| 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 | 747 | 2019 |
| TSCAN: Pseudo-time reconstruction and evaluation in single-cell RNA-seq analysis Z Ji, H Ji Nucleic acids research 44 (13), e117-e117, 2016 | 713 | 2016 |
| 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 | 523 | 2021 |
| A systematic evaluation of single-cell RNA-sequencing imputation methods W Hou, Z Ji, H Ji, SC Hicks Genome biology 21 (1), 218, 2020 | 355 | 2020 |
| Assessing GPT-4 for cell type annotation in single-cell RNA-seq analysis W Hou, Z Ji Nature methods 21 (8), 1462-1465, 2024 | 231 | 2024 |
| 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 | 173 | 2017 |
| 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 | 152 | 2020 |
| 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 | 115 | 2022 |
| Spatial mapping of cellular senescence: emerging challenges and opportunities AU Gurkar, AA Gerencser, AL Mora, AC Nelson, AR Zhang, AB Lagnado, ... Nature aging 3 (7), 776-790, 2023 | 110 | 2023 |
| 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 | 110 | 2021 |
| 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 | 105 | 2022 |
| 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 | 105 | 2016 |
| 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), 147, 2019 | 91 | 2019 |
| A statistical framework for differential pseudotime analysis with multiple single-cell RNA-seq samples W Hou, Z Ji, Z Chen, EJ Wherry, SC Hicks, H Ji Nature communications 14 (1), 7286, 2023 | 90 | 2023 |
| 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 | 75 | 2016 |
| Comparing large language models and human programmers for generating programming code W Hou, Z Ji Advanced Science 12 (8), 2412279, 2025 | 62* | 2025 |
| Distinct myeloid-derived suppressor cell populations in human glioblastoma C Jackson, C Cherry, S Bom, AG Dykema, R Wang, E Thompson, ... Science 387 (6731), eabm5214, 2025 | 62* | 2025 |
| Benchmarking large language models for genomic knowledge with GeneTuring X Shang, X Liao, Z Ji, W Hou Briefings in Bioinformatics 26 (5), bbaf492, 2025 | 60* | 2025 |
| Single-cell regulome data analysis by SCRAT Z Ji, W Zhou, H Ji Bioinformatics 33 (18), 2930-2932, 2017 | 56 | 2017 |
| Lung tumor–infiltrating Treg have divergent transcriptional profiles and function linked to checkpoint blockade response AG Dykema, J Zhang, LS Cheung, S Connor, B Zhang, Z Zeng, ... Science immunology 8 (87), eadg1487, 2023 | 55 | 2023 |
Hongkai JiProfessor of Biostatistics, Johns Hopkins University Bloomberg School of Public HealthVerified email at jhsph.edu
