Zhang YZ - Search Results

1

HEAL: an automated deep learning framework for cancer histopathology image analysis.

Wang Y, Coudray N, Zhao Y, Li F, Hu C, Zhang YZ, Imoto S, Tsirigos A, Webb GI, Daly RJ, Song J. Wang Y, et al. Among authors: zhang yz. Bioinformatics. 2021 Nov 18;37(22):4291-4295. doi: 10.1093/bioinformatics/btab380. Bioinformatics. 2021. PMID: 34009289

2

Sequence-specific bias correction for RNA-seq data using recurrent neural networks.

Zhang YZ, Yamaguchi R, Imoto S, Miyano S. Zhang YZ, et al. BMC Genomics. 2017 Jan 25;18(Suppl 1):1044. doi: 10.1186/s12864-016-3262-5. BMC Genomics. 2017. PMID: 28198674 Free PMC article.

3

Identification of a p53-repressed gene module in breast cancer cells.

Miyamoto T, Tanikawa C, Yodsurang V, Zhang YZ, Imoto S, Yamaguchi R, Miyano S, Nakagawa H, Matsuda K. Miyamoto T, et al. Among authors: zhang yz. Oncotarget. 2017 Jul 26;8(34):55821-55836. doi: 10.18632/oncotarget.19608. eCollection 2017 Aug 22. Oncotarget. 2017. PMID: 28915555 Free PMC article.

4

Nanopore basecalling from a perspective of instance segmentation.

Zhang YZ, Akdemir A, Tremmel G, Imoto S, Miyano S, Shibuya T, Yamaguchi R. Zhang YZ, et al. BMC Bioinformatics. 2020 Apr 23;21(Suppl 3):136. doi: 10.1186/s12859-020-3459-0. BMC Bioinformatics. 2020. PMID: 32321433 Free PMC article.

5

Enhancing breakpoint resolution with deep segmentation model: A general refinement method for read-depth based structural variant callers.

Zhang YZ, Imoto S, Miyano S, Yamaguchi R. Zhang YZ, et al. PLoS Comput Biol. 2021 Oct 11;17(10):e1009186. doi: 10.1371/journal.pcbi.1009186. eCollection 2021 Oct. PLoS Comput Biol. 2021. PMID: 34634042 Free PMC article.

6

Identification of bacteriophage genome sequences with representation learning.

Bai Z, Zhang YZ, Miyano S, Yamaguchi R, Fujimoto K, Uematsu S, Imoto S. Bai Z, et al. Among authors: zhang yz. Bioinformatics. 2022 Sep 15;38(18):4264-4270. doi: 10.1093/bioinformatics/btac509. Bioinformatics. 2022. PMID: 35920769 Free PMC article.

7

Zero-shot-capable identification of phage-host relationships with whole-genome sequence representation by contrastive learning.

Zhang YZ, Liu Y, Bai Z, Fujimoto K, Uematsu S, Imoto S. Zhang YZ, et al. Brief Bioinform. 2023 Sep 20;24(5):bbad239. doi: 10.1093/bib/bbad239. Brief Bioinform. 2023. PMID: 37466138 Free PMC article.

8

Microbial Gene Ontology informed deep neural network for microbe functionality discovery in human diseases.

Liu Y, Zhang YZ, Imoto S. Liu Y, et al. Among authors: zhang yz. PLoS One. 2023 Aug 21;18(8):e0290307. doi: 10.1371/journal.pone.0290307. eCollection 2023. PLoS One. 2023. PMID: 37603579 Free PMC article.

9

Investigation of the BERT model on nucleotide sequences with non-standard pre-training and evaluation of different k-mer embeddings.

Zhang YZ, Bai Z, Imoto S. Zhang YZ, et al. Bioinformatics. 2023 Oct 3;39(10):btad617. doi: 10.1093/bioinformatics/btad617. Bioinformatics. 2023. PMID: 37815839 Free PMC article.

10

Correction: Microbial Gene Ontology informed deep neural network for microbe functionality discovery in human diseases.

Liu Y, Zhang YZ, Imoto S. Liu Y, et al. Among authors: zhang yz. PLoS One. 2023 Dec 19;18(12):e0296316. doi: 10.1371/journal.pone.0296316. eCollection 2023. PLoS One. 2023. PMID: 38113244 Free PMC article.

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