| A comprehensive overview of lncRNA annotation resources J Xu, J Bai, X Zhang, Y Lv, Y Gong, L Liu, H Zhao, F Yu, Y Ping, G Zhang, ... Briefings in bioinformatics 18 (2), 236-249, 2017 | 160 | 2017 |
| Human embryonic stem cell-derived organoid retinoblastoma reveals a cancerous origin H Liu, Y Zhang, YY Zhang, YP Li, ZQ Hua, CJ Zhang, KC Wu, F Yu, ... Proceedings of the National Academy of Sciences 117 (52), 33628-33638, 2020 | 92 | 2020 |
| Breast cancer prognosis signature: linking risk stratification to disease subtypes F Yu, F Quan, J Xu, Y Zhang, Y Xie, J Zhang, Y Lan, H Yuan, H Zhang, ... Briefings in bioinformatics 20 (6), 2130-2140, 2019 | 74 | 2019 |
| Systematic characterization of circular RNA-associated CeRNA network identified novel circRNA biomarkers in Alzheimer's disease Y Zhang, F Yu, S Bao, J Sun Frontiers in Bioengineering and Biotechnology 7, 222, 2019 | 63 | 2019 |
| Identifying core gene modules in glioblastoma based on multilayer factor-mediated dysfunctional regulatory networks through integrating multi-dimensional genomic data Y Ping, Y Deng, L Wang, H Zhang, Y Zhang, C Xu, H Zhao, H Fan, F Yu, ... Nucleic acids research 43 (4), 1997-2007, 2015 | 41 | 2015 |
| Sex difference of mutation clonality in diffuse glioma evolution H Zhang, J Liao, X Zhang, E Zhao, X Liang, S Luo, J Shi, F Yu, J Xu, ... Neuro-oncology 21 (2), 201-213, 2019 | 39 | 2019 |
| LnChrom: a resource of experimentally validated lncRNA–chromatin interactions in human and mouse F Yu, G Zhang, A Shi, J Hu, F Li, X Zhang, Y Zhang, J Huang, Y Xiao, X Li, ... Database 2018, bay039, 2018 | 38 | 2018 |
| Genome-wide DNA methylome reveals the dysfunction of intronic microRNAs in major psychosis H Zhao, J Xu, L Pang, Y Zhang, H Fan, L Liu, T Liu, F Yu, G Zhang, Y Lan, ... BMC medical genomics 8, 1-12, 2015 | 35 | 2015 |
| Variant to function mapping at single-cell resolution through network propagation F Yu, LD Cato, C Weng, LA Liggett, S Jeon, K Xu, CWK Chiang, ... Nature Biotechnology 40 (11), 1644-1653, 2022 | 30 | 2022 |
| CUT&RUNTools 2.0: A pipeline for single-cell and bulk-level CUT&RUN and CUT&Tag data analysis F Yu, VG Sankaran, GC Yuan Bioinformatics, btab507, 2021 | 30 | 2021 |
| CFEA: a cell-free epigenome atlas in human diseases F Yu, K Li, S Li, J Liu, Y Zhang, M Zhou, H Zhao, H Chen, N Wu, Z Liu, ... Nucleic Acids Research 48 (D1), D40-D44, 2020 | 29 | 2020 |
| Gene Perturbation Atlas (GPA): a single-gene perturbation repository for characterizing functional mechanisms of coding and non-coding genes Y Xiao, Y Gong, Y Lv, Y Lan, J Hu, F Li, J Xu, J Bai, Y Deng, L Liu, ... Scientific reports 5 (1), 10889, 2015 | 25 | 2015 |
| Predicting the functions of long noncoding RNAs using RNA-seq based on Bayesian network Y Xiao, Y Lv, H Zhao, Y Gong, J Hu, F Li, J Xu, J Bai, F Yu, X Li BioMed research international 2015, 2015 | 25 | 2015 |
| A genetic disorder reveals a hematopoietic stem cell regulatory network co-opted in leukemia R Voit, L Tao, F Yu, B Cohen, L Cato, X Liao, C Fiorini, SK Nandakumar, ... Nature Immunology, 2022 | 23 | 2022 |
| scTPA: A web tool for single-cell transcriptome analysis of pathway activation signatures Y Zhang, Y Zhang, J Hu, J Zhang, F Guo, M Zhou, G Zhang, F Yu, J Su Bioinformatics 36 (Issue 14), Pages 4217–4219, 2020 | 22 | 2020 |
| Dysregulated long intergenic non-coding RNA modules contribute to heart failure L Pang, J Hu, G Zhang, X Li, X Zhang, F Yu, Y Lan, J Xu, B Pang, D Han, ... Oncotarget 7 (37), 59676, 2016 | 18 | 2016 |
| MeSiC: A model-based method for estimating 5 mC levels at single-CpG resolution from MeDIP-seq Y Xiao, F Yu, L Pang, H Zhao, L Liu, G Zhang, T Liu, H Zhang, H Fan, ... Scientific Reports 5 (1), 14699, 2015 | 13 | 2015 |
| ‘Traffic light rules’: Chromatin states direct miRNA-mediated network motifs running by integrating epigenome and regulatome H Zhao, G Zhang, L Pang, Y Lan, L Wang, F Yu, J Hu, F Li, T Zhao, Y Xiao, ... Biochimica et Biophysica Acta (BBA)-General Subjects 1860 (7), 1475-1488, 2016 | 11 | 2016 |
| Deciphering cell states and genealogies of human hematopoiesis C Weng, F Yu, D Yang, M Poeschla, LA Liggett, MG Jones, X Qiu, ... Nature, 2024 | 10 | 2024 |
| SEECancer: a resource for somatic events in evolution of cancer genome H Zhang, S Luo, X Zhang, J Liao, F Quan, E Zhao, C Zhou, F Yu, W Yin, ... Nucleic Acids Research 46 (D1), D1018-D1026, 2018 | 10 | 2018 |
