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Zhicheng Ji, PhD
Zhicheng Ji, PhD
Assistant Professor of Biostatistics and Bioinformatics, Duke University School of Medicine
Verified email at duke.edu - Homepage
Title
Cited by
Cited by
Year
TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis
Z Ji, H Ji
Nucleic acids research 44 (13), e117-e117, 2016
5922016
TCF-1-centered transcriptional network drives an effector versus exhausted CD8 T cell-fate decision
Z Chen, Z Ji, SF Ngiow, S Manne, Z Cai, AC Huang, J Johnson, ...
Immunity 51 (5), 840-855. e5, 2019
4832019
Transcriptional programs of neoantigen-specific TIL in anti-PD-1-treated lung cancers
JX Caushi, J Zhang, Z Ji, A Vaghasia, B Zhang, EHC Hsiue, BJ Mog, ...
Nature 596 (7870), 126-132, 2021
2752021
A systematic evaluation of single-cell RNA-sequencing imputation methods
W Hou, Z Ji, H Ji, SC Hicks
Genome biology 21, 1-30, 2020
2492020
Prediction of overall survival for patients with metastatic castration-resistant prostate cancer: development of a prognostic model through a crowdsourced challenge with open …
J Guinney, T Wang, TD Laajala, KK Winner, JC Bare, EC Neto, SA Khan, ...
The Lancet Oncology 18 (1), 132-142, 2017
1612017
Compartmental analysis of T-cell clonal dynamics as a function of pathologic response to neoadjuvant PD-1 blockade in resectable non–small cell lung cancer
J Zhang, Z Ji, JX Caushi, M El Asmar, V Anagnostou, TR Cottrell, ...
Clinical Cancer Research 26 (6), 1327-1337, 2020
1052020
Association between maternal prepregnancy body mass index and plasma folate concentrations with child metabolic health
G Wang, FB Hu, KB Mistry, C Zhang, F Ren, Y Huo, D Paige, T Bartell, ...
JAMA pediatrics 170 (8), e160845-e160845, 2016
952016
Sex differences in gene regulation in the dorsal root ganglion after nerve injury
KE Stephens, W Zhou, Z Ji, Z Chen, S He, H Ji, Y Guan, SD Taverna
BMC genomics 20, 1-18, 2019
672019
Epigenome-wide association study links site-specific DNA methylation changes with cow's milk allergy
X Hong, C Ladd-Acosta, K Hao, B Sherwood, H Ji, CA Keet, R Kumar, ...
Journal of allergy and clinical immunology 138 (3), 908-911. e9, 2016
632016
Single-cell transcriptomic reveals molecular diversity and developmental heterogeneity of human stem cell-derived oligodendrocyte lineage cells
X Chamling, A Kallman, W Fang, CA Berlinicke, JL Mertz, P Devkota, ...
Nature communications 12 (1), 652, 2021
522021
Multimodal single cell data integration challenge: results and lessons learned
C Lance, MD Luecken, DB Burkhardt, R Cannoodt, P Rautenstrauch, ...
BioRxiv, 2022.04. 11.487796, 2022
472022
Single-cell regulome data analysis by SCRAT
Z Ji, W Zhou, H Ji
Bioinformatics 33 (18), 2930-2932, 2017
452017
Genome-wide prediction of DNase I hypersensitivity using gene expression
W Zhou, B Sherwood, Z Ji, Y Xue, F Du, J Bai, M Ying, H Ji
Nature communications 8 (1), 1038, 2017
352017
NIH SenNet Consortium to map senescent cells throughout the human lifespan to understand physiological health
Brown University TDA Wang Siyuan (Steven) 34, ...
Nature aging 2 (12), 1090-1100, 2022
342022
Single-cell ATAC-seq signal extraction and enhancement with SCATE
Z Ji, W Zhou, W Hou, H Ji
Genome biology 21, 1-36, 2020
332020
Single cell transcriptomics of mouse kidney transplants reveals a myeloid cell pathway for transplant rejection
A Dangi, NR Natesh, I Husain, Z Ji, L Barisoni, J Kwun, X Shen, EB Thorp, ...
JCI insight 5 (20), 2020
322020
GLI transcriptional repression regulates tissue-specific enhancer activity in response to Hedgehog signaling
RK Lex, Z Ji, KN Falkenstein, W Zhou, JL Henry, H Ji, SA Vokes
Elife 9, e50670, 2020
302020
The pluripotency factor NANOG binds to GLI proteins and represses hedgehog-mediated transcription
Q Li, RK Lex, HW Chung, SM Giovanetti, Z Ji, H Ji, MD Person, J Kim, ...
Journal of Biological Chemistry 291 (13), 7171-7182, 2016
302016
Global prediction of chromatin accessibility using small-cell-number and single-cell RNA-seq
W Zhou, Z Ji, W Fang, H Ji
Nucleic acids research 47 (19), e121-e121, 2019
282019
PRMT5 is essential for the maintenance of chondrogenic progenitor cells in the limb bud
JL Norrie, Q Li, S Co, BL Huang, D Ding, JC Uy, Z Ji, S Mackem, ...
Development 143 (24), 4608-4619, 2016
242016
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Articles 1–20