Licon K, Bäckström A, Vaites LP, Lee JJ, Ouyang W, Liu SN, Zhang T, Silva E, Park J, Pitea A, Kreisberg JF, Gygi SP, Ma J, Harper JW, Yeo GW, Lafontaine DLJ, Lundberg E, Ideker T. Qin Y, et al. Among authors: ma j. Nature. 2021 Dec;600(7889):536-542. doi: 10.1038/s41586-021-04115-9. Epub 2021 Nov 24. Nature. 2021. PMID: 34819669 Free PMC article.

3

Modeling gene regulatory networks using neural network architectures.

Shu H, Zhou J, Lian Q, Li H, Zhao D, Zeng J, Ma J. Shu H, et al. Among authors: ma j. Nat Comput Sci. 2021 Jul;1(7):491-501. doi: 10.1038/s43588-021-00099-8. Epub 2021 Jul 22. Nat Comput Sci. 2021. PMID: 38217125

4

A data-driven group retrosynthesis planning model inspired by neurosymbolic programming.

Zhang X, Lin H, Zhang M, Zhou Y, Ma J. Zhang X, et al. Among authors: ma j. Nat Commun. 2025 Jan 2;16(1):192. doi: 10.1038/s41467-024-55374-9. Nat Commun. 2025. PMID: 39747027 Free PMC article.

5

Using deep learning to model the hierarchical structure and function of a cell.

Ma J, Yu MK, Fong S, Ono K, Sage E, Demchak B, Sharan R, Ideker T. Ma J, et al. Nat Methods. 2018 Apr;15(4):290-298. doi: 10.1038/nmeth.4627. Epub 2018 Mar 5. Nat Methods. 2018. PMID: 29505029 Free PMC article.

6

Few-shot learning creates predictive models of drug response that translate from high-throughput screens to individual patients.

Ma J, Fong SH, Luo Y, Bakkenist CJ, Shen JP, Mourragui S, Wessels LFA, Hafner M, Sharan R, Peng J, Ideker T. Ma J, et al. Nat Cancer. 2021 Feb;2(2):233-244. doi: 10.1038/s43018-020-00169-2. Epub 2021 Jan 25. Nat Cancer. 2021. PMID: 34223192 Free PMC article.

7

Predicting MHC-peptide binding affinity by differential boundary tree.

Feng P, Zeng J, Ma J. Feng P, et al. Among authors: ma j. Bioinformatics. 2021 Jul 12;37(Suppl_1):i254-i261. doi: 10.1093/bioinformatics/btab312. Bioinformatics. 2021. PMID: 34252932 Free PMC article.

8

Physics-informed recurrent neural network for time dynamics in optical resonances.

Tang Y, Fan J, Li X, Ma J, Qi M, Yu C, Gao W. Tang Y, et al. Among authors: ma j. Nat Comput Sci. 2022 Mar;2(3):169-178. doi: 10.1038/s43588-022-00215-2. Epub 2022 Mar 28. Nat Comput Sci. 2022. PMID: 38177446

9

Boosting single-cell gene regulatory network reconstruction via bulk-cell transcriptomic data.

Shu H, Ding F, Zhou J, Xue Y, Zhao D, Zeng J, Ma J. Shu H, et al. Among authors: ma j. Brief Bioinform. 2022 Sep 20;23(5):bbac389. doi: 10.1093/bib/bbac389. Brief Bioinform. 2022. PMID: 36070863

10

Single-Cell Transcriptomics Reveals the Heterogeneity of the Immune Landscape of IDH-Wild-Type High-Grade Gliomas.

Ran X, Zheng J, Chen L, Xia Z, Wang Y, Sun C, Guo C, Lin P, Liu F, Wang C, Zhou J, Sun C, Liu Q, Ma J, Qin Z, Zhu X, Xie Q. Ran X, et al. Among authors: ma j. Cancer Immunol Res. 2024 Feb 2;12(2):232-246. doi: 10.1158/2326-6066.CIR-23-0211. Cancer Immunol Res. 2024. PMID: 38091354 Free PMC article.

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