| COVID-19 immune features revealed by a large-scale single-cell transcriptome atlas X Ren, W Wen, X Fan, W Hou, B Su, P Cai, J Li, Y Liu, F Tang, F Zhang, ... Cell 184 (7), 1895-1913. e19, 2021 | 769 | 2021 |
| Generation of a broadly useful model for COVID-19 pathogenesis, vaccination, and treatment J Sun, Z Zhuang, J Zheng, K Li, RLY Wong, D Liu, J Huang, J He, A Zhu, ... Cell 182 (3), 734-743. e5, 2020 | 483 | 2020 |
| The RNA m6A reader YTHDC1 silences retrotransposons and guards ES cell identity J Liu, M Gao, J He, K Wu, S Lin, L Jin, Y Chen, H Liu, J Shi, X Wang, ... Nature 591 (7849), 322-326, 2021 | 257 | 2021 |
| Chromatin accessibility dynamics during iPSC reprogramming D Li, J Liu, X Yang, C Zhou, J Guo, C Wu, Y Qin, L Guo, J He, S Yu, H Liu, ... Cell stem cell 21 (6), 819-833. e6, 2017 | 249 | 2017 |
| Transposable elements are regulated by context-specific patterns of chromatin marks in mouse embryonic stem cells J He, X Fu, M Zhang, F He, W Li, MM Abdul, J Zhou, LI Sun, C Chang, Y Li, ... Nature Communications 10 (1), 34, 2019 | 133 | 2019 |
| Identifying transposable element expression dynamics and heterogeneity during development at the single-cell level with a processing pipeline scTE J He, IA Babarinde, L Sun, S Xu, R Chen, J Shi, Y Wei, Y Li, G Ma, ... Nature communications 12 (1), 1456, 2021 | 122 | 2021 |
| Single-cell analysis reveals bronchoalveolar epithelial dysfunction in COVID-19 patients J He, S Cai, H Feng, B Cai, L Lin, Y Mai, Y Fan, A Zhu, H Huang, J Shi, ... Protein & cell 11 (9), 680-687, 2020 | 97 | 2020 |
| Chromatin accessibility dynamics during chemical induction of pluripotency S Cao, S Yu, D Li, J Ye, X Yang, C Li, X Wang, Y Mai, Y Qin, J Wu, J He, ... Cell stem cell 22 (4), 529-542. e5, 2018 | 92 | 2018 |
| Host metabolism dysregulation and cell tropism identification in human airway and alveolar organoids upon SARS-CoV-2 infection R Pei, J Feng, Y Zhang, H Sun, L Li, X Yang, J He, S Xiao, J Xiong, Y Lin, ... Protein & cell 12 (9), 717-733, 2021 | 90 | 2021 |
| SETDB1-mediated cell fate transition between 2C-like and pluripotent states K Wu, HE Liu, Y Wang, J He, S Xu, Y Chen, J Kuang, J Liu, L Guo, D Li, ... Cell reports 30 (1), 25-36. e6, 2020 | 75 | 2020 |
| Models of global gene expression define major domains of cell type and tissue identity AP Hutchins, Z Yang, Y Li, F He, X Fu, X Wang, D Li, K Liu, J He, Y Wang, ... Nucleic Acids Research 45 (5), 2354-2367, 2017 | 61 | 2017 |
| BMP4 resets mouse epiblast stem cells to naive pluripotency through ZBTB7A/B-mediated chromatin remodelling S Yu, C Zhou, S Cao, J He, B Cai, K Wu, Y Qin, X Huang, L Xiao, J Ye, ... Nature cell biology 22 (6), 651-662, 2020 | 50 | 2020 |
| Kdm2b regulates somatic reprogramming through variant PRC1 complex-dependent function Z Zhou, X Yang, J He, J Liu, F Wu, S Yu, Y Liu, R Lin, H Liu, Y Cui, C Zhou, ... Cell reports 21 (8), 2160-2170, 2017 | 43 | 2017 |
| Transposable element sequence fragments incorporated into coding and noncoding transcripts modulate the transcriptome of human pluripotent stem cells IA Babarinde, G Ma, Y Li, B Deng, Z Luo, H Liu, MM Abdul, C Ward, ... Nucleic Acids Research 49 (16), 9132-9153, 2021 | 32 | 2021 |
| Loss of PHF8 induces a viral mimicry response by activating endogenous retrotransposons Y Liu, L Hu, Z Wu, K Yuan, G Hong, Z Lian, J Feng, N Li, D Li, J Wong, ... Nature Communications 14 (1), 4225, 2023 | 17 | 2023 |
| Single-cell analysis reveals macrophage-driven T cell dysfunction in severe COVID-19 patients X Liu, A Zhu, J He, Z Chen, L Liu, Y Xu, F Ye, H Feng, L Luo, B Cai, Y Mai, ... MedRxiv, 2020.05. 23.20100024, 2020 | 17 | 2020 |
| BMP4 drives primed to naive transition through PGC-like state S Yu, C Zhou, J He, Z Yao, X Huang, B Rong, H Zhu, S Wang, S Chen, ... Nature Communications 13 (1), 2756, 2022 | 11 | 2022 |
| Species-specific rewiring of definitive endoderm developmental gene activation via endogenous retroviruses through TET1-mediated demethylation F Wu, Z Liufu, Y Liu, L Guo, J Wu, S Cao, Y Qin, N Guo, Y Fu, H Liu, Q Li, ... Cell Reports 41 (11), 2022 | 10 | 2022 |
| Practical bioinformatics pipelines for single-cell RNA-seq data analysis J He, L Lin, J Chen Biophysics Reports 8 (3), 158, 2022 | 9 | 2022 |
| Regeneration of the human segmentation clock in somitoids in vitro Y Qin, X Huang, Z Cai, B Cai, J He, Y Yao, C Zhou, J Kuang, Y Yang, ... The EMBO Journal 41 (23), e110928, 2022 | 8 | 2022 |