Ji Z - Search Results

1

Transcriptional programs of neoantigen-specific TIL in anti-PD-1-treated lung cancers.

Caushi JX, Zhang J, Ji Z, Vaghasia A, Zhang B, Hsiue EH, Mog BJ, Hou W, Justesen S, Blosser R, Tam A, Anagnostou V, Cottrell TR, Guo H, Chan HY, Singh D, Thapa S, Dykema AG, Burman P, Choudhury B, Aparicio L, Cheung LS, Lanis M, Belcaid Z, El Asmar M, Illei PB, Wang R, Meyers J, Schuebel K, Gupta A, Skaist A, Wheelan S, Naidoo J, Marrone KA, Brock M, Ha J, Bush EL, Park BJ, Bott M, Jones DR, Reuss JE, Velculescu VE, Chaft JE, Kinzler KW, Zhou S, Vogelstein B, Taube JM, Hellmann MD, Brahmer JR, Merghoub T, Forde PM, Yegnasubramanian S, Ji H, Pardoll DM, Smith KN. Caushi JX, et al. Among authors: ji h, ji z. Nature. 2021 Aug;596(7870):126-132. doi: 10.1038/s41586-021-03752-4. Epub 2021 Jul 21. Nature. 2021. PMID: 34290408 Free PMC article.

2

Turning publicly available gene expression data into discoveries using gene set context analysis.

Ji Z, Vokes SA, Dang CV, Ji H. Ji Z, et al. Among authors: ji h. Nucleic Acids Res. 2016 Jan 8;44(1):e8. doi: 10.1093/nar/gkv873. Epub 2015 Sep 8. Nucleic Acids Res. 2016. PMID: 26350211 Free PMC article.

3

TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis.

Ji Z, Ji H. Ji Z, et al. Among authors: ji h. Nucleic Acids Res. 2016 Jul 27;44(13):e117. doi: 10.1093/nar/gkw430. Epub 2016 May 13. Nucleic Acids Res. 2016. PMID: 27179027 Free PMC article.

4

Single-cell regulome data analysis by SCRAT.

Ji Z, Zhou W, Ji H. Ji Z, et al. Among authors: ji h. Bioinformatics. 2017 Sep 15;33(18):2930-2932. doi: 10.1093/bioinformatics/btx315. Bioinformatics. 2017. PMID: 28505247 Free PMC article.

5

Genome-wide prediction of DNase I hypersensitivity using gene expression.

Zhou W, Sherwood B, Ji Z, Xue Y, Du F, Bai J, Ying M, Ji H. Zhou W, et al. Among authors: ji h, ji z. Nat Commun. 2017 Oct 19;8(1):1038. doi: 10.1038/s41467-017-01188-x. Nat Commun. 2017. PMID: 29051481 Free PMC article.

6

Dynamic motif occupancy (DynaMO) analysis identifies transcription factors and their binding sites driving dynamic biological processes.

Kuang Z, Ji Z, Boeke JD, Ji H. Kuang Z, et al. Among authors: ji h, ji z. Nucleic Acids Res. 2018 Jan 9;46(1):e2. doi: 10.1093/nar/gkx905. Nucleic Acids Res. 2018. PMID: 29325176 Free PMC article.

7

Pseudotime Reconstruction Using TSCAN.

Ji Z, Ji H. Ji Z, et al. Among authors: ji h. Methods Mol Biol. 2019;1935:115-124. doi: 10.1007/978-1-4939-9057-3_8. Methods Mol Biol. 2019. PMID: 30758823

8

Sex differences in gene regulation in the dorsal root ganglion after nerve injury.

Stephens KE, Zhou W, Ji Z, Chen Z, He S, Ji H, Guan Y, Taverna SD. Stephens KE, et al. Among authors: ji h, ji z. BMC Genomics. 2019 Feb 19;20(1):147. doi: 10.1186/s12864-019-5512-9. BMC Genomics. 2019. PMID: 30782122 Free PMC article.

9

Global prediction of chromatin accessibility using small-cell-number and single-cell RNA-seq.

Zhou W, Ji Z, Fang W, Ji H. Zhou W, et al. Among authors: ji h, ji z. Nucleic Acids Res. 2019 Nov 4;47(19):e121. doi: 10.1093/nar/gkz716. Nucleic Acids Res. 2019. PMID: 31428792 Free PMC article.

10

Analysis of TCR β CDR3 sequencing data for tracking anti-tumor immunity.

Zhang J, Ji Z, Smith KN. Zhang J, et al. Among authors: ji z. Methods Enzymol. 2019;629:443-464. doi: 10.1016/bs.mie.2019.08.006. Epub 2019 Sep 5. Methods Enzymol. 2019. PMID: 31727253

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