Shi Y - Search Results

1

3D genome contributes to MHC-II neoantigen prediction.

Feng M, Liu L, Su K, Su X, Meng L, Guo Z, Cao D, Wang J, He G, Shi Y. Feng M, et al. Among authors: shi y. BMC Genomics. 2024 Sep 26;25(Suppl 2):889. doi: 10.1186/s12864-024-10687-3. BMC Genomics. 2024. PMID: 39327585 Free PMC article.

2

Chromatin accessibility contributes to simultaneous mutations of cancer genes.

Shi Y, Su XB, He KY, Wu BH, Zhang BY, Han ZG. Shi Y, et al. Sci Rep. 2016 Oct 20;6:35270. doi: 10.1038/srep35270. Sci Rep. 2016. PMID: 27762310 Free PMC article.

3

DeepGene: an advanced cancer type classifier based on deep learning and somatic point mutations.

Yuan Y, Shi Y, Li C, Kim J, Cai W, Han Z, Feng DD. Yuan Y, et al. Among authors: shi y. BMC Bioinformatics. 2016 Dec 23;17(Suppl 17):476. doi: 10.1186/s12859-016-1334-9. BMC Bioinformatics. 2016. PMID: 28155641 Free PMC article.

4

Single-cell RNA-Seq analysis reveals dynamic trajectories during mouse liver development.

Su X, Shi Y, Zou X, Lu ZN, Xie G, Yang JYH, Wu CC, Cui XF, He KY, Luo Q, Qu YL, Wang N, Wang L, Han ZG. Su X, et al. Among authors: shi y. BMC Genomics. 2017 Dec 4;18(1):946. doi: 10.1186/s12864-017-4342-x. BMC Genomics. 2017. PMID: 29202695 Free PMC article.

5

Cancer type prediction based on copy number aberration and chromatin 3D structure with convolutional neural networks.

Yuan Y, Shi Y, Su X, Zou X, Luo Q, Feng DD, Cai W, Han ZG. Yuan Y, et al. Among authors: shi y. BMC Genomics. 2018 Aug 13;19(Suppl 6):565. doi: 10.1186/s12864-018-4919-z. BMC Genomics. 2018. PMID: 30367576 Free PMC article.

6

Application of qPCR assays based on haloacids transporter gene dehp2 for discrimination of Burkholderia and Paraburkholderia.

Su X, Shi Y, Li R, Lu ZN, Zou X, Wu JX, Han ZG. Su X, et al. Among authors: shi y. BMC Microbiol. 2019 Feb 11;19(1):36. doi: 10.1186/s12866-019-1411-0. BMC Microbiol. 2019. PMID: 30744555 Free PMC article.

7

Mutational and transcriptomic landscapes of a rare human prostate basal cell carcinoma.

Su X, Long Q, Bo J, Shi Y, Zhao LN, Lin Y, Luo Q, Ghazanfar S, Zhang C, Liu Q, Wang L, He K, He J, Cui X, Yang JYH, Han ZG, Yang G, Sha JJ. Su X, et al. Among authors: shi y. Prostate. 2020 May;80(6):508-517. doi: 10.1002/pros.23965. Epub 2020 Mar 2. Prostate. 2020. PMID: 32119131

8

DeepAntigen: a novel method for neoantigen prioritization via 3D genome and deep sparse learning.

Shi Y, Guo Z, Su X, Meng L, Zhang M, Sun J, Wu C, Zheng M, Shang X, Zou X, Cheng W, Yu Y, Cai Y, Zhang C, Cai W, Da LT, He G, Han ZG. Shi Y, et al. Bioinformatics. 2020 Dec 8;36(19):4894-4901. doi: 10.1093/bioinformatics/btaa596. Bioinformatics. 2020. PMID: 32592462

9

A novel neoantigen discovery approach based on chromatin high order conformation.

Shi Y, Zhang M, Meng L, Su X, Shang X, Guo Z, Li Q, Lin M, Zou X, Luo Q, Yu Y, Wu Y, Da L, Cai TW, He G, Han ZG. Shi Y, et al. BMC Med Genomics. 2020 Aug 27;13(Suppl 6):62. doi: 10.1186/s12920-020-0708-z. BMC Med Genomics. 2020. PMID: 32854726 Free PMC article.

10

Clonal evolution in liver cancer at single-cell and single-variant resolution.

Su X, Zhao L, Shi Y, Zhang R, Long Q, Bai S, Luo Q, Lin Y, Zou X, Ghazanfar S, Tao K, Yang G, Wang L, He KY, Cui X, He J, Wu JX, Han B, Yan B, Deng B, Wang N, Li X, Yang P, Hou S, Sun J, Yang JYH, Chen J, Han ZG. Su X, et al. Among authors: shi y. J Hematol Oncol. 2021 Feb 2;14(1):22. doi: 10.1186/s13045-021-01036-y. J Hematol Oncol. 2021. PMID: 33531041 Free PMC article.

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