GeneCompass: deciphering universal gene regulatory mechanisms with a knowledge-informed cross-species foundation model

Xiaodong Yang, Guole Liu, Guihai Feng, Dechao Bu, Pengfei Wang, Jie Jiang, Shubai Chen, Qinmeng Yang, Hefan Miao, Yiyang Zhang, Zhenpeng Man, Zhongming Liang, Zichen Wang, Yaning Li, Zheng Li, Yana Liu, Yao Tian, Wenhao Liu, Cong Li, Ao Li, Jingxi Dong, Zhilong Hu, Chen Fang, Lina Cui, Zixu Deng, Haiping Jiang, Wentao Cui, Jiahao Zhang, Zhaohui Yang, Handong Li, Xingjian He, Liqun Zhong, Jiaheng Zhou, Zijian Wang, Qingqing Long, Ping Xu, Unknown, Xin Li, Hongmei Wang, Baoyang Hu, Wei Li, Fei Gao, Jingtao Guo, Leqian Yu, Qi Gu, Weiwei Zhai, Zhengting Zou, Guihai Feng, Wenhao Liu, Yao Tian, Chen Fang, Jingxi Dong, Yana Liu, Jingqi Yu, Wenhui Wu, Xinxin Lin, Cong Li, Yu Zou, Yongshun Ren, Fan Li, Yixiao Zhao, Yike Xin, Longfei Han, Shuyang Jiang, Kai Ma, Qicheng Chen, Haoyuan Wang, Huanhuan Wu, Chaofan He, Yilong Hu, Shuyu Guo, Yiyun Li, Yuanchun Zhou, Yangang Wang, Xuezhi Wang, Pengfei Wang, Fei Li, Zhen Meng, Zaitian Wang, Ping Xu, Wentao Cui, Zhilong Hu, Huimin He, Shan Zong, Jiajia Wang, Yan Chen, Chunyang Zhang, Chengrui Wang, Ran Zhang, Meng Xiao, Yining Wang, Yiqiang Chen, Yi Zhao, Xiaodong Yang, Dechao Bu, Xin Qin, Jiaxin Qin, Zhaohui Yang, Chenhao Li, Zhufeng Xu, Zeyuan Zhang, Xiaoning Qi, Shubai Chen, Wuliang Huang, Yaning Li, Ge Yang, Jing Liu, Guole Liu, Liqun Zhong, Yaoru Luo, Jiaheng Zhou, Zichen Wang, Qinxuan Luo, Ziwen Liu, Ao Li, Teng Wang, Yiming Huang, Handong Li, Yong Wang, Shihua Zhang, Jiahao Zhang, Yiyang Zhang, Shirui Li, Zhongming Liang, Zhenpeng Man, Kangning Dong, Qunlun Shen, Hongmei Wang, Zhen Meng, Xuezhi Wang, Yangang Wang, Yong Wang, Shihua Zhang, Jingtao Guo, Yi Zhao, Yuanchun Zhou, Fei Li, Jing Liu, Yiqiang Chen, Ge Yang, Xin Li

Open source

DOI: 10.1038/s41422-024-01034-y
Published: 2024-10-08
Container: Cell Research
Publisher: Springer Science and Business Media LLC
Open access: unknown

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Cite this work

BibTeX

@article{allodium:10.1038/s41422-024-01034-y,
  title = {GeneCompass: deciphering universal gene regulatory mechanisms with a knowledge-informed cross-species foundation model},
  author = {Xiaodong Yang and Guole Liu and Guihai Feng and Dechao Bu and Pengfei Wang and Jie Jiang and Shubai Chen and Qinmeng Yang and Hefan Miao and Yiyang Zhang and Zhenpeng Man and Zhongming Liang and Zichen Wang and Yaning Li and Zheng Li and Yana Liu and Yao Tian and Wenhao Liu and Cong Li and Ao Li and Jingxi Dong and Zhilong Hu and Chen Fang and Lina Cui and Zixu Deng and Haiping Jiang and Wentao Cui and Jiahao Zhang and Zhaohui Yang and Handong Li and Xingjian He and Liqun Zhong and Jiaheng Zhou and Zijian Wang and Qingqing Long and Ping Xu and Unknown and Xin Li and Hongmei Wang and Baoyang Hu and Wei Li and Fei Gao and Jingtao Guo and Leqian Yu and Qi Gu and Weiwei Zhai and Zhengting Zou and Guihai Feng and Wenhao Liu and Yao Tian and Chen Fang and Jingxi Dong and Yana Liu and Jingqi Yu and Wenhui Wu and Xinxin Lin and Cong Li and Yu Zou and Yongshun Ren and Fan Li and Yixiao Zhao and Yike Xin and Longfei Han and Shuyang Jiang and Kai Ma and Qicheng Chen and Haoyuan Wang and Huanhuan Wu and Chaofan He and Yilong Hu and Shuyu Guo and Yiyun Li and Yuanchun Zhou and Yangang Wang and Xuezhi Wang and Pengfei Wang and Fei Li and Zhen Meng and Zaitian Wang and Ping Xu and Wentao Cui and Zhilong Hu and Huimin He and Shan Zong and Jiajia Wang and Yan Chen and Chunyang Zhang and Chengrui Wang and Ran Zhang and Meng Xiao and Yining Wang and Yiqiang Chen and Yi Zhao and Xiaodong Yang and Dechao Bu and Xin Qin and Jiaxin Qin and Zhaohui Yang and Chenhao Li and Zhufeng Xu and Zeyuan Zhang and Xiaoning Qi and Shubai Chen and Wuliang Huang and Yaning Li and Ge Yang and Jing Liu and Guole Liu and Liqun Zhong and Yaoru Luo and Jiaheng Zhou and Zichen Wang and Qinxuan Luo and Ziwen Liu and Ao Li and Teng Wang and Yiming Huang and Handong Li and Yong Wang and Shihua Zhang and Jiahao Zhang and Yiyang Zhang and Shirui Li and Zhongming Liang and Zhenpeng Man and Kangning Dong and Qunlun Shen and Hongmei Wang and Zhen Meng and Xuezhi Wang and Yangang Wang and Yong Wang and Shihua Zhang and Jingtao Guo and Yi Zhao and Yuanchun Zhou and Fei Li and Jing Liu and Yiqiang Chen and Ge Yang and Xin Li},
  year = {2024},
  journal = {Cell Research},
  doi = {10.1038/s41422-024-01034-y},
  url = {https://doi.org/10.1038/s41422-024-01034-y}
}

RIS

TY  - JOUR
TI  - GeneCompass: deciphering universal gene regulatory mechanisms with a knowledge-informed cross-species foundation model
AU  - Xiaodong Yang
AU  - Guole Liu
AU  - Guihai Feng
AU  - Dechao Bu
AU  - Pengfei Wang
AU  - Jie Jiang
AU  - Shubai Chen
AU  - Qinmeng Yang
AU  - Hefan Miao
AU  - Yiyang Zhang
AU  - Zhenpeng Man
AU  - Zhongming Liang
AU  - Zichen Wang
AU  - Yaning Li
AU  - Zheng Li
AU  - Yana Liu
AU  - Yao Tian
AU  - Wenhao Liu
AU  - Cong Li
AU  - Ao Li
AU  - Jingxi Dong
AU  - Zhilong Hu
AU  - Chen Fang
AU  - Lina Cui
AU  - Zixu Deng
AU  - Haiping Jiang
AU  - Wentao Cui
AU  - Jiahao Zhang
AU  - Zhaohui Yang
AU  - Handong Li
AU  - Xingjian He
AU  - Liqun Zhong
AU  - Jiaheng Zhou
AU  - Zijian Wang
AU  - Qingqing Long
AU  - Ping Xu
AU  - Unknown
AU  - Xin Li
AU  - Hongmei Wang
AU  - Baoyang Hu
AU  - Wei Li
AU  - Fei Gao
AU  - Jingtao Guo
AU  - Leqian Yu
AU  - Qi Gu
AU  - Weiwei Zhai
AU  - Zhengting Zou
AU  - Guihai Feng
AU  - Wenhao Liu
AU  - Yao Tian
AU  - Chen Fang
AU  - Jingxi Dong
AU  - Yana Liu
AU  - Jingqi Yu
AU  - Wenhui Wu
AU  - Xinxin Lin
AU  - Cong Li
AU  - Yu Zou
AU  - Yongshun Ren
AU  - Fan Li
AU  - Yixiao Zhao
AU  - Yike Xin
AU  - Longfei Han
AU  - Shuyang Jiang
AU  - Kai Ma
AU  - Qicheng Chen
AU  - Haoyuan Wang
AU  - Huanhuan Wu
AU  - Chaofan He
AU  - Yilong Hu
AU  - Shuyu Guo
AU  - Yiyun Li
AU  - Yuanchun Zhou
AU  - Yangang Wang
AU  - Xuezhi Wang
AU  - Pengfei Wang
AU  - Fei Li
AU  - Zhen Meng
AU  - Zaitian Wang
AU  - Ping Xu
AU  - Wentao Cui
AU  - Zhilong Hu
AU  - Huimin He
AU  - Shan Zong
AU  - Jiajia Wang
AU  - Yan Chen
AU  - Chunyang Zhang
AU  - Chengrui Wang
AU  - Ran Zhang
AU  - Meng Xiao
AU  - Yining Wang
AU  - Yiqiang Chen
AU  - Yi Zhao
AU  - Xiaodong Yang
AU  - Dechao Bu
AU  - Xin Qin
AU  - Jiaxin Qin
AU  - Zhaohui Yang
AU  - Chenhao Li
AU  - Zhufeng Xu
AU  - Zeyuan Zhang
AU  - Xiaoning Qi
AU  - Shubai Chen
AU  - Wuliang Huang
AU  - Yaning Li
AU  - Ge Yang
AU  - Jing Liu
AU  - Guole Liu
AU  - Liqun Zhong
AU  - Yaoru Luo
AU  - Jiaheng Zhou
AU  - Zichen Wang
AU  - Qinxuan Luo
AU  - Ziwen Liu
AU  - Ao Li
AU  - Teng Wang
AU  - Yiming Huang
AU  - Handong Li
AU  - Yong Wang
AU  - Shihua Zhang
AU  - Jiahao Zhang
AU  - Yiyang Zhang
AU  - Shirui Li
AU  - Zhongming Liang
AU  - Zhenpeng Man
AU  - Kangning Dong
AU  - Qunlun Shen
AU  - Hongmei Wang
AU  - Zhen Meng
AU  - Xuezhi Wang
AU  - Yangang Wang
AU  - Yong Wang
AU  - Shihua Zhang
AU  - Jingtao Guo
AU  - Yi Zhao
AU  - Yuanchun Zhou
AU  - Fei Li
AU  - Jing Liu
AU  - Yiqiang Chen
AU  - Ge Yang
AU  - Xin Li
PY  - 2024
JO  - Cell Research
DO  - 10.1038/s41422-024-01034-y
UR  - https://doi.org/10.1038/s41422-024-01034-y
ER  -

APA

Yang, X., Liu, G., Feng, G., Bu, D., Wang, P., Jiang, J., Chen, S., Yang, Q., Miao, H., Zhang, Y., Man, Z., Liang, Z., Wang, Z., Li, Y., Li, Z., Liu, Y., Tian, Y., Liu, W., Li, C., Li, A., Dong, J., Hu, Z., Fang, C., Cui, L., Deng, Z., Jiang, H., Cui, W., Zhang, J., Yang, Z., Li, H., He, X., Zhong, L., Zhou, J., Wang, Z., Long, Q., Xu, P., Unknown, Li, X., Wang, H., Hu, B., Li, W., Gao, F., Guo, J., Yu, L., Gu, Q., Zhai, W., Zou, Z., Feng, G., Liu, W., Tian, Y., Fang, C., Dong, J., Liu, Y., Yu, J., Wu, W., Lin, X., Li, C., Zou, Y., Ren, Y., Li, F., Zhao, Y., Xin, Y., Han, L., Jiang, S., Ma, K., Chen, Q., Wang, H., Wu, H., He, C., Hu, Y., Guo, S., Li, Y., Zhou, Y., Wang, Y., Wang, X., Wang, P., Li, F., Meng, Z., Wang, Z., Xu, P., Cui, W., Hu, Z., He, H., Zong, S., Wang, J., Chen, Y., Zhang, C., Wang, C., Zhang, R., Xiao, M., Wang, Y., Chen, Y., Zhao, Y., Yang, X., Bu, D., Qin, X., Qin, J., Yang, Z., Li, C., Xu, Z., Zhang, Z., Qi, X., Chen, S., Huang, W., Li, Y., Yang, G., Liu, J., Liu, G., Zhong, L., Luo, Y., Zhou, J., Wang, Z., Luo, Q., Liu, Z., Li, A., Wang, T., Huang, Y., Li, H., Wang, Y., Zhang, S., Zhang, J., Zhang, Y., Li, S., Liang, Z., Man, Z., Dong, K., Shen, Q., Wang, H., Meng, Z., Wang, X., Wang, Y., Wang, Y., Zhang, S., Guo, J., Zhao, Y., Zhou, Y., Li, F., Liu, J., Chen, Y., Yang, G., & Li, X. (2024). GeneCompass: deciphering universal gene regulatory mechanisms with a knowledge-informed cross-species foundation model. Cell Research. https://doi.org/10.1038/s41422-024-01034-y

Source records

crossref · retrieved 2026-09-26T11:21:25.552Z