Zhang XF - Search Results

1

Dual decoding of cell types and gene expression in spatial transcriptomics with PANDA.

Wang MG, Chen L, Zhang XF. Wang MG, et al. Among authors: zhang xf. Nucleic Acids Res. 2024 Nov 11;52(20):12173-12190. doi: 10.1093/nar/gkae876. Nucleic Acids Res. 2024. PMID: 39404057 Free PMC article.

2

Inferring Gene Co-Expression Networks by Incorporating Prior Protein-Protein Interaction Networks.

Wang MG, Ou-Yang L, Yan H, Zhang XF. Wang MG, et al. Among authors: zhang xf. IEEE/ACM Trans Comput Biol Bioinform. 2022 Sep-Oct;19(5):2894-2906. doi: 10.1109/TCBB.2021.3103407. Epub 2022 Oct 10. IEEE/ACM Trans Comput Biol Bioinform. 2022. PMID: 34383650

3

Cell-type annotation with accurate unseen cell-type identification using multiple references.

Xiong YX, Wang MG, Chen L, Zhang XF. Xiong YX, et al. Among authors: zhang xf. PLoS Comput Biol. 2023 Jun 28;19(6):e1011261. doi: 10.1371/journal.pcbi.1011261. eCollection 2023 Jun. PLoS Comput Biol. 2023. PMID: 37379341 Free PMC article.

4

ENGEP: advancing spatial transcriptomics with accurate unmeasured gene expression prediction.

Yang ST, Zhang XF. Yang ST, et al. Among authors: zhang xf. Genome Biol. 2023 Dec 21;24(1):293. doi: 10.1186/s13059-023-03139-w. Genome Biol. 2023. PMID: 38129866 Free PMC article.

5

Enhancing spatial domain detection in spatial transcriptomics with EnSDD.

Li HS, Tan YT, Zhang XF. Li HS, et al. Among authors: zhang xf. Commun Biol. 2024 Oct 21;7(1):1358. doi: 10.1038/s42003-024-07001-y. Commun Biol. 2024. PMID: 39433947 Free PMC article.

6

scTSSR: gene expression recovery for single-cell RNA sequencing using two-side sparse self-representation.

Jin K, Ou-Yang L, Zhao XM, Yan H, Zhang XF. Jin K, et al. Among authors: zhang xf. Bioinformatics. 2020 May 1;36(10):3131-3138. doi: 10.1093/bioinformatics/btaa108. Bioinformatics. 2020. PMID: 32073600

7

EnDecon: cell type deconvolution of spatially resolved transcriptomics data via ensemble learning.

Tu JJ, Li HS, Yan H, Zhang XF. Tu JJ, et al. Among authors: zhang xf. Bioinformatics. 2023 Jan 1;39(1):btac825. doi: 10.1093/bioinformatics/btac825. Bioinformatics. 2023. PMID: 36610709 Free PMC article.

8

scDOT: enhancing single-cell RNA-Seq data annotation and uncovering novel cell types through multi-reference integration.

Xiong YX, Zhang XF. Xiong YX, et al. Among authors: zhang xf. Brief Bioinform. 2024 Jan 22;25(2):bbae072. doi: 10.1093/bib/bbae072. Brief Bioinform. 2024. PMID: 38436563 Free PMC article.

9

Joint reconstruction of multiple gene networks by simultaneously capturing inter-tumor and intra-tumor heterogeneity.

Tu JJ, Ou-Yang L, Yan H, Zhang XF, Qin H. Tu JJ, et al. Among authors: zhang xf. Bioinformatics. 2020 May 1;36(9):2755-2762. doi: 10.1093/bioinformatics/btaa014. Bioinformatics. 2020. PMID: 31971577

10

WDNE: an integrative graphical model for inferring differential networks from multi-platform gene expression data with missing values.

Ou-Yang L, Cai D, Zhang XF, Yan H. Ou-Yang L, et al. Among authors: zhang xf. Brief Bioinform. 2021 Nov 5;22(6):bbab086. doi: 10.1093/bib/bbab086. Brief Bioinform. 2021. PMID: 33975339

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