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Recommendations for the article Extrachromosomal DNA is associated with oncogene amplification and poor outcome across multiple cancers
| Abstract | Title | Authors | Publication Date | Journal/ Conference | Citation count | Highest h-index |
|---|---|---|---|---|---|---|
| visibility_off | Machine learning-based extrachromosomal DNA identification in large-scale cohorts reveals its clinical implications in cancer | Shixiang Wang, Chen-Yi Wu, M. He, Jia-Xin Yong, Yanxing Chen, Li-Mei Qian, Jin-Ling Zhang, Zhao-Lei Zeng, Rui-Hua Xu, Feng Wang, Qi Zhao | 2024-02-19 | Nature Communications | 8 | 26 |
| visibility_off | AmpliconSuite: an end-to-end workflow for analyzing focal amplifications in cancer genomes | J. Luebeck, Edwin Huang, Forrest Kim, T. Liefeld, Bhargavi Dameracharla, Rohil Ahuja, Daniel Schreyer, Gino Prasad, Michał Adamaszek, Rishaan Kenkre, Tushar Agashe, Devika Torvi, Thorin Tabor, M. Giurgiu, Soyeon Kim, Hoon Kim, Peter Bailey, R.G.W. Verhaak, Viraj Deshpande, Michael Reich, P. Mischel, Jill P. Mesirov, V. Bafna | 2024-05-10 | bioRxiv | 3 | 72 |
| visibility_off | AmpliconReconstructor: Integrated analysis of NGS and optical mapping resolves the complex structures of focal amplifications in cancer | J. Luebeck, C. Coruh, S. R. Dehkordi, Joshua T. Lange, Kristen M. Turner, Viraj Deshpande, Dave A. Pai, Chao Zhang, Utkrisht Rajkumar, Julie A. Law, P. Mischel, V. Bafna | 2020-01-23 | bioRxiv | 1 | 103 |
| visibility_off | SEECancer: a resource for somatic events in evolution of cancer genome | Hongyi Zhang, Shangyi Luo, Xinxin Zhang, Jianlong Liao, Fei Quan, E. Zhao, Chenfen Zhou, Fulong Yu, Wenkang Yin, Yunpeng Zhang, Yun Xiao, Xia Li | 2017-10-23 | Nucleic Acids Research | 7 | 46 |
| visibility_off | Methods, bioinformatics tools and databases in ecDNA research: An overview | Xinyu Zhao, Huan Zhao, Yupeng Liu, Zhiyun Guo | 2023-11-01 | Computers in biology and medicine | 6 | 3 |
| visibility_off | AmpliconReconstructor integrates NGS and optical mapping to resolve the complex structures of focal amplifications | J. Luebeck, C. Coruh, S. R. Dehkordi, Joshua T. Lange, Kristen M. Turner, Viraj Deshpande, Dave A. Pai, Chao Zhang, Utkrisht Rajkumar, Julie A. Law, P. Mischel, V. Bafna | 2020-09-01 | Nature Communications | 64 | 103 |
| visibility_off | ATACAmp: a tool for detecting ecDNA/HSRs from bulk and single-cell ATAC-seq data | Hansen Cheng, Wenhao Ma, Kun Wang, Han Chu, Guangchao Bao, Yu Liao, Yawen Yuan, Yixiong Gou, Liting Dong, Jian Yang, Haoyang Cai | 2023-11-10 | BMC Genomics | 5 | 15 |
| visibility_off | ECGA: A web server to explore and analyze extrachromosomal gene in cancer | Nan Zhou, Li Peng, Zhiyu Zhang, Qiqi Luo, Huiran Sun, Jinku Bao, Yuping Ning, Xiaoqing Yuan | 2024-11-01 | Computational and Structural Biotechnology Journal | 1 | 5 |
| visibility_off | Abstract 3754: ecDNAInspector nominates high-confidence structural predictions of extrachromosomal DNA for downstream analysis | Sophia Pribus, Kathleen E. Houlahan, Lise Mangiante, Christina Curtis | 2025-04-21 | Cancer Research | 0 | 2 |
| visibility_off | EagleC: A deep-learning framework for detecting a full range of structural variations from bulk and single-cell contact maps | Xiaotao Wang, Yu Luan, Feng Yue | 2022-06-01 | Science Advances | 62 | 35 |
| Abstract | Title | Authors | Publication Date | Journal/Conference | Citation count | Highest h-index |