| Whole-genome sequencing reveals diverse models of structural variations in esophageal squamous cell carcinoma C Cheng, Y Zhou, H Li, T Xiong, S Li, Y Bi, P Kong, F Wang, H Cui, Y Li, ... The American Journal of Human Genetics 98 (2), 256-274, 2016 | 136 | 2016 |
| Distinct subtypes of gastric cancer defined by molecular characterization include novel mutational signatures with prognostic capability X Li, WKK Wu, R Xing, SH Wong, Y Liu, X Fang, Y Zhang, M Wang, ... Cancer research 76 (7), 1724-1732, 2016 | 127 | 2016 |
| Donkey genomes provide new insights into domestication and selection for coat color C Wang, H Li, Y Guo, J Huang, Y Sun, J Min, J Wang, X Fang, Z Zhao, ... Nature communications 11 (1), 6014, 2020 | 84 | 2020 |
| Reference panel guided topological structure annotation of Hi-C data Y Zhang, M Blanchette Nature Communications 13 (1), 7426, 2022 | 17 | 2022 |
| Identification of glycopeptides with multiple hydroxylysine O-glycosylation sites by tandem mass spectrometry Y Zhang, CY Yu, E Song, SC Li, Y Mechref, H Tang, X Liu Journal of proteome research 14 (12), 5099-5108, 2015 | 16 | 2015 |
| The Tibetan-Yi region is both a corridor and a barrier for human gene flow Z Zhang, Y Zhang, Y Wang, Z Zhao, M Yang, L Zhang, B Zhou, B Xu, ... Cell Reports 39 (4), 2022 | 13 | 2022 |
| Large-scale 3D chromatin reconstruction from chromosomal contacts Y Zhang, W Liu, Y Lin, YK Ng, S Li BMC genomics 20, 129-141, 2019 | 13 | 2019 |
| TULIPs decorate the three-dimensional genome of PFA ependymoma MJ Johnston, JJY Lee, B Hu, A Nikolic, E Hasheminasabgorji, A Baguette, ... Cell 187 (18), 4926-4945. e22, 2024 | 7 | 2024 |
| Reference panel-guided super-resolution inference of Hi-C data Y Zhang, M Blanchette Bioinformatics 39 (Supplement_1), i386-i393, 2023 | 3 | 2023 |
| BioMaster: Multi-agent System for Automated Bioinformatics Analysis Workflow H Su, W Long, Y Zhang bioRxiv, 2025.01. 23.634608, 2025 | | 2025 |
| MutBERT: Probabilistic Genome Representation Improves Genomics Foundation Models W Long, H Su, J Xiong, Y Zhang bioRxiv, 2025.01. 23.634452, 2025 | | 2025 |
| ARGV: 3D genome structure exploration using augmented reality C Drogaris, Y Zhang, E Zhang, E Nazarova, R Sarrazin-Gendron, ... BMC bioinformatics 25 (1), 277, 2024 | | 2024 |
| Posterior inference of Hi-C contact frequency through sampling Y Zhang, CJF Cameron, M Blanchette Frontiers in Bioinformatics 3, 1285828, 2024 | | 2024 |
| BioLLM: A Standardized Framework for Integrating and Benchmarking Single-Cell Foundation Models P Qiu, QQ Chen, H Qin, S Fang, Y Zhang, T Xia, L Cao, Y Zhang, X Fang, ... bioRxiv, 2024.11. 22.624786, 2024 | | 2024 |
| A universal tool for chromatin loop annotation in bulk and single-cell Hi-C data Y Hou, A Baguette, M Blanchette, Y Zhang bioRxiv, 2024.12. 24.630215, 2024 | | 2024 |