Xiao-Chen Bo (Xiaochen Bo)

Publication Activity (10 Years)

Years Active: 2017-2024
Publications (10 Years): 46

Top Topics

Machine Learning

Dna Damage Response

Top Venues

Communications biology

Briefings in bioinformatics

Nature communications

Database : the journal of biological databases and curation

This page only lists publications with an associated author ORCID identifier.

Publications

Ruiqing Wang, Chao Ren, Tian Gao, Hao Li, Xiao-Chen Bo, Dahai Zhu, Dan Zhang, Hebing Chen, Yong Zhang
SEPDB: a database of secreted proteins. Database : the journal of biological databases and curation 2024 (2024)
Huiyan Xu, Yanpeng Zhao, Yixin Zhang, Junshan Han, Peng Zan, Song He, Xiao-Chen Bo
Deep active learning with high structural discriminability for molecular mutagenicity prediction. Communications biology 7 (1) (2024)
Ruiqing Wang, Chao Ren, Tian Gao, Hao Li, Xiao-Chen Bo, Dahai Zhu, Dan Zhang, Hebing Chen, Yong Zhang
SEPDB: a database of secreted proteins. Database : the journal of biological databases and curation 2024 (2024)
Ruiqing Wang, Chao Ren, Tian Gao, Hao Li, Xiao-Chen Bo, Dahai Zhu, Dan Zhang, Hebing Chen, Yong Zhang
SEPDB: a database of secreted proteins. Database : the journal of biological databases and curation 2024 (2024)
Huiyan Xu, Yanpeng Zhao, Yixin Zhang, Junshan Han, Peng Zan, Song He, Xiao-Chen Bo
Deep active learning with high structural discriminability for molecular mutagenicity prediction. Communications biology 7 (1) (2024)
Sijing An, Jinhui Shi, Runyan Liu, Yaowen Chen, Jing Wang, Shuofeng Hu, Xinyu Xia, Guohua Dong, Xiao-Chen Bo, Zhen He, Xiaomin Ying
scDAC: deep adaptive clustering of single-cell transcriptomic data with coupled autoencoder and Dirichlet process mixture model. Bioinformatics (Oxford, England) 40 (4) (2024)
Ruiqing Wang, Chao Ren, Tian Gao, Hao Li, Xiao-Chen Bo, Dahai Zhu, Dan Zhang, Hebing Chen, Yong Zhang
SEPDB: a database of secreted proteins. Database : the journal of biological databases and curation 2024 (2024)
Jingxuan Xu, Xiang Xu, Dandan Huang, Yawen Luo, Lin Lin, Xuemei Bai, Yang Zheng, Qian Yang, Yu Cheng, An Huang, Jingyi Shi, Xiao-Chen Bo, Jin Gu, Hebing Chen
A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains. Nature communications 15 (1) (2024)
Jingxuan Xu, Xiang Xu, Dandan Huang, Yawen Luo, Lin Lin, Xuemei Bai, Yang Zheng, Qian Yang, Yu Cheng, An Huang, Jingyi Shi, Xiao-Chen Bo, Jin Gu, Hebing Chen
A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains. Nature communications 15 (1) (2024)
Zhangyi Ouyang, Feng Liu, Wanying Li, Junting Wang, Bijia Chen, Yang Zheng, Yaru Li, Huan Tao, Xiang Xu, Cheng Li, Yuwen Cong, Hao Li, Xiao-Chen Bo, Hebing Chen
The developmental and evolutionary characteristics of transcription factor binding site clustered regions based on an explainable machine learning model. Nucleic acids research 52 (13) (2024)
Bijia Chen, Chao Ren, Zhangyi Ouyang, Jingxuan Xu, Kang Xu, Yaru Li, Hejiang Guo, Xuemei Bai, Mengge Tian, Xiang Xu, Yuyang Wang, Hao Li, Xiao-Chen Bo, Hebing Chen
Stratifying TAD boundaries pinpoints focal genomic regions of regulation, damage, and repair. Briefings in bioinformatics 25 (4) (2024)
Ruiqing Wang, Chao Ren, Tian Gao, Hao Li, Xiao-Chen Bo, Dahai Zhu, Dan Zhang, Hebing Chen, Yong Zhang
SEPDB: a database of secreted proteins. Database : the journal of biological databases and curation 2024 (2024)
Zhangyi Ouyang, Feng Liu, Wanying Li, Junting Wang, Bijia Chen, Yang Zheng, Yaru Li, Huan Tao, Xiang Xu, Cheng Li, Yuwen Cong, Hao Li, Xiao-Chen Bo, Hebing Chen
The developmental and evolutionary characteristics of transcription factor binding site clustered regions based on an explainable machine learning model. Nucleic acids research (2024)
Zhangyi Ouyang, Feng Liu, Wanying Li, Junting Wang, Bijia Chen, Yang Zheng, Yaru Li, Huan Tao, Xiang Xu, Cheng Li, Yuwen Cong, Hao Li, Xiao-Chen Bo, Hebing Chen
The developmental and evolutionary characteristics of transcription factor binding site clustered regions based on an explainable machine learning model. Nucleic acids research 52 (13) (2024)
Bijia Chen, Chao Ren, Zhangyi Ouyang, Jingxuan Xu, Kang Xu, Yaru Li, Hejiang Guo, Xuemei Bai, Mengge Tian, Xiang Xu, Yuyang Wang, Hao Li, Xiao-Chen Bo, Hebing Chen
Stratifying TAD boundaries pinpoints focal genomic regions of regulation, damage, and repair. Briefings in bioinformatics 25 (4) (2024)
Sijing An, Jinhui Shi, Runyan Liu, Yaowen Chen, Jing Wang, Shuofeng Hu, Xinyu Xia, Guohua Dong, Xiao-Chen Bo, Zhen He, Xiaomin Ying
scDAC: deep adaptive clustering of single-cell transcriptomic data with coupled autoencoder and Dirichlet process mixture model. Bioinformatics (Oxford, England) 40 (4) (2024)
Jingxuan Xu, Xiang Xu, Dandan Huang, Yawen Luo, Lin Lin, Xuemei Bai, Yang Zheng, Qian Yang, Yu Cheng, An Huang, Jingyi Shi, Xiao-Chen Bo, Jin Gu, Hebing Chen
A comprehensive benchmarking with interpretation and operational guidance for the hierarchy of topologically associating domains. Nature communications 15 (1) (2024)
Sijing An, Jinhui Shi, Runyan Liu, Yaowen Chen, Jing Wang, Shuofeng Hu, Xinyu Xia, Guohua Dong, Xiao-Chen Bo, Zhen He, Xiaomin Ying
scDAC: deep adaptive clustering of single-cell transcriptomic data with coupled autoencoder and Dirichlet process mixture model. Bioinformatics (Oxford, England) 40 (4) (2024)
Zhuo-Xing Shi, Zhi-Chao Chen, Jia-Yong Zhong, Kun-Hua Hu, Ying-Feng Zheng, Ying Chen, Shang-Qian Xie, Xiao-Chen Bo, Feng Luo, Chong Tang, Chuan-Le Xiao, Yi-Zhi Liu
High-throughput and high-accuracy single-cell RNA isoform analysis using PacBio circular consensus sequencing. Nature communications 14 (1) (2023)
Yinan Zhang, Xiaoyao Yin, Chengjun Cui, Kun He, Fei Wang, Jie Chao, Tao Li, Xiaolei Zuo, Ailing Li, Lihua Wang, Na Wang, Xiao-Chen Bo, Chun-Hai Fan
Prime factorization via localized tile assembly in a DNA origami framework. Science advances 9 (13) (2023)
Zhuo-Xing Shi, Zhi-Chao Chen, Jia-Yong Zhong, Kun-Hua Hu, Ying-Feng Zheng, Ying Chen, Shang-Qian Xie, Xiao-Chen Bo, Feng Luo, Chong Tang, Chuan-Le Xiao, Yi-Zhi Liu
High-throughput and high-accuracy single-cell RNA isoform analysis using PacBio circular consensus sequencing. Nature communications 14 (1) (2023)
Zhuo-Xing Shi, Zhi-Chao Chen, Jia-Yong Zhong, Kun-Hua Hu, Ying-Feng Zheng, Ying Chen, Shang-Qian Xie, Xiao-Chen Bo, Feng Luo, Chong Tang, Chuan-Le Xiao, Yi-Zhi Liu
High-throughput and high-accuracy single-cell RNA isoform analysis using PacBio circular consensus sequencing. Nature communications 14 (1) (2023)
Junting Wang, Chengyue Zhang, Li Zhang, Hong-Juan Yao, Xiaohong Liu, Yuchen Shi, Junyang Zhao, Xiao-Chen Bo, Hebing Chen, Liang Li
Comparative study on genomic and epigenomic profiles of retinoblastoma or tuberous sclerosis complex via nanopore sequencing and a joint screening framework. Cancer gene therapy 31 (3) (2023)
Lu Han, Bin Song, Peilin Zhang, Zhi Zhong, Yongxiang Zhang, Xiao-Chen Bo, Hong-Yang Wang, Yong Zhang, Xiuliang Cui, Wenxia Zhou
PC3T: a signature-driven predictor of chemical compounds for cellular transition. Communications biology 6 (1) (2023)
Longteng Wang, Yang Zheng, Yu Sun, Shulin Mao, Hao Li, Xiao-Chen Bo, Cheng Li, Hebing Chen
TimeTalk uses single-cell RNA-seq datasets to decipher cell-cell communication during early embryo development. Communications biology 6 (1) (2023)
Junting Wang, Chengyue Zhang, Li Zhang, Hong-Juan Yao, Xiaohong Liu, Yuchen Shi, Junyang Zhao, Xiao-Chen Bo, Hebing Chen, Liang Li
Comparative study on genomic and epigenomic profiles of retinoblastoma or tuberous sclerosis complex via nanopore sequencing and a joint screening framework. Cancer gene therapy (2023)
Junting Wang, Chengyue Zhang, Li Zhang, Hong-Juan Yao, Xiaohong Liu, Yuchen Shi, Junyang Zhao, Xiao-Chen Bo, Hebing Chen, Liang Li
Comparative study on genomic and epigenomic profiles of retinoblastoma or tuberous sclerosis complex via nanopore sequencing and a joint screening framework. Cancer gene therapy 31 (3) (2023)
Zhuo-Xing Shi, Zhi-Chao Chen, Jia-Yong Zhong, Kun-Hua Hu, Ying-Feng Zheng, Ying Chen, Shang-Qian Xie, Xiao-Chen Bo, Feng Luo, Chong Tang, Chuan-Le Xiao, Yi-Zhi Liu
High-throughput and high-accuracy single-cell RNA isoform analysis using PacBio circular consensus sequencing. Nature communications 14 (1) (2023)
Yinan Zhang, Xiaoyao Yin, Chengjun Cui, Kun He, Fei Wang, Jie Chao, Tao Li, Xiaolei Zuo, Ailing Li, Lihua Wang, Na Wang, Xiao-Chen Bo, Chun-Hai Fan
Prime factorization via localized tile assembly in a DNA origami framework. Science advances 9 (13) (2023)
Junting Wang, Chengyue Zhang, Li Zhang, Hong-Juan Yao, Xiaohong Liu, Yuchen Shi, Junyang Zhao, Xiao-Chen Bo, Hebing Chen, Liang Li
Comparative study on genomic and epigenomic profiles of retinoblastoma or tuberous sclerosis complex via nanopore sequencing and a joint screening framework. Cancer gene therapy 31 (3) (2023)
Lianlian Wu, Bowei Yan, Junshan Han, Ruijiang Li, Jian Xiao, Song He, Xiao-Chen Bo
TOXRIC: a comprehensive database of toxicological data and benchmarks. Nucleic acids research (2022)
Yang Ding, Yang Zheng, Junting Wang, Hao Li, Chenghui Zhao, Huan Tao, Yaru Li, Kang Xu, Xin Huang, Ge Gao, Hebing Chen, Xiao-Chen Bo
Recurrent RNA edits in human preimplantation potentially enhance maternal mRNA clearance. Communications biology 5 (1) (2022)
Yang Ding, Yang Zheng, Junting Wang, Hao Li, Chenghui Zhao, Huan Tao, Yaru Li, Kang Xu, Xin Huang, Ge Gao, Hebing Chen, Xiao-Chen Bo
Recurrent RNA edits in human preimplantation potentially enhance maternal mRNA clearance. Communications biology 5 (1) (2022)
Xian Liu, Kaikun Xu, Xin Tao, Ronghua Yin, Guangming Ren, Miao Yu, Changyan Li, Hui Chen, Ke Zhao, Shensi Xiang, Huiying Gao, Xiao-Chen Bo, Cheng Chang, Xiaoming Yang
ExpressVis: a biologist-oriented interactive web server for exploring multi-omics data. Nucleic acids research (2022)
Dongjin Leng, Linyi Zheng, Yuqi Wen, Yunhao Zhang, Lianlian Wu, Jing Wang, Meihong Wang, Zhongnan Zhang, Song He, Xiao-Chen Bo
A benchmark study of deep learning-based multi-omics data fusion methods for cancer. Genome biology 23 (1) (2022)
Jing Wang, Qinglong Zhang, Junshan Han, Yanpeng Zhao, Caiyun Zhao, Bowei Yan, Chong Dai, Lianlian Wu, Yuqi Wen, Yixin Zhang, Dongjin Leng, Zhongming Wang, Xiaoxi Yang, Song He, Xiao-Chen Bo
Computational methods, databases and tools for synthetic lethality prediction. Briefings in bioinformatics 23 (3) (2022)
Dafei Xie, Song He, Lu Han, Lianlian Wu, Hai Huang, Huan Tao, Pingkun Zhou, Xunlong Shi, Hui Bai, Xiao-Chen Bo
Systematic optimization of host-directed therapeutic targets and preclinical validation of repositioned antiviral drugs. Briefings in bioinformatics 23 (3) (2022)
Yang Ding, Yang Zheng, Junting Wang, Hao Li, Chenghui Zhao, Huan Tao, Yaru Li, Kang Xu, Xin Huang, Ge Gao, Hebing Chen, Xiao-Chen Bo
Recurrent RNA edits in human preimplantation potentially enhance maternal mRNA clearance. Communications biology 5 (1) (2022)
Yang Ding, Yang Zheng, Junting Wang, Hao Li, Chenghui Zhao, Huan Tao, Yaru Li, Kang Xu, Xin Huang, Ge Gao, Hebing Chen, Xiao-Chen Bo
Recurrent RNA edits in human preimplantation potentially enhance maternal mRNA clearance. Communications biology 5 (1) (2022)
Yang Ding, Yang Zheng, Junting Wang, Hao Li, Chenghui Zhao, Huan Tao, Yaru Li, Kang Xu, Xin Huang, Ge Gao, Hebing Chen, Xiao-Chen Bo
Recurrent RNA edits in human preimplantation potentially enhance maternal mRNA clearance. Communications biology 5 (1) (2022)
Shuai Jiang, Hao Li, Hao Hong, Guifang Du, Xin Huang, Yu Sun, Junting Wang, Huan Tao, Kang Xu, Cheng Li, Yang Chen, Hebing Chen, Xiao-Chen Bo
Spatial density of open chromatin: an effective metric for the functional characterization of topologically associated domains. Briefings in bioinformatics 22 (3) (2021)
Song He, Xinyu Song, Xiaoxi Yang, Jijun Yu, Yuqi Wen, Lianlian Wu, Bowei Yan, Jiannan Feng, Xiao-Chen Bo
COMSUC: A web server for the identification of consensus molecular subtypes of cancer based on multiple methods and multi-omics data. PLoS computational biology 17 (3) (2021)
Yihua Ye, Yuqi Wen, Zhongnan Zhang, Song He, Xiao-Chen Bo
Drug-Target Interaction Prediction Based on Adversarial Bayesian Personalized Ranking. BioMed research international 2021 (2021)
Lianlian Wu, Yuqi Wen, Dongjin Leng, Qinglong Zhang, Chong Dai, Zhongming Wang, Ziqi Liu, Bowei Yan, Yixin Zhang, Jing Wang, Song He, Xiao-Chen Bo
Machine learning methods, databases and tools for drug combination prediction. Briefings in bioinformatics (2021)
Huan Tao, Hao Li, Kang Xu, Hao Hong, Shuai Jiang, Guifang Du, Junting Wang, Yu Sun, Xin Huang, Yang Ding, Fei Li, Xiaofei Zheng, Hebing Chen, Xiao-Chen Bo
Computational methods for the prediction of chromatin interaction and organization using sequence and epigenomic profiles. Briefings in bioinformatics 22 (5) (2021)
Yang Cao, Wenjian Xu, Chao Niu, Xiao-Chen Bo, Fei Li
NFP: An R Package for Characterizing and Comparing of Annotated Biological Networks. BioMed research international 2017 (2017)