Xin Gao - RankMe

349 papers A* 30A 8B 8C 1Misc 3Journal 266Unranked 32

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	An imbalanced classification framework with serialized neighbor samples commonality extraction and conditional variational latent space optimization. Inf. Process. Manag. Qiangwei Li, Xin Gao, Yuan Li, Xinping Diao, Tianyang Chen, Yukun Lin, Taizhi Wang, Yu Hao
2026	J	`jnl`	ChartVerse: Scaling Chart Reasoning via Reliable Programmatic Synthesis from Scratch. CoRR Zheng Liu, Honglin Lin, Chonghan Qin, Xiaoyang Wang, Xin Gao, Yu Li, Mengzhang Cai, Yun Zhu, Zhanping Zhong, Qizhi Pei, Zhuoshi Pan, Xiaoran Shang, Bin Cui, Conghui He, Wentao Zhang, Lijun Wu
2026	J	`jnl`	Closing the Data Loop: Using OpenDataArena to Engineer Superior Training Datasets. CoRR Xin Gao, Xiaoyang Wang, Yun Zhu, Mengzhang Cai, Conghui He, Lijun Wu
2026	J	`jnl`	GGFlow: A Graph Flow Matching Method with Efficient Optimal Transport. Trans. Mach. Learn. Res. Xiaoyang Hou, Tian Zhu, Milong Ren, Dongbo Bu, Xin Gao, Chunming Zhang, Shiwei Sun
2026	J	`jnl`	MFDL-DDI: An effective deep learning-based framework for predicting drug-drug interactions through multimodal information fusion. Pattern Recognit. Yan Xia, Yazi Li, Shuting Jin, Junlin Xu, Yajie Meng, Leyi Wei, Zilong Zhang, Xin Gao, Feifei Cui
2026	J	`jnl`	MedTri: A Platform for Structured Medical Report Normalization to Enhance Vision-Language Pretraining. CoRR Yuetan Chu, Xinhua Ma, Xinran Jin, Gongning Luo, Xin Gao
2026	J	`jnl`	NoTAC: A Noise-Tolerance Automatic Cleaning Framework for Bone Marrow Karyotyping Data. IEEE J. Biomed. Health Informatics Rihan Huang, Siyuan Chen, Yafei Li, Chunling Zhang, Yilan Zhang, Changchun Yang, Na Li, Jingdong Hu, Ao Xu, Junkai Su, Xin Gao, Huidan Li, Jiatao Lou
2026	J	`jnl`	PepHarmony: a multi-view contrastive learning framework for integrated sequence and structure-based peptide representation. Neural Networks Ruochi Zhang, Haoran Wu, Chang Liu, Huaping Li, Yuqian Wu, Kewei Li, Yifan Wang, Yifan Deng, Jiahui Chen, Fengfeng Zhou, Xin Gao
2026	J	`jnl`	Scientific Image Synthesis: Benchmarking, Methodologies, and Downstream Utility. CoRR Honglin Lin, Chonghan Qin, Zheng Liu, Qizhi Pei, Yu Li, Zhanping Zhong, Xin Gao, Yanfeng Wang, Conghui He, Lijun Wu
2026	J	`jnl`	Unlocking Data Value in Finance: A Study on Distillation and Difficulty-Aware Training. CoRR Chuxue Cao, Honglin Lin, Zhanping Zhong, Xin Gao, Mengzhang Cai, Conghui He, Sirui Han, Lijun Wu
2025	—	`conf`	A Causal-Holistic Adaptive Intervention Network for Tailoring Automated Coronary Artery Disease Diagnosis to Individual Patients. MICCAI (8) Xinghua Ma, Xingyu Qiu, Yuetan Chu, Kuanquan Wang, Zhaowen Qiu, Gongning Luo, Xin Gao
2025	J	`jnl`	A Strategic Coordination Framework of Small LLMs Matches Large LLMs in Data Synthesis. CoRR Xin Gao, Qizhi Pei, Zinan Tang, Yu Li, Honglin Lin, Jiang Wu, Lijun Wu, Conghui He
2025	—	`conf`	A Strategic Coordination Framework of Small LMs Matches Large LMs in Data Synthesis. ACL (1) Xin Gao, Qizhi Pei, Zinan Tang, Yu Li, Honglin Lin, Jiang Wu, Lijun Wu, Conghui He
2025	A*	`conf`	A Trusted Lesion-assessment Network for Interpretable Diagnosis of Coronary Artery Disease in Coronary CT Angiography. AAAI Xinghua Ma, Xinyan Fang, Mingye Zou, Gongning Luo, Wei Wang, Kuanquan Wang, Zhaowen Qiu, Xin Gao, Shuo Li
2025	J	`jnl`	An Inclusive Foundation Model for Generalizable Cytogenetics in Precision Oncology. CoRR Changchun Yang, Weiqian Dai, Yilan Zhang, Siyuan Chen, Jingdong Hu, Junkai Su, Yuxuan Chen, Ao Xu, Na Li, Xin Gao, Yongguo Yu
2025	J	`jnl`	An effective encoding of human medical conditions in disease space provides a versatile framework for deciphering disease associations. Quant. Biol. Tianxin Xu, Yu Li, Xin Gao, Andrey Rzhetsky, Gengjie Jia
2025	A*	`conf`	CFP-Gen: Combinatorial Functional Protein Generation via Diffusion Language Models. ICML Junbo Yin, Chao Zha, Wenjia He, Chencheng Xu, Xin Gao
2025	J	`jnl`	CFP-Gen: Combinatorial Functional Protein Generation via Diffusion Language Models. CoRR Junbo Yin, Chao Zha, Wenjia He, Chencheng Xu, Xin Gao
2025	J	`jnl`	CTPT: Continual Test-time Prompt Tuning for vision-language models. Pattern Recognit. Fan Wang, Zhongyi Han, Xingbo Liu, Yilong Yin, Xin Gao
2025	—	`conf`	CipherBank: Exploring the Boundary of LLM Reasoning Capabilities through Cryptography Challenge. ACL (Findings) Yu Li, Qizhi Pei, Mengyuan Sun, Honglin Lin, Chenlin Ming, Xin Gao, Jiang Wu, Conghui He, Lijun Wu
2025	J	`jnl`	DeepUTF: Locating transcription factor binding sites via interpretable dual-channel encoder-decoder structure. Pattern Recognit. Pengju Ding, Jianxin Wang, Shiyue He, Xin Gao, Xu Yu, Bin Yu
2025	—	`conf`	EG-Net: An Edge-Guided Network for Rigid Registration of Laparoscopic Low-Overlap Point Clouds. MICCAI (10) Wenbin Wu, Yifan Gao, Yixiu Wang, Jiayi Zhang, Yiming Zhao, Xin Gao
2025	J	`jnl`	Evaluating and Mitigating Bias in AI-Based Medical Text Generation. CoRR Xiuying Chen, Tairan Wang, Juexiao Zhou, Zirui Song, Xin Gao, Xiangliang Zhang
2025	J	`jnl`	Evaluating and mitigating bias in AI-based medical text generation. Nat. Comput. Sci. Xiuying Chen, Tairan Wang, Juexiao Zhou, Zirui Song, Xin Gao, Xiangliang Zhang
2025	J	`jnl`	Facial Foundational Model Advances Early Warning of Coronary Artery Disease from Live Videos with DigitalShadow. CoRR Juexiao Zhou, Zhongyi Han, Mankun Xin, Xingwei He, Guotao Wang, Jiaoyan Song, Gongning Luo, Wenjia He, Xintong Li, Yuetan Chu, Juanwen Chen, Bo Wang, Xia Wu, Wenwen Duan, Zhixia Guo, Liyan Bai, Yilin Pan, Xuefei Bi, Lu Liu, Long Feng, Xiaonan He, Xin Gao
2025	J	`jnl`	From pretraining to privacy: federated ultrasound foundation model with self-supervised learning. npj Digit. Medicine Yuncheng Jiang, Chun-Mei Feng, Jinke Ren, Jun Wei, Zixun Zhang, Yiwen Hu, Yunbi Liu, Rui Sun, Xuemei Tang, Juan Du, Xiang Wan, Yong Xu, Bo Du, Xin Gao, Guangyu Wang, Shaohua Kevin Zhou, Shuguang Cui, Zhen Li
2025	J	`jnl`	GaussianEM: Model compositional and conformational heterogeneity using 3D Gaussians. CoRR Bintao He, Yiran Cheng, Hongjia Li, Xiang Gao, Xin Gao, Fa Zhang, Renmin Han
2025	J	`jnl`	Improving Representation of High-Frequency Components for Medical Visual Foundation Models. IEEE Trans. Medical Imaging Yuetan Chu, Yilan Zhang, Zhongyi Han, Changchun Yang, Longxi Zhou, Gongning Luo, Chao Huang, Xin Gao
2025	J	`jnl`	Incorporating Neighboring Protein Features for Enhanced Drug-Target Interaction Prediction: A Comparative Analysis of Similarity-Based Alignment Methods. J. Chem. Inf. Model. Xiaoqing Ru, Chao Zha, Xin Gao
2025	J	`jnl`	Learning Uniform Latent Representation via Alternating Adversarial Network for Multi-View Clustering. IEEE Trans. Emerg. Top. Comput. Intell. Yue Zhang, Weitian Huang, Xiaoxue Zhang, Sirui Yang, Fa Zhang, Xin Gao, Hongmin Cai
2025	J	`jnl`	MSN-DTA: A multi-scale node adaptive graph neural network for interpretable drug-target binding affinity prediction. Knowl. Based Syst. Jianxin Wang, Pengju Ding, Yongxin Zhu, Xin Gao, Xu Yu, Bin Yu
2025	J	`jnl`	MathFusion: Enhancing Mathematic Problem-solving of LLM through Instruction Fusion. CoRR Qizhi Pei, Lijun Wu, Zhuoshi Pan, Yu Li, Honglin Lin, Chenlin Ming, Xin Gao, Conghui He, Rui Yan
2025	—	`conf`	MathFusion: Enhancing Mathematical Problem-solving of LLM through Instruction Fusion. ACL (1) Qizhi Pei, Lijun Wu, Zhuoshi Pan, Yu Li, Honglin Lin, Chenlin Ming, Xin Gao, Conghui He, Rui Yan
2025	J	`jnl`	Meta learning for mutant HLA class I epitope immunogenicity prediction to accelerate cancer clinical immunotherapy. Briefings Bioinform. Long Xu, Qiang Yang, Weihe Dong, Xiaokun Li, Kuanquan Wang, Suyu Dong, Xianyu Zhang, Tiansong Yang, Gongning Luo, Xingyu Liao, Xin Gao, Guohua Wang
2025	—	`conf`	MetaLadder: Ascending Mathematical Solution Quality via Analogical-Problem Reasoning Transfer. EMNLP (Findings) Honglin Lin, Zhuoshi Pan, Qizhi Pei, Xin Gao, Yu Li, Mengzhang Cai, Conghui He, Lijun Wu
2025	A*	`conf`	Middo: Model-Informed Dynamic Data Optimization for Enhanced LLM Fine-Tuning via Closed-Loop Learning. EMNLP Zinan Tang, Xin Gao, Qizhi Pei, Zhuoshi Pan, Mengzhang Cai, Jiang Wu, Conghui He, Lijun Wu
2025	J	`jnl`	Middo: Model-Informed Dynamic Data Optimization for Enhanced LLM Fine-Tuning via Closed-Loop Learning. CoRR Zinan Tang, Xin Gao, Qizhi Pei, Zhuoshi Pan, Mengzhang Cai, Jiang Wu, Conghui He, Lijun Wu
2025	—	`conf`	MockLLM: A Multi-Agent Behavior Collaboration Framework for Online Job Seeking and Recruiting. KDD (2) Hongda Sun, Hongzhan Lin, Haiyu Yan, Yang Song, Xin Gao, Rui Yan
2025	J	`jnl`	MolPrompt: improving multi-modal molecular pre-training with knowledge prompts. Bioinform. Yang Li, Chang Liu, Xin Gao, Guohua Wang
2025	J	`jnl`	New Paradigm for Evaluating Scholar Summaries: A Facet-aware Metric and a Meta-evaluation Benchmark. ACM Trans. Inf. Syst. Tairan Wang, Xiuying Chen, Qingqing Zhu, Taicheng Guo, Shen Gao, Zhiyong Lu, Xin Gao, Xiangliang Zhang
2025	J	`jnl`	OpenDataArena: A Fair and Open Arena for Benchmarking Post-Training Dataset Value. CoRR Mengzhang Cai, Xin Gao, Yu Li, Honglin Lin, Zheng Liu, Zhuoshi Pan, Qizhi Pei, Xiaoran Shang, Mengyuan Sun, Zinan Tang, Xiaoyang Wang, Zhanping Zhong, Yun Zhu, Dahua Lin, Conghui He, Lijun Wu
2025	J	`jnl`	PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids. Briefings Bioinform. Ruochi Zhang, Haoran Wu, Chang Liu, Qian Yang, Yuting Xiu, Kewei Li, Ningning Chen, Yu Wang, Yan Wang, Xin Gao, Fengfeng Zhou
2025	J	`jnl`	Point-annotation supervision for robust 3D pulmonary infection segmentation by CT-based cascading deep learning. Comput. Biol. Medicine Yuetan Chu, Jianpeng Wang, Yaxin Xiong, Yuan Gao, Xin Liu, Gongning Luo, Xin Gao, Mingyan Zhao, Chao Huang, Zhaowen Qiu, Xianglin Meng
2025	J	`jnl`	RPI-GGCN: Prediction of RNA-Protein Interaction Based on Interpretability Gated Graph Convolution Neural Network and Co-Regularized Variational Autoencoders. IEEE Trans. Neural Networks Learn. Syst. Yifei Wang, Pengju Ding, Congjing Wang, Shiyue He, Xin Gao, Bin Yu
2025	J	`jnl`	Revisiting Data Scaling Law for Medical Segmentation. CoRR Yuetan Chu, Zhongyi Han, Gongning Luo, Xin Gao
2025	J	`jnl`	ScaleDiff: Scaling Difficult Problems for Advanced Mathematical Reasoning. CoRR Qizhi Pei, Zhuoshi Pan, Honglin Lin, Xin Gao, Yu Li, Zinan Tang, Conghui He, Rui Yan, Lijun Wu
2025	J	`jnl`	Scaling Code-Assisted Chain-of-Thoughts and Instructions for Model Reasoning. CoRR Honglin Lin, Qizhi Pei, Xin Gao, Zhuoshi Pan, Yu Li, Juntao Li, Conghui He, Lijun Wu
2025	J	`jnl`	SenWave: A Fine-Grained Multi-Language Sentiment Analysis Dataset Sourced from COVID-19 Tweets. CoRR Qiang Yang, Xiuying Chen, Changsheng Ma, Rui Yin, Xin Gao, Xiangliang Zhang
2025	J	`jnl`	Streamline automated biomedical discoveries with agentic bioinformatics. Briefings Bioinform. Juexiao Zhou, Jindong Jiang, Zhongyi Han, Zijian Wang, Xin Gao
2025	J	`jnl`	Structural Prognostic Event Modeling for Multimodal Cancer Survival Analysis. CoRR Yilan Zhang, Li Nanbo, Changchun Yang, Jürgen Schmidhuber, Xin Gao
2025	—	`conf`	Synergistic Multi-Task Learning for a Unified Framework of Intelligent Coronary Artery Disease Reporting and Data System. BIBM Xinghua Ma, Mingye Zou, Zhaowen Qiu, Kuanquan Wang, Gongning Luo, Xin Gao
2025	J	`jnl`	TCRdesign: an antigen-specific generative language model for Briefings Bioinform. Xiaokun Li, Qiang Yang, Long Xu, Weihe Dong, Kuanquan Wang, Suyu Dong, Wei Wang, Gongning Luo, Xianyu Zhang, Tiansong Yang, Xin Gao, Guohua Wang
2025	J	`jnl`	THLANet: A deep learning framework for predicting TCR-pHLA binding in immunotherapy applications. PLoS Comput. Biol. Long Xu, Qiang Yang, Weihe Dong, Xiaokun Li, Kuanquan Wang, Suyu Dong, Gongning Luo, Xianyu Zhang, Tiansong Yang, Xin Gao, Guohua Wang
2024	Misc	`conf`	A Property-Guided Diffusion Model For Generating Molecular Graphs. ICASSP Changsheng Ma, Taicheng Guo, Qiang Yang, Xiuying Chen, Xin Gao, Shangsong Liang, Nitesh V. Chawla, Xiangliang Zhang
2024	J	`jnl`	AI identifies potent inducers of breast cancer stem cell differentiation based on adversarial learning from gene expression data. Briefings Bioinform. Zhongxiao Li, Antonella Napolitano, Monica Fedele, Xin Gao, Francesco Napolitano
2024	—	`conf`	Anatomic-Constrained Medical Image Synthesis via Physiological Density Sampling. MICCAI (11) Yuetan Chu, Changchun Yang, Gongning Luo, Zhaowen Qiu, Xin Gao
2024	J	`jnl`	Can We Treat Noisy Labels as Accurate? CoRR Yuxiang Zheng, Zhongyi Han, Yilong Yin, Xin Gao, Tongliang Liu
2024	A*	`conf`	CausalStock: Deep End-to-end Causal Discovery for News-driven Multi-stock Movement Prediction. NeurIPS Shuqi Li, Yuebo Sun, Yuxin Lin, Xin Gao, Shuo Shang, Rui Yan
2024	J	`jnl`	CausalStock: Deep End-to-end Causal Discovery for News-driven Stock Movement Prediction. CoRR Shuqi Li, Yuebo Sun, Yuxin Lin, Xin Gao, Shuo Shang, Rui Yan
2024	—	`conf`	CharacterEval: A Chinese Benchmark for Role-Playing Conversational Agent Evaluation. ACL (1) Quan Tu, Shilong Fan, Zihang Tian, Tianhao Shen, Shuo Shang, Xin Gao, Rui Yan
2024	J	`jnl`	DMSS: An Attention-Based Deep Learning Model for High-Quality Mass Spectrometry Prediction. Big Data Min. Anal. Yihui Ren, Yu Wang, Wenkai Han, Yikang Huang, Xiaoyang Hou, Chunming Zhang, Dongbo Bu, Xin Gao, Shiwei Sun
2024	J	`jnl`	Deep learning-driven pulmonary arteries and veins segmentation reveals demography-associated pulmonary vasculature anatomy. CoRR Yuetan Chu, Gongning Luo, Longxi Zhou, Shaodong Cao, Guolin Ma, Xianglin Meng, Juexiao Zhou, Changchun Yang, Dexuan Xie, Ricardo Henao, Xigang Xiao, Lianming Wu, Zhaowen Qiu, Xin Gao
2024	J	`jnl`	DrugMGR: a deep bioactive molecule binding method to identify compounds targeting proteins. Bioinform. Xiaokun Li, Qiang Yang, Long Xu, Weihe Dong, Gongning Luo, Wei Wang, Suyu Dong, Kuanquan Wang, Ping Xuan, Xianyu Zhang, Xin Gao
2024	J	`jnl`	Evolutionary Multiobjective Molecule Optimization in an Implicit Chemical Space. J. Chem. Inf. Model. Xin Xia, Yiping Liu, Chunhou Zheng, Xingyi Zhang, Qingwen Wu, Xin Gao, Xiangxiang Zeng, Yansen Su
2024	J	`jnl`	Facilitating Multi-Role and Multi-Behavior Collaboration of Large Language Models for Online Job Seeking and Recruiting. CoRR Hongda Sun, Hongzhan Lin, Haiyu Yan, Chen Zhu, Yang Song, Xin Gao, Shuo Shang, Rui Yan
2024	A*	`conf`	Flexible and Adaptable Summarization via Expertise Separation. SIGIR Xiuying Chen, Mingzhe Li, Shen Gao, Xin Cheng, Qingqing Zhu, Rui Yan, Xin Gao, Xiangliang Zhang
2024	J	`jnl`	Flexible and Adaptable Summarization via Expertise Separation. CoRR Xiuying Chen, Mingzhe Li, Shen Gao, Xin Cheng, Qingqing Zhu, Rui Yan, Xin Gao, Xiangliang Zhang
2024	J	`jnl`	HELM-GPT: Bioinform. Xiaopeng Xu, Chencheng Xu, Wenjia He, Lesong Wei, Haoyang Li, Juexiao Zhou, Ruochi Zhang, Yu Wang, Yuanpeng Xiong, Xin Gao
2024	J	`jnl`	HLAIImaster: a deep learning method with adaptive domain knowledge predicts HLA II neoepitope immunogenic responses. Briefings Bioinform. Qiang Yang, Long Xu, Weihe Dong, Xiaokun Li, Kuanquan Wang, Suyu Dong, Xianyu Zhang, Tiansong Yang, Feng Jiang, Bin Zhang, Gongning Luo, Xin Gao, Guohua Wang
2024	A*	`conf`	Harnessing Multi-Role Capabilities of Large Language Models for Open-Domain Question Answering. WWW Hongda Sun, Yuxuan Liu, Chengwei Wu, Haiyu Yan, Cheng Tai, Xin Gao, Shuo Shang, Rui Yan
2024	J	`jnl`	Harnessing Multi-Role Capabilities of Large Language Models for Open-Domain Question Answering. CoRR Hongda Sun, Yuxuan Liu, Chengwei Wu, Haiyu Yan, Cheng Tai, Xin Gao, Shuo Shang, Rui Yan
2024	J	`jnl`	Improving Molecular Graph Generation with Flow Matching and Optimal Transport. CoRR Xiaoyang Hou, Tian Zhu, Milong Ren, Dongbo Bu, Xin Gao, Chunming Zhang, Shiwei Sun
2024	J	`jnl`	Improving Representation of High-frequency Components for Medical Foundation Models. CoRR Yuetan Chu, Yilan Zhang, Zhongyi Han, Changchun Yang, Longxi Zhou, Gongning Luo, Xin Gao
2024	J	`jnl`	KaryoXpert: An accurate chromosome segmentation and classification framework for karyotyping analysis without training with manually labeled metaphase-image mask annotations. Comput. Biol. Medicine Siyuan Chen, Kaichuang Zhang, Jingdong Hu, Na Li, Ao Xu, Haoyang Li, Juexiao Zhou, Chao Huang, Yongguo Yu, Xin Gao
2024	—	`conf`	Leveraging Professional Radiologists' Expertise to Enhance LLMs' Evaluation for AI-generated Radiology Reports. ICHI Qingqing Zhu, Xiuying Chen, Qiao Jin, Benjamin Hou, Tejas Sudharshan Mathai, Pritam Mukherjee, Xin Gao, Ronald M. Summers, Zhiyong Lu
2024	J	`jnl`	Leveraging Professional Radiologists' Expertise to Enhance LLMs' Evaluation for Radiology Reports. CoRR Qingqing Zhu, Xiuying Chen, Qiao Jin, Benjamin Hou, Tejas Sudharshan Mathai, Pritam Mukherjee, Xin Gao, Ronald M. Summers, Zhiyong Lu
2024	—	`conf`	Masked Thought: Simply Masking Partial Reasoning Steps Can Improve Mathematical Reasoning Learning of Language Models. ACL (1) Changyu Chen, Xiting Wang, Ting-En Lin, Ang Lv, Yuchuan Wu, Xin Gao, Ji-Rong Wen, Rui Yan, Yongbin Li
2024	J	`jnl`	Masked Thought: Simply Masking Partial Reasoning Steps Can Improve Mathematical Reasoning Learning of Language Models. CoRR Changyu Chen, Xiting Wang, Ting-En Lin, Ang Lv, Yuchuan Wu, Xin Gao, Ji-Rong Wen, Rui Yan, Yongbin Li
2024	—	`conf`	NeuralTE: an accurate approach for Transposable Element superfamily classification with multi-feature fusion. BCB Kang Hu, Minghua Xu, Xin Gao, Jianxin Wang
2024	J	`jnl`	Opportunities and challenges for ChatGPT and large language models in biomedicine and health. Briefings Bioinform. Shubo Tian, Qiao Jin, Lana Yeganova, Po-Ting Lai, Qingqing Zhu, Xiuying Chen, Yifan Yang, Qingyu Chen, Won Kim, Donald C. Comeau, Rezarta Islamaj, Aadit Kapoor, Xin Gao, Zhiyong Lu
2024	J	`jnl`	PepHarmony: A Multi-View Contrastive Learning Framework for Integrated Sequence and Structure-Based Peptide Encoding. CoRR Ruochi Zhang, Haoran Wu, Chang Liu, Huaping Li, Yuqian Wu, Kewei Li, Yifan Wang, Yifan Deng, Jiahui Chen, Fengfeng Zhou, Xin Gao
2024	J	`jnl`	Personalized and privacy-preserving federated heterogeneous medical image analysis with PPPML-HMI. Comput. Biol. Medicine Juexiao Zhou, Longxi Zhou, Di Wang, Xiaopeng Xu, Haoyang Li, Yuetan Chu, Wenkai Han, Xin Gao
2024	J	`jnl`	PractiCPP: a deep learning approach tailored for extremely imbalanced datasets in cell-penetrating peptide prediction. Bioinform. Kexin Shi, Yuanpeng Xiong, Yu Wang, Yifan Deng, Wenjia Wang, Bingyi Jing, Xin Gao
2024	J	`jnl`	Privacy-Preserving Federated Foundation Model for Generalist Ultrasound Artificial Intelligence. CoRR Yuncheng Jiang, Chun-Mei Feng, Jinke Ren, Jun Wei, Zixun Zhang, Yiwen Hu, Yunbi Liu, Rui Sun, Xuemei Tang, Juan Du, Xiang Wan, Yong Xu, Bo Du, Xin Gao, Guangyu Wang, Shaohua Zhou, Shuguang Cui, Rick Siow Mong Goh, Yong Liu, Zhen Li
2024	J	`jnl`	ProNet DB: a proteome-wise database for protein surface property representations and RNA-binding profiles. Database J. Biol. Databases Curation Junkang Wei, Jin Xiao, Siyuan Chen, Licheng Zong, Xin Gao, Yu Li
2024	J	`jnl`	Rethinking Scientific Summarization Evaluation: Grounding Explainable Metrics on Facet-aware Benchmark. CoRR Xiuying Chen, Tairan Wang, Qingqing Zhu, Taicheng Guo, Shen Gao, Zhiyong Lu, Xin Gao, Xiangliang Zhang
2024	J	`jnl`	ScholarChemQA: Unveiling the Power of Language Models in Chemical Research Question Answering. CoRR Xiuying Chen, Tairan Wang, Taicheng Guo, Kehan Guo, Juexiao Zhou, Haoyang Li, Mingchen Zhuge, Jürgen Schmidhuber, Xin Gao, Xiangliang Zhang
2024	J	`jnl`	Selecting Query-bag as Pseudo Relevance Feedback for Information-seeking Conversations. CoRR Xiaoqing Zhang, Xiuying Chen, Shen Gao, Shuqi Li, Xin Gao, Ji-Rong Wen, Rui Yan
2024	J	`jnl`	SkinCAP: A Multi-modal Dermatology Dataset Annotated with Rich Medical Captions. CoRR Juexiao Zhou, Liyuan Sun, Yan Xu, Wenbin Liu, Shawn Afvari, Zhongyi Han, Jiaoyan Song, Yongzhi Ji, Xiaonan He, Xin Gao
2024	—	`conf`	Spatio-Temporal Contrast Network for Data-Efficient Learning of Coronary Artery Disease in Coronary CT Angiography. MICCAI (11) Xinghua Ma, Mingye Zou, Xinyan Fang, Yang Liu, Gongning Luo, Wei Wang, Kuanquan Wang, Zhaowen Qiu, Xin Gao, Shuo Li
2024	Misc	`conf`	Think as People: Context-Driven Multi-Image News Captioning with Adaptive Dual Attention. ICASSP Qiang Yang, Xiaodong Wu, Xiuying Chen, Xin Gao, Xiangliang Zhang
2024	J	`jnl`	Unleashing the Power of Generic Segmentation Models: A Simple Baseline for Infrared Small Target Detection. CoRR Mingjin Zhang, Chi Zhang, Qiming Zhang, Yunsong Li, Xin Gao, Jing Zhang
2024	J	`jnl`	Write Summary Step-by-Step: A Pilot Study of Stepwise Summarization. CoRR Xiuying Chen, Shen Gao, Mingzhe Li, Qingqing Zhu, Xin Gao, Xiangliang Zhang
2024	J	`jnl`	Write Summary Step-by-Step: A Pilot Study of Stepwise Summarization. IEEE ACM Trans. Audio Speech Lang. Process. Xiuying Chen, Shen Gao, Mingzhe Li, Qingqing Zhu, Xin Gao, Xiangliang Zhang
2023	—	`conf`	A Distribution Preserving Model for Molecular Graph Generation. BIBM Changsheng Ma, Qiang Yang, Shangsong Liang, Xin Gao
2023	A*	`conf`	A Topic-aware Summarization Framework with Different Modal Side Information. SIGIR Xiuying Chen, Mingzhe Li, Shen Gao, Xin Cheng, Qiang Yang, Qishen Zhang, Xin Gao, Xiangliang Zhang
2023	J	`jnl`	A Topic-aware Summarization Framework with Different Modal Side Information. CoRR Xiuying Chen, Mingzhe Li, Shen Gao, Xin Cheng, Qiang Yang, Qishen Zhang, Xin Gao, Xiangliang Zhang
2023	J	`jnl`	A universal framework for single-cell multi-omics data integration with graph convolutional networks. Briefings Bioinform. Hongli Gao, Bin Zhang, Long Liu, Shan Li, Xin Gao, Bin Yu
2023	J	`jnl`	AB-Gen: Antibody Library Design with Generative Pre-Trained Transformer and Deep Reinforcement Learning. Genom. Proteom. Bioinform. Xiaopeng Xu, Tiantian Xu, Juexiao Zhou, Xingyu Liao, Ruochi Zhang, Yu Wang, Lu Zhang, Xin Gao
2023	J	`jnl`	Audit to Forget: A Unified Method to Revoke Patients' Private Data in Intelligent Healthcare. CoRR Juexiao Zhou, Haoyang Li, Xingyu Liao, Bin Zhang, Wenjia He, Zhongxiao Li, Longxi Zhou, Xin Gao
2023	J	`jnl`	Author Correction: The high-dimensional space of human diseases built from diagnosis records and mapped to genetic loci. Nat. Comput. Sci. Gengjie Jia, Yu Li, Xue Zhong, Kanix Wang, Milton Pividori, Rabab Alomairy, Aniello Esposito, Hatem Ltaief, Chikashi Terao, Masato Akiyama, Koichi Matsuda, David E. Keyes, Hae Kyung Im, Takashi Gojobori, Yoichiro Kamatani, Michiaki Kubo, Nancy J. Cox, James A. Evans, Xin Gao, Andrey Rzhetsky
2023	J	`jnl`	Automated Bioinformatics Analysis via AutoBA. CoRR Juexiao Zhou, Bin Zhang, Xiuying Chen, Haoyang Li, Xiaopeng Xu, Siyuan Chen, Xin Gao
2023	J	`jnl`	CoraL: interpretable contrastive meta-learning for the prediction of cancer-associated ncRNA-encoded small peptides. Briefings Bioinform. Zhongshen Li, Junru Jin, Wenjia He, Wentao Long, Haoqing Yu, Xin Gao, Kenta Nakai, Quan Zou, Leyi Wei
2023	A*	`conf`	Counterfactual Learning on Heterogeneous Graphs with Greedy Perturbation. KDD Qiang Yang, Changsheng Ma, Qiannan Zhang, Xin Gao, Chuxu Zhang, Xiangliang Zhang
2023	J	`jnl`	Cross-Parametric Generative Adversarial Network-Based Magnetic Resonance Image Feature Synthesis for Breast Lesion Classification. IEEE J. Biomed. Health Informatics Ming Fan, Guangyao Huang, Junhong Lou, Xin Gao, Tieyong Zeng, Lihua Li
2023	J	`jnl`	CryoAlign: feature-based method for global and local 3D alignment of EM density maps. CoRR Bintao He, Fa Zhang, Chenjie Feng, Jianyi Yang, Xin Gao, Renmin Han
2023	J	`jnl`	DeepSTF: predicting transcription factor binding sites by interpretable deep neural networks combining sequence and shape. Briefings Bioinform. Pengju Ding, Yifei Wang, Xinyu Zhang, Xin Gao, Guozhu Liu, Bin Yu
2023	J	`jnl`	Drug Synergistic Combinations Predictions via Large-Scale Pre-Training and Graph Structure Learning. CoRR Zhihang Hu, Qinze Yu, Yucheng Guo, Taifeng Wang, Irwin King, Xin Gao, Le Song, Yu Li
2023	J	`jnl`	Efficient automatic segmentation for multi-level pulmonary arteries: The PARSE challenge. CoRR Gongning Luo, Kuanquan Wang, Jun Liu, Shuo Li, Xinjie Liang, Xiangyu Li, Shaowei Gan, Wei Wang, Suyu Dong, Wenyi Wang, Pengxin Yu, Enyou Liu, Hongrong Wei, Na Wang, Jia Guo, Huiqi Li, Zhao Zhang, Ziwei Zhao, Na Gao, Nan An, Ashkan Pakzad, Bojidar Rangelov, Jiaqi Dou, Song Tian, Zeyu Liu, Yi Wang, Ampatishan Sivalingam, Kumaradevan Punithakumar, Zhaowen Qiu, Xin Gao
2023	J	`jnl`	Efficient locality-sensitive hashing over high-dimensional streaming data. Neural Comput. Appl. Hao Wang, Chengcheng Yang, Xiangliang Zhang, Xin Gao
2023	J	`jnl`	End-to-end interpretable disease-gene association prediction. Briefings Bioinform. Yang Li, Zihou Guo, Keqi Wang, Xin Gao, Guohua Wang
2023	J	`jnl`	Follow the Timeline! Generating Abstractive and Extractive Timeline Summary in Chronological Order. CoRR Xiuying Chen, Mingzhe Li, Shen Gao, Zhangming Chan, Dongyan Zhao, Xin Gao, Xiangliang Zhang, Rui Yan
2023	J	`jnl`	Follow the Timeline! Generating an Abstractive and Extractive Timeline Summary in Chronological Order. ACM Trans. Inf. Syst. Xiuying Chen, Mingzhe Li, Shen Gao, Zhangming Chan, Dongyan Zhao, Xin Gao, Xiangliang Zhang, Rui Yan
2023	J	`jnl`	Graph Neural Network and Spatiotemporal Transformer Attention for 3D Video Object Detection From Point Clouds. IEEE Trans. Pattern Anal. Mach. Intell. Junbo Yin, Jianbing Shen, Xin Gao, David J. Crandall, Ruigang Yang
2023	—	`conf`	Improving the Robustness of Summarization Systems with Dual Augmentation. ACL (1) Xiuying Chen, Guodong Long, Chongyang Tao, Mingzhe Li, Xin Gao, Chengqi Zhang, Xiangliang Zhang
2023	J	`jnl`	Improving the Robustness of Summarization Systems with Dual Augmentation. CoRR Xiuying Chen, Guodong Long, Chongyang Tao, Mingzhe Li, Xin Gao, Chengqi Zhang, Xiangliang Zhang
2023	A	`conf`	Interpretable Research Interest Shift Detection with Temporal Heterogeneous Graphs. WSDM Qiang Yang, Changsheng Ma, Qiannan Zhang, Xin Gao, Chuxu Zhang, Xiangliang Zhang
2023	B	`conf`	Learn to Encode Heterogeneous Data: A Heterogeneous Aware Network for Multi-Future Trajectory Prediction. IJCNN Zheng Yang, Bing Han, Weiming Chen, Xin Gao
2023	A*	`conf`	Learning towards Selective Data Augmentation for Dialogue Generation. AAAI Xiuying Chen, Mingzhe Li, Jiayi Zhang, Xiaoqiang Xia, Chen Wei, Jianwei Cui, Xin Gao, Xiangliang Zhang, Rui Yan
2023	J	`jnl`	Learning towards Selective Data Augmentation for Dialogue Generation. CoRR Xiuying Chen, Mingzhe Li, Jiayi Zhang, Xiaoqiang Xia, Chen Wei, Jianwei Cui, Xin Gao, Xiangliang Zhang, Rui Yan
2023	J	`jnl`	MMCL-CDR: enhancing cancer drug response prediction with multi-omics and morphology images contrastive representation learning. Bioinform. Yang Li, Zihou Guo, Xin Gao, Guohua Wang
2023	J	`jnl`	MULGA, a unified multi-view graph autoencoder-based approach for identifying drug-protein interaction and drug repositioning. Bioinform. Jiani Ma, Chen Li, Yiwen Zhang, Zhikang Wang, Shanshan Li, Yuming Guo, Lin Zhang, Hui Liu, Xin Gao, Jiangning Song
2023	J	`jnl`	Multi-modality attribute learning-based method for drug-protein interaction prediction based on deep neural network. Briefings Bioinform. Weihe Dong, Qiang Yang, Jian Wang, Long Xu, Xiaokun Li, Gongning Luo, Xin Gao
2023	J	`jnl`	Opportunities and Challenges for ChatGPT and Large Language Models in Biomedicine and Health. CoRR Shubo Tian, Qiao Jin, Lana Yeganova, Po-Ting Lai, Qingqing Zhu, Xiuying Chen, Yifan Yang, Qingyu Chen, Won Kim, Donald C. Comeau, Rezarta Islamaj, Aadit Kapoor, Xin Gao, Zhiyong Lu
2023	J	`jnl`	Path to Medical AGI: Unify Domain-specific Medical LLMs with the Lowest Cost. CoRR Juexiao Zhou, Xiuying Chen, Xin Gao
2023	J	`jnl`	PepLand: a large-scale pre-trained peptide representation model for a comprehensive landscape of both canonical and non-canonical amino acids. CoRR Ruochi Zhang, Haoran Wu, Yuting Xiu, Kewei Li, Ningning Chen, Yu Wang, Yan Wang, Xin Gao, Fengfeng Zhou
2023	J	`jnl`	Personalized and privacy-preserving federated heterogeneous medical image analysis with PPPML-HMI. CoRR Juexiao Zhou, Longxi Zhou, Di Wang, Xiaopeng Xu, Haoyang Li, Yuetan Chu, Wenkai Han, Xin Gao
2023	J	`jnl`	RPI-CapsuleGAN: Predicting RNA-protein interactions through an interpretable generative adversarial capsule network. Pattern Recognit. Yifei Wang, Xue Wang, Cheng Chen, Hongli Gao, Adil Salhi, Xin Gao, Bin Yu
2023	J	`jnl`	S-leaping: an efficient downsampling method for large high-throughput sequencing data. Bioinform. Hiroyuki Kuwahara, Xin Gao
2023	J	`jnl`	SkinGPT: A Dermatology Diagnostic System with Vision Large Language Model. CoRR Juexiao Zhou, Xin Gao
2023	J	`jnl`	Spatom: a graph neural network for structure-based protein-protein interaction site prediction. Briefings Bioinform. Haonan Wu, Jiyun Han, Shizhuo Zhang, Xin Gao, Chaozhou Mou, Juntao Liu
2023	J	`jnl`	Spectrum-irrelevant fine-grained representation for visible-infrared person re-identification. Comput. Vis. Image Underst. Jiahao Gong, Sanyuan Zhao, Kin-Man Lam, Xin Gao, Jianbing Shen
2023	J	`jnl`	The high-dimensional space of human diseases built from diagnosis records and mapped to genetic loci. Nat. Comput. Sci. Gengjie Jia, Yu Li, Xue Zhong, Kanix Wang, Milton Pividori, Rabab Alomairy, Aniello Esposito, Hatem Ltaief, Chikashi Terao, Masato Akiyama, Koichi Matsuda, David E. Keyes, Hae Kyung Im, Takashi Gojobori, Yoichiro Kamatani, Michiaki Kubo, Nancy J. Cox, James A. Evans, Xin Gao, Andrey Rzhetsky
2023	—	`conf`	Topology-Preserving Computed Tomography Super-Resolution Based on Dual-Stream Diffusion Model. MICCAI (10) Yuetan Chu, Longxi Zhou, Gongning Luo, Zhaowen Qiu, Xin Gao
2023	A*	`conf`	Towards Efficient and Domain-Agnostic Evasion Attack with High-Dimensional Categorical Inputs. AAAI Hongyan Bao, Yufei Han, Yujun Zhou, Xin Gao, Xiangliang Zhang
2023	J	`jnl`	TriNet: A tri-fusion neural network for the prediction of anticancer and antimicrobial peptides. Patterns Wanyun Zhou, Yufei Liu, Yingxin Li, Siqi Kong, Weilin Wang, Boyun Ding, Jiyun Han, Chaozhou Mou, Xin Gao, Juntao Liu
2023	J	`jnl`	miProBERT: identification of microRNA promoters based on the pre-trained model BERT. Briefings Bioinform. Xin Wang, Xin Gao, Guohua Wang, Dan Li
2023	J	`jnl`	scBKAP: A Clustering Model for Single-Cell RNA-Seq Data Based on Bisecting K-Means. IEEE ACM Trans. Comput. Biol. Bioinform. Xiaolin Wang, Hongli Gao, Ren Qi, Ruiqing Zheng, Xin Gao, Bin Yu
2022	J	`jnl`	A Framework for Deep Multitask Learning With Multiparametric Magnetic Resonance Imaging for the Joint Prediction of Histological Characteristics in Breast Cancer. IEEE J. Biomed. Health Informatics Ming Fan, Chengcheng Yuan, Guangyao Huang, Maosheng Xu, Shiwei Wang, Xin Gao, Lihua Li
2022	J	`jnl`	Accelerating bioactive peptide discovery via mutual information-based meta-learning. Briefings Bioinform. Wenjia He, Yi Jiang, Junru Jin, Zhongshen Li, Jiaojiao Zhao, Balachandran Manavalan, Ran Su, Xin Gao, Leyi Wei
2022	B	`conf`	AdvCat: Domain-Agnostic Robustness Assessment for Cybersecurity-Critical Applications with Categorical Inputs. IEEE Big Data Helene Orsini, Hongyan Bao, Yujun Zhou, Xiangrui Xu, Yufei Han, Longyang Yi, Wei Wang, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	AdvCat: Domain-Agnostic Robustness Assessment for Cybersecurity-Critical Applications with Categorical Inputs. CoRR Helene Orsini, Hongyan Bao, Yujun Zhou, Xiangrui Xu, Yufei Han, Longyang Yi, Wei Wang, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	An interpretable deep learning workflow for discovering subvisual abnormalities in CT scans of COVID-19 inpatients and survivors. Nat. Mach. Intell. Longxi Zhou, Xianglin Meng, Yuxin Huang, Kai Kang, Juexiao Zhou, Yuetan Chu, Haoyang Li, Dexuan Xie, Jiannan Zhang, Weizhen Yang, Na Bai, Yi Zhao, Mingyan Zhao, Guohua Wang, Lawrence Carin, Xigang Xiao, Kaijiang Yu, Zhaowen Qiu, Xin Gao
2022	J	`jnl`	Annotating TSSs in Multiple Cell Types Based on DNA Sequence and RNA-seq Data via DeeReCT-TSS. Genom. Proteom. Bioinform. Juexiao Zhou, Bin Zhang, Haoyang Li, Longxi Zhou, Zhongxiao Li, Yongkang Long, Wenkai Han, Meng-Ran Wang, Huanhuan Cui, Jingjing Li, Wei Chen, Xin Gao
2022	J	`jnl`	BlockPolish: accurate polishing of long-read assembly via block divide-and-conquer. Briefings Bioinform. Neng Huang, Fan Nie, Peng Ni, Xin Gao, Feng Luo, Jianxin Wang
2022	A	`conf`	DEMO: Disentangled Molecular Graph Generation via an Invertible Flow Model. CIKM Changsheng Ma, Qiang Yang, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	DeeReCT-APA: Prediction of Alternative Polyadenylation Site Usage Through Deep Learning. Genom. Proteom. Bioinform. Zhongxiao Li, Yisheng Li, Bin Zhang, Yu Li, Yongkang Long, Juexiao Zhou, Xudong Zou, Min Zhang, Yuhui Hu, Wei Chen, Xin Gao
2022	J	`jnl`	Deep learning identifies and quantifies recombination hotspot determinants. Bioinform. Yu Li, Siyuan Chen, Trisevgeni Rapakoulia, Hiroyuki Kuwahara, Kevin Y. Yip, Xin Gao
2022	J	`jnl`	Discovering trends and hotspots of biosafety and biosecurity research via machine learning. Briefings Bioinform. Renchu Guan, Haoyu Pang, Yanchun Liang, Zhongjun Shao, Xin Gao, Dong Xu, Xiaoyue Feng
2022	J	`jnl`	Graph Neural Network and Spatiotemporal Transformer Attention for 3D Video Object Detection from Point Clouds. CoRR Junbo Yin, Jianbing Shen, Xin Gao, David Crandall, Ruigang Yang
2022	J	`jnl`	Identification of DNA modification sites based on elastic net and bidirectional gated recurrent unit with convolutional neural network. Biomed. Signal Process. Control. Bin Yu, Yaqun Zhang, Xue Wang, Hongli Gao, Jianqiang Sun, Xin Gao
2022	J	`jnl`	Impact of computational approaches in the fight against COVID-19: an AI guided review of 17 000 studies. Briefings Bioinform. Francesco Napolitano, Xiaopeng Xu, Xin Gao
2022	J	`jnl`	NASMDR: a framework for miRNA-drug resistance prediction using efficient neural architecture search and graph isomorphism networks. Briefings Bioinform. Kai Zheng, Haochen Zhao, Qichang Zhao, Bin Wang, Xin Gao, Jianxin Wang
2022	J	`jnl`	Pedestrian Detection with Multi-View Convolution Fusion Algorithm. Entropy Yuhong Liu, Chunyan Han, Lin Zhang, Xin Gao
2022	J	`jnl`	Person Re-Identification by Context-Aware Part Attention and Multi-Head Collaborative Learning. IEEE Trans. Inf. Forensics Secur. Dongming Wu, Mang Ye, Gaojie Lin, Xin Gao, Jianbing Shen
2022	J	`jnl`	PointSite: A Point Cloud Segmentation Tool for Identification of Protein Ligand Binding Atoms. J. Chem. Inf. Model. Xu Yan, Yingfeng Lu, Zhen Li, Qing Wei, Xin Gao, Sheng Wang, Song Wu, Shuguang Cui
2022	J	`jnl`	Preventing Sensitive Information Leakage From Mobile Sensor Signals via Integrative Transformation. IEEE Trans. Mob. Comput. Dalin Zhang, Lina Yao, Kaixuan Chen, Zheng Yang, Xin Gao, Yunhao Liu
2022	J	`jnl`	Prolificacy Assessment of Spermatozoan via State-of-the-Art Deep Learning Frameworks. IEEE Access Satish Chandra, Mahendra Kumar Gourisaria, Harshvardhan GM, Debanjan Konar, Xin Gao, Tianyang Wang, Min Xu
2022	J	`jnl`	Protein-RNA interaction prediction with deep learning: structure matters. Briefings Bioinform. Junkang Wei, Siyuan Chen, Licheng Zong, Xin Gao, Yu Li
2022	J	`jnl`	RBP-TSTL is a two-stage transfer learning framework for genome-scale prediction of RNA-binding proteins. Briefings Bioinform. Xinxin Peng, Xiaoyu Wang, Yuming Guo, Zongyuan Ge, Fuyi Li, Xin Gao, Jiangning Song
2022	J	`jnl`	RPI-MDLStack: Predicting RNA-protein interactions through deep learning with stacking strategy and LASSO. Appl. Soft Comput. Bin Yu, Xue Wang, Yaqun Zhang, Hongli Gao, Yifei Wang, Yushuang Liu, Xin Gao
2022	—	`conf`	Rolling Bearing Fault Diagnosis Based on Deep Adversarial Networks with Convolutional Layer and Wasserstein Distance. ICAC Xin Gao, Rui Yang, Eng Gee Lim
2022	J	`jnl`	SD2: spatially resolved transcriptomics deconvolution through integration of dropout and spatial information. Bioinform. Haoyang Li, Hanmin Li, Juexiao Zhou, Xin Gao
2022	A*	`conf`	Scientific Paper Extractive Summarization Enhanced by Citation Graphs. EMNLP Xiuying Chen, Mingzhe Li, Shen Gao, Rui Yan, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	Scientific Paper Extractive Summarization Enhanced by Citation Graphs. CoRR Xiuying Chen, Mingzhe Li, Shen Gao, Rui Yan, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	Self-supervised contrastive learning for integrative single cell RNA-seq data analysis. Briefings Bioinform. Wenkai Han, Yuqi Cheng, Jiayang Chen, Huawen Zhong, Zhihang Hu, Siyuan Chen, Licheng Zong, Liang Hong, Ting-Fung Chan, Irwin King, Xin Gao, Yu Li
2022	J	`jnl`	Special issue on computational biology and bioinformatic applications to the COVID-19 pandemic. Quant. Biol. Francesco Napolitano, Xin Gao
2022	J	`jnl`	Supervised graph co-contrastive learning for drug-target interaction prediction. Bioinform. Yang Li, Guanyu Qiao, Xin Gao, Guohua Wang
2022	A*	`conf`	Target-aware Abstractive Related Work Generation with Contrastive Learning. SIGIR Xiuying Chen, Hind Alamro, Mingzhe Li, Shen Gao, Rui Yan, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	Target-aware Abstractive Related Work Generation with Contrastive Learning. CoRR Xiuying Chen, Hind Alamro, Mingzhe Li, Shen Gao, Rui Yan, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	Towards Efficient and Domain-Agnostic Evasion Attack with High-dimensional Categorical Inputs. CoRR Hongyan Bao, Yufei Han, Yujun Zhou, Xin Gao, Xiangliang Zhang
2022	A*	`conf`	Towards Improving Faithfulness in Abstractive Summarization. NeurIPS Xiuying Chen, Mingzhe Li, Xin Gao, Xiangliang Zhang
2022	J	`jnl`	Towards Improving Faithfulness in Abstractive Summarization. CoRR Xiuying Chen, Mingzhe Li, Xin Gao, Xiangliang Zhang
2022	B	`conf`	Unsupervised Multi-Task Learning for 3D Subtomogram Image Alignment, Clustering and Segmentation. ICIP Haoyi Zhu, Chuting Wang, Yuanxin Wang, Zhaoxin Fan, Mostofa Rafid Uddin, Xin Gao, Jing Zhang, Xiangrui Zeng, Min Xu
2022	J	`jnl`	msRepDB: a comprehensive repetitive sequence database of over 80 000 species. Nucleic Acids Res. Xingyu Liao, Kang Hu, Adil Salhi, You Zou, Jianxin Wang, Xin Gao
2021	J	`jnl`	A Data-Centric Framework for Composable NLP Workflows. CoRR Zhengzhong Liu, Guanxiong Ding, Avinash Bukkittu, Mansi Gupta, Pengzhi Gao, Atif Ahmed, Shikun Zhang, Xin Gao, Swapnil Singhavi, Linwei Li, Wei Wei, Zecong Hu, Haoran Shi, Xiaodan Liang, Teruko Mitamura, Eric P. Xing, Zhiting Hu
2021	J	`jnl`	A novel constrained reconstruction model towards high-resolution subtomogram averaging. Bioinform. Renmin Han, Lun Li, Peng Yang, Fa Zhang, Xin Gao
2021	J	`jnl`	Analysis of the effects of related fingerprints on molecular similarity using an eigenvalue entropy approach. J. Cheminformatics Hiroyuki Kuwahara, Xin Gao
2021	J	`jnl`	DTi2Vec: Drug-target interaction prediction using network embedding and ensemble learning. J. Cheminformatics Maha A. Thafar, Rawan S. Olayan, Somayah Albaradei, Vladimir B. Bajic, Takashi Gojobori, Magbubah Essack, Xin Gao
2021	J	`jnl`	Identifying Novel Drug Targets by iDTPnd: A Case Study of Kinase Inhibitors. Genom. Proteom. Bioinform. Hammad Naveed, Corinna Reglin, Thomas Schubert, Xin Gao, Stefan T. Arold, Michael L. Maitland
2021	J	`jnl`	Introduction of Progress in Education under Recent Technology Revolution. Mob. Networks Appl. Chengyan Li, Xin Gao, Qingquan Sun
2021	J	`jnl`	NeuralPolish: a novel Nanopore polishing method based on alignment matrix construction and orthogonal Bi-GRU Networks. Bioinform. Neng Huang, Fan Nie, Peng Ni, Feng Luo, Xin Gao, Jianxin Wang
2021	J	`jnl`	Protein-RNA interaction prediction with deep learning: Structure matters. CoRR Junkang Wei, Siyuan Chen, Licheng Zong, Xin Gao, Yu Li
2021	J	`jnl`	QAUST: Protein Function Prediction Using Structure Similarity, Protein Interaction, and Functional Motifs. Genom. Proteom. Bioinform. Fatima Zohra Smaili, Shuye Tian, Ambrish Roy, Meshari Alazmi, Stefan T. Arold, Srayanta Mukherjee, P. Scott Hefty, Wei Chen, Xin Gao
2021	J	`jnl`	ReFeaFi: Genome-wide prediction of regulatory elements driving transcription initiation. PLoS Comput. Biol. Ramzan Umarov, Yu Li, Takahiro Arakawa, Satoshi Takizawa, Xin Gao, Erik Arner
2021	J	`jnl`	Robust and ultrafast fiducial marker correspondence in electron tomography by a two-stage algorithm considering local constraints. Bioinform. Renmin Han, Guojun Li, Xin Gao
2021	J	`jnl`	Semantic similarity and machine learning with ontologies. Briefings Bioinform. Maxat Kulmanov, Fatima Zohra Smaili, Xin Gao, Robert Hoehndorf
2021	J	`jnl`	Stable maintenance of hidden switches as a strategy to increase the gene expression stability. Nat. Comput. Sci. Hiroyuki Kuwahara, Xin Gao
2021	J	`jnl`	WenLan 2.0: Make AI Imagine via a Multimodal Foundation Model. CoRR Nanyi Fei, Zhiwu Lu, Yizhao Gao, Guoxing Yang, Yuqi Huo, Jingyuan Wen, Haoyu Lu, Ruihua Song, Xin Gao, Tao Xiang, Hao Sun, Ji-Rong Wen
2020	—	`conf`	A Data-Centric Framework for Composable NLP Workflows. EMNLP (Demos) Zhengzhong Liu, Guanxiong Ding, Avinash Bukkittu, Mansi Gupta, Pengzhi Gao, Atif Ahmed, Shikun Zhang, Xin Gao, Swapnil Singhavi, Linwei Li, Wei Wei, Zecong Hu, Haoran Shi, Xiaodan Liang, Teruko Mitamura, Eric P. Xing, Zhiting Hu
2020	J	`jnl`	A Rapid, Accurate and Machine-Agnostic Segmentation and Quantification Method for CT-Based COVID-19 Diagnosis. IEEE Trans. Medical Imaging Longxi Zhou, Zhongxiao Li, Juexiao Zhou, Haoyang Li, Yupeng Chen, Yuxin Huang, Dexuan Xie, Lintao Zhao, Ming Fan, Shahrukh Hashmi, Faisal Abdelkareem, Riham Eiada, Xigang Xiao, Lihua Li, Zhaowen Qiu, Xin Gao
2020	J	`jnl`	A Siamese neural network model for the prioritization of metabolic disorders by integrating real and simulated data. Bioinform. Gian Marco Messa, Francesco Napolitano, Sarah H. Elsea, Diego di Bernardo, Xin Gao
2020	J	`jnl`	A unified framework for packing deformable and non-deformable subcellular structures in crowded cryo-electron tomogram simulation. BMC Bioinform. Sinuo Liu, Xiaojuan Ban, Xiangrui Zeng, Fengnian Zhao, Yuan Gao, Wenjie Wu, Hongpan Zhang, Feiyang Chen, Thomas Hall, Xin Gao, Min Xu
2020	J	`jnl`	A unified linear convergence analysis of k-SVD. Memetic Comput. Zhiqiang Xu, Yiping Ke, Xin Cao, Chunlai Zhou, Pengfei Wei, Xin Gao
2020	J	`jnl`	Approximate Kernel Selection via Matrix Approximation. IEEE Trans. Neural Networks Learn. Syst. Lizhong Ding, Shizhong Liao, Yong Liu, Li Liu, Fan Zhu, Yazhou Yao, Ling Shao, Xin Gao
2020	J	`jnl`	AttPNet: Attention-Based Deep Neural Network for 3D Point Set Analysis. Sensors Yufeng Yang, Yixiao Ma, Jing Zhang, Xin Gao, Min Xu
2020	J	`jnl`	Automated Counting of Colony Forming Units Using Deep Transfer Learning From a Model for Congested Scenes Analysis. IEEE Access Somayah Albaradei, Francesco Napolitano, Mahmut Uludag, Maha A. Thafar, Sara Napolitano, Magbubah Essack, Vladimir B. Bajic, Xin Gao
2020	—	`conf`	Automatic and Interpretable Model for Periodontitis Diagnosis in Panoramic Radiographs. MICCAI (2) Haoyang Li, Juexiao Zhou, Yi Zhou, Jie Chen, Feng Gao, Ying Xu, Xin Gao
2020	J	`jnl`	DTiGEMS+: drug-target interaction prediction using graph embedding, graph mining, and similarity-based techniques. J. Cheminformatics Maha A. Thafar, Rawan S. Olayan, Haitham Ashoor, Somayah Albaradei, Vladimir B. Bajic, Xin Gao, Takashi Gojobori, Magbubah Essack
2020	J	`jnl`	DeepSimulator1.5: a more powerful, quicker and lighter simulator for Nanopore sequencing. Bioinform. Yu Li, Sheng Wang, Chongwei Bi, Zhaowen Qiu, Mo Li, Xin Gao
2020	J	`jnl`	Few-shot learning for classification of novel macromolecular structures in cryo-electron tomograms. PLoS Comput. Biol. Ran Li, Liangyong Yu, Bo Zhou, Xiangrui Zeng, Zhenyu Wang, Xiaoyan Yang, Jing Zhang, Xin Gao, Rui Jiang, Min Xu
2020	J	`jnl`	Formal axioms in biomedical ontologies improve analysis and interpretation of associated data. Bioinform. Fatima Zohra Smaili, Xin Gao, Robert Hoehndorf
2020	J	`jnl`	Guest Editorial for Selected Papers from BIOKDD 2018 and DMBIH 2018. IEEE ACM Trans. Comput. Biol. Bioinform. Da Yan, Xin Gao, Samah J. Fodeh, Jake Y. Chen
2020	J	`jnl`	Impact of data preprocessing on cell-type clustering based on single-cell RNA-seq data. BMC Bioinform. Chunxiang Wang, Xin Gao, Juntao Liu
2020	J	`jnl`	Joint Prediction of Breast Cancer Histological Grade and Ki-67 Expression Level Based on DCE-MRI and DWI Radiomics. IEEE J. Biomed. Health Informatics Ming Fan, Wei Yuan, Wenrui Zhao, Maosheng Xu, Shiwei Wang, Xin Gao, Lihua Li
2020	A*	`conf`	Learning To Stop While Learning To Predict. ICML Xinshi Chen, Hanjun Dai, Yu Li, Xin Gao, Le Song
2020	J	`jnl`	Learning to Stop While Learning to Predict. CoRR Xinshi Chen, Hanjun Dai, Yu Li, Xin Gao, Le Song
2020	J	`jnl`	Long-Range Binocular Vision Target Geolocation Using Handheld Electronic Devices in Outdoor Environment. IEEE Trans. Image Process. Fang Deng, Lele Zhang, Feng Gao, Huangbin Qiu, Xin Gao, Jie Chen
2020	J	`jnl`	Multichannel Deep Attention Neural Networks for the Classification of Autism Spectrum Disorder Using Neuroimaging and Personal Characteristic Data. Complex. Ke Niu, Jiayang Guo, Yijie Pan, Xin Gao, Xueping Peng, Ning Li, Hailong Li
2020	J	`jnl`	Novel algorithms for efficient subsequence searching and mapping in nanopore raw signals towards targeted sequencing. Bioinform. Renmin Han, Sheng Wang, Xin Gao
2020	J	`jnl`	PUB-SalNet: A Pre-Trained Unsupervised Self-Aware Backpropagation Network for Biomedical Salient Segmentation. Algorithms Feiyang Chen, Ying Jiang, Xiangrui Zeng, Jing Zhang, Xin Gao, Min Xu
2020	J	`jnl`	Poly(A)-DG: A deep-learning-based domain generalization method to identify cross-species Poly(A) signal without prior knowledge from target species. PLoS Comput. Biol. Yumin Zheng, Haohan Wang, Yang Zhang, Xin Gao, Eric P. Xing, Min Xu
2020	J	`jnl`	Proteome-level assessment of origin, prevalence and function of leucine-aspartic acid (LD) motifs. Bioinform. Tanvir Alam, Meshari Alazmi, Rayan Naser, Franceline Huser, Afaque A. Momin, Veronica Astro, Seungbeom Hong, Katarzyna W. Walkiewicz, Christian G. Canlas, Raphaël Huser, Amal J. Ali, Jasmeen Merzaban, Antonio Adamo, Mariusz Jaremko, Lukasz Jaremko, Vladimir B. Bajic, Xin Gao, Stefan T. Arold
2020	A*	`conf`	RNA Secondary Structure Prediction By Learning Unrolled Algorithms. ICLR Xinshi Chen, Yu Li, Ramzan Umarov, Xin Gao, Le Song
2020	J	`jnl`	RNA Secondary Structure Prediction By Learning Unrolled Algorithms. CoRR Xinshi Chen, Yu Li, Ramzan Umarov, Xin Gao, Le Song
2020	J	`jnl`	RepAHR: an improved approach for de novo repeat identification by assembly of the high-frequency reads. BMC Bioinform. Xingyu Liao, Xin Gao, Xiankai Zhang, Fang-Xiang Wu, Jianxin Wang
2020	J	`jnl`	SenWave: Monitoring the Global Sentiments under the COVID-19 Pandemic. CoRR Qiang Yang, Hind Alamro, Somayah Albaradei, Adil Salhi, Xiaoting Lv, Changsheng Ma, Manal Alshehri, Inji Jaber, Faroug Tifratene, Wei Wang, Takashi Gojobori, Carlos M. Duarte, Xin Gao, Xiangliang Zhang
2020	J	`jnl`	Spark-based parallel calculation of 3D fourier shell correlation for macromolecule structure local resolution estimation. BMC Bioinform. Yongchun Lü, Xiangrui Zeng, Xinhui Tian, Xiao Shi, Hui Wang, Xiaohui Zheng, Xiaodong Liu, Xiaofang Zhao, Xin Gao, Min Xu
2020	J	`jnl`	gep2pep: a bioconductor package for the creation and analysis of pathway-based expression profiles. Bioinform. Francesco Napolitano, Diego Carrella, Xin Gao, Diego di Bernardo
2020	J	`jnl`	iPAC: a genome-guided assembler of isoforms via phasing and combing paths. Bioinform. Ting Yu, Juntao Liu, Xin Gao, Guojun Li
2019	J	`jnl`	A joint method for marker-free alignment of tilt series in electron tomography. Bioinform. Renmin Han, Zhipeng Bao, Xiangrui Zeng, Tongxin Niu, Fa Zhang, Min Xu, Xin Gao
2019	J	`jnl`	Accelerating flash calculation through deep learning methods. J. Comput. Phys. Yu Li, Tao Zhang, Shuyu Sun, Xin Gao
2019	A*	`conf`	Approximate Kernel Selection with Strong Approximate Consistency. AAAI Lizhong Ding, Yong Liu, Shizhong Liao, Yu Li, Peng Yang, Yijie Pan, Chao Huang, Ling Shao, Xin Gao
2019	J	`jnl`	AuTom-dualx: a toolkit for fully automatic fiducial marker-based alignment of dual-axis tilt series with simultaneous reconstruction. Bioinform. Renmin Han, Xiaohua Wan, Lun Li, Albert F. Lawrence, Peng Yang, Yu Li, Sheng Wang, Fei Sun, Zhiyong Liu, Xin Gao, Fa Zhang
2019	A*	`conf`	Confidence Weighted Multitask Learning. AAAI Peng Yang, Peilin Zhao, Jiayu Zhou, Xin Gao
2019	J	`jnl`	DeeReCT-PolyA: a robust and generic deep learning method for PAS identification. Bioinform. Zhihao Xia, Yu Li, Bin Zhang, Zhongxiao Li, Yuhui Hu, Wei Chen, Xin Gao
2019	J	`jnl`	Deep Learning Deepens the Analysis of Alternative Splicing. Genom. Proteom. Bioinform. Xudong Zou, Xin Gao, Wei Chen
2019	J	`jnl`	Deep learning in bioinformatics: introduction, application, and perspective in big data era. CoRR Yu Li, Chao Huang, Lizhong Ding, Zhongxiao Li, Yijie Pan, Xin Gao
2019	—	`conf`	Domain Randomization for Macromolecule Structure Classification and Segmentation in Electron Cyro-tomograms. BIBM Chengqian Che, Zhou Xian, Xiangrui Zeng, Xin Gao, Min Xu
2019	J	`jnl`	Fine-grained alignment of cryo-electron subtomograms based on MPI parallel optimization. BMC Bioinform. Yongchun Lü, Xiangrui Zeng, Xiaofang Zhao, Shirui Li, Hua Li, Xin Gao, Min Xu
2019	A*	`conf`	GCN-MF: Disease-Gene Association Identification By Graph Convolutional Networks and Matrix Factorization. KDD Peng Han, Peng Yang, Peilin Zhao, Shuo Shang, Yong Liu, Jiayu Zhou, Xin Gao, Panos Kalnis
2019	J	`jnl`	In Memory of Vladimir B. Bajic (1952-2019). Genom. Proteom. Bioinform. Zhang Zhang, Jun Yu, Frank Eisenhaber, Xin Gao, Takashi Gojobori
2019	A*	`conf`	Linear Kernel Tests via Empirical Likelihood for High-Dimensional Data. AAAI Lizhong Ding, Zhi Liu, Yu Li, Shizhong Liao, Yong Liu, Peng Yang, Ge Yu, Ling Shao, Xin Gao
2019	—	`conf`	Multimodal Machine Learning for Automated ICD Coding. MLHC Keyang Xu, Mike Lam, Jingzhi Pang, Xin Gao, Charlotte Band, Piyush Mathur, Frank Papay, Ashish K. Khanna, Jacek B. Cywinski, Kamal Maheshwari, Pengtao Xie, Eric P. Xing
2019	J	`jnl`	OPA2Vec: combining formal and informal content of biomedical ontologies to improve similarity-based prediction. Bioinform. Fatima Zohra Smaili, Xin Gao, Robert Hoehndorf
2019	J	`jnl`	PredMP: a web server for de novo prediction and visualization of membrane proteins. Bioinform. Sheng Wang, Shiyang Fei, Zongan Wang, Yu Li, Jinbo Xu, Feng Zhao, Xin Gao
2019	J	`jnl`	Promoter analysis and prediction in the human genome using sequence-based deep learning models. Bioinform. Ramzan Umarov, Hiroyuki Kuwahara, Yu Li, Xin Gao, Victor V. Solovyev
2019	—	`conf`	Regularized Adversarial Training (RAT) for Robust Cellular Electron Cryo Tomograms Classification. BIBM Xindi Wu, Yijun Mao, Haohan Wang, Xiangrui Zeng, Xin Gao, Eric P. Xing, Min Xu
2019	J	`jnl`	Systematic selection of chemical fingerprint features improves the Gibbs energy prediction of biochemical reactions. Bioinform. Meshari Alazmi, Hiroyuki Kuwahara, Othman Soufan, Lizhong Ding, Xin Gao
2019	J	`jnl`	The MR-CA Models for Analysis of Pollution Sources and Prediction of PM IEEE Trans. Syst. Man Cybern. Syst. Fang Deng, Liqiu Ma, Xin Gao, Jie Chen
2019	—	`conf`	Transmembrane Topology Identification by Fusing Evolutionary and Co-evolutionary Information with Cascaded Bidirectional Transformers. BCB Zhen Li, Chongming Ni, Jinbo Xu, Xin Gao, Shuguang Cui, Sheng Wang
2019	—	`conf`	Transmembrane Topology Identification by Fusing Evolutionary and Co-evolutionary Information with Cascaded Bidirectional Transformers. BCB Zhen Li, Chongming Ni, Jinbo Xu, Xin Gao, Shuguang Cui, Sheng Wang
2019	J	`jnl`	When sparse coding meets ranking: a joint framework for learning sparse codes and ranking scores. Neural Comput. Appl. Jim Jing-Yan Wang, Xuefeng Cui, Ge Yu, Lili Guo, Xin Gao
2018	J	`jnl`	A Slice-based IEEE ACM Trans. Comput. Biol. Bioinform. Meshari Alazmi, Ahmed Abbas, Xianrong Guo, Ming Fan, Lihua Li, Xin Gao
2018	J	`jnl`	A fast fiducial marker tracking model for fully automatic alignment in electron tomography. Bioinform. Renmin Han, Fa Zhang, Xin Gao
2018	J	`jnl`	Accelerating Flash Calculation through Deep Learning Methods. CoRR Yu Li, Tao Zhang, Shuyu Sun, Xin Gao
2018	J	`jnl`	An accurate and rapid continuous wavelet dynamic time warping algorithm for end-to-end mapping in ultra-long nanopore sequencing. Bioinform. Renmin Han, Yu Li, Xin Gao, Sheng Wang
2018	A*	`conf`	Bandit Online Learning on Graphs via Adaptive Optimization. IJCAI Peng Yang, Peilin Zhao, Xin Gao
2018	A*	`conf`	Convergence Analysis of Gradient Descent for Eigenvector Computation. IJCAI Zhiqiang Xu, Xin Cao, Xin Gao
2018	J	`jnl`	DEEPre: sequence-based enzyme EC number prediction by deep learning. Bioinform. Yu Li, Sheng Wang, Ramzan Umarov, Bingqing Xie, Ming Fan, Lihua Li, Xin Gao
2018	J	`jnl`	DLBI: Deep learning guided Bayesian inference for structure reconstruction of super-resolution fluorescence microscopy. CoRR Yu Li, Fan Xu, Fa Zhang, Pingyong Xu, Mingshu Zhang, Ming Fan, Lihua Li, Xin Gao, Renmin Han
2018	J	`jnl`	DLBI: deep learning guided Bayesian inference for structure reconstruction of super-resolution fluorescence microscopy. Bioinform. Yu Li, Fan Xu, Fa Zhang, Pingyong Xu, Mingshu Zhang, Ming Fan, Lihua Li, Xin Gao, Renmin Han
2018	J	`jnl`	DeepSimulator: a deep simulator for Nanopore sequencing. Bioinform. Yu Li, Renmin Han, Chongwei Bi, Mo Li, Sheng Wang, Xin Gao
2018	—	`conf`	Feature Decomposition Based Saliency Detection in Electron Cryo-Tomograms. BIBM Bo Zhou, Qiang Guo, Kaiwen Wang, Xiangrui Zeng, Xin Gao, Min Xu
2018	J	`jnl`	Functional interrogation of Plasmodium genus metabolism identifies species- and stage-specific differences in nutrient essentiality and drug targeting. PLoS Comput. Biol. Alyaa M. Abdel-Haleem, Hooman Hefzi, Katsuhiko Mineta, Xin Gao, Takashi Gojobori, Bernhard O. Palsson, Nathan E. Lewis, Neema Jamshidi
2018	J	`jnl`	Multimodal Machine Learning for Automated ICD Coding. CoRR Keyang Xu, Mike Lam, Jingzhi Pang, Xin Gao, Charlotte Band, Piyush Mathur, Frank Papay, Ashish K. Khanna, Jacek B. Cywinski, Kamal Maheshwari, Pengtao Xie, Eric P. Xing
2018	J	`jnl`	Multiscale and Multimodal Analysis for Computational Biology. IEEE ACM Trans. Comput. Biol. Bioinform. Xin Gao, Jake Y. Chen, Mohammed J. Zaki
2018	J	`jnl`	OPA2Vec: combining formal and informal content of biomedical ontologies to improve similarity-based prediction. CoRR Fatima Zohra Smaili, Xin Gao, Robert Hoehndorf
2018	J	`jnl`	On the Decision Boundary of Deep Neural Networks. CoRR Yu Li, Lizhong Ding, Xin Gao
2018	J	`jnl`	Onto2Vec: joint vector-based representation of biological entities and their ontology-based annotations. Bioinform. Fatima Zohra Smaili, Xin Gao, Robert Hoehndorf
2018	J	`jnl`	Onto2Vec: joint vector-based representation of biological entities and their ontology-based annotations. CoRR Fatima Zohra Smaili, Xin Gao, Robert Hoehndorf
2018	J	`jnl`	PromID: human promoter prediction by deep learning. CoRR Ramzan Umarov, Hiroyuki Kuwahara, Yu Li, Xin Gao, Victor V. Solovyev
2018	J	`jnl`	RIDDLE: Race and ethnicity Imputation from Disease history with Deep LEarning. PLoS Comput. Biol. Ji-Sung Kim, Xin Gao, Andrey Rzhetsky
2018	A*	`conf`	Randomized Kernel Selection With Spectra of Multilevel Circulant Matrices. AAAI Lizhong Ding, Shizhong Liao, Yong Liu, Peng Yang, Xin Gao
2018	A*	`conf`	Robust Asymmetric Recommendation via Min-Max Optimization. SIGIR Peng Yang, Peilin Zhao, Vincent W. Zheng, Lizhong Ding, Xin Gao
2018	A	`conf`	Robust Cost-Sensitive Learning for Recommendation with Implicit Feedback. SDM Peng Yang, Peilin Zhao, Yong Liu, Xin Gao
2018	J	`jnl`	SupportNet: solving catastrophic forgetting in class incremental learning with support data. CoRR Yu Li, Zhongxiao Li, Lizhong Ding, Peng Yang, Yuhui Hu, Wei Chen, Xin Gao
2018	J	`jnl`	WaveNano: a signal-level nanopore base-caller via simultaneous prediction of nucleotide labels and move labels through bi-directional WaveNets. Quant. Biol. Sheng Wang, Zhen Li, Yizhou Yu, Xin Gao
2017	A	`conf`	A Fast Algorithm for Matrix Eigen-decompositionn. UAI Zhiqiang Xu, Yiping Ke, Xin Gao
2017	A	`conf`	Asymmetric sparse hashing. ICME Xin Gao, Fumin Shen, Yang Yang, Xing Xu, Hanxi Li, Heng Tao Shen
2017	A*	`conf`	Deep Asymmetric Pairwise Hashing. ACM Multimedia Fumin Shen, Xin Gao, Li Liu, Yang Yang, Heng Tao Shen
2017	A*	`conf`	FeaBoost: Joint Feature and Label Refinement for Semantic Segmentation. AAAI Yulei Niu, Zhiwu Lu, Songfang Huang, Xin Gao, Ji-Rong Wen
2017	J	`jnl`	Genome-scale regression analysis reveals a linear relationship for promoters and enhancers after combinatorial drug treatment. Bioinform. Trisevgeni Rapakoulia, Xin Gao, Yi Huang, Michiel J. L. de Hoon, Mariko Okada-Hatakeyama, Harukazu Suzuki, Erik Arner
2017	J	`jnl`	Gracob: a novel graph-based constant-column biclustering method for mining growth phenotype data. Bioinform. Majed Alzahrani, Hiroyuki Kuwahara, Wei Wang, Xin Gao
2017	J	`jnl`	K-nearest uphill clustering in the protein structure space. Neurocomputing Xuefeng Cui, Xin Gao
2017	J	`jnl`	Learning from Weak and Noisy Labels for Semantic Segmentation. IEEE Trans. Pattern Anal. Mach. Intell. Zhiwu Lu, Zhenyong Fu, Tao Xiang, Peng Han, Liwei Wang, Xin Gao
2017	J	`jnl`	Learning gene regulatory networks from gene expression data using weighted consensus. Neurocomputing Chisato Fujii, Hiroyuki Kuwahara, Ge Yu, Lili Guo, Xin Gao
2017	J	`jnl`	Multi-instance dictionary learning via multivariate performance measure optimization. Pattern Recognit. Jim Jing-Yan Wang, Ivor Wai-Hung Tsang, Xuefeng Cui, Zhiwu Lu, Xin Gao
2017	J	`jnl`	Predicting Discharge Medications at Admission Time Based on Deep Learning. CoRR Yuan Yang, Pengtao Xie, Xin Gao, Carol Cheng, Christy Y. Li, Hongbao Zhang, Eric P. Xing
2017	J	`jnl`	Robust Cost-Sensitive Learning for Recommendation with Implicit Feedback. CoRR Peng Yang, Peilin Zhao, Xin Gao, Yong Liu
2017	J	`jnl`	Robust Online Multi-Task Learning with Correlative and Personalized Structures. CoRR Peng Yang, Peilin Zhao, Xin Gao
2017	J	`jnl`	Robust Online Multi-Task Learning with Correlative and Personalized Structures. IEEE Trans. Knowl. Data Eng. Peng Yang, Peilin Zhao, Xin Gao
2017	J	`jnl`	Sequence2Vec: a novel embedding approach for modeling transcription factor binding affinity landscape. Bioinform. Hanjun Dai, Ramzan Umarov, Hiroyuki Kuwahara, Yu Li, Le Song, Xin Gao
2016	J	`jnl`	A Sequence-Based Dynamic Ensemble Learning System for Protein Ligand-Binding Site Prediction. IEEE ACM Trans. Comput. Biol. Bioinform. Peng Chen, Shanshan Hu, Jun Zhang, Xin Gao, Jinyan Li, Junfeng Xia, Bing Wang
2016	J	`jnl`	CMsearch: simultaneous exploration of protein sequence space and structure space improves not only protein homology detection but also protein structure prediction. Bioinform. Xuefeng Cui, Zhiwu Lu, Sheng Wang, Jim Jing-Yan Wang, Xin Gao
2016	J	`jnl`	DESM: portal for microbial knowledge exploration systems. Nucleic Acids Res. Adil Salhi, Magbubah Essack, Aleksandar Radovanovic, Benoit Marchand, Salim Bougouffa, André Antunes, Marta Filipa Simões, Feras F. Lafi, Olaa A. Motwalli, Ameerah Bokhari, Tariq Malas, Soha Al Amoudi, Ghofran Othum, Intikhab Alam, Katsuhiko Mineta, Xin Gao, Robert Hoehndorf, John A. C. Archer, Takashi Gojobori, Vladimir B. Bajic
2016	J	`jnl`	Large margin classification with indefinite similarities. Mach. Learn. Ibrahim M. Alabdulmohsin, Moustapha Cissé, Xin Gao, Xiangliang Zhang
2016	J	`jnl`	MRE: a web tool to suggest foreign enzymes for the biosynthesis pathway design with competing endogenous reactions in mind. Nucleic Acids Res. Hiroyuki Kuwahara, Meshari Alazmi, Xuefeng Cui, Xin Gao
2016	A*	`conf`	Optimizing Multivariate Performance Measures from Multi-View Data. AAAI Jim Jing-Yan Wang, Ivor Wai-Hung Tsang, Xin Gao
2015	J	`jnl`	An integrated structure- and system-based framework to identify new targets of metabolites and known drugs. Bioinform. Hammad Naveed, Umar S. Hameed, Deborah Harrus, William Bourguet, Stefan T. Arold, Xin Gao
2015	—	`conf`	Compare local pocket and global protein structure models by small structure patterns. BCB Xuefeng Cui, Hiroyuki Kuwahara, Shuai Cheng Li, Xin Gao
2015	J	`jnl`	Condensing Raman spectrum for single-cell phenotype analysis. BMC Bioinform. Shiwei Sun, Xuetao Wang, Xin Gao, Lihui Ren, Xiaoquan Su, Dongbo Bu, Kang Ning
2015	J	`jnl`	Distinct profiling of antimicrobial peptide families. Bioinform. Abdullah M. Khamis, Magbubah Essack, Xin Gao, Vladimir B. Bajic
2015	A*	`conf`	Efficient Active Learning of Halfspaces via Query Synthesis. AAAI Ibrahim M. Alabdulmohsin, Xin Gao, Xiangliang Zhang
2015	J	`jnl`	Feature selection and multi-kernel learning for adaptive graph regularized nonnegative matrix factorization. Expert Syst. Appl. Jim Jing-Yan Wang, Jianhua Z. Huang, Yijun Sun, Xin Gao
2015	J	`jnl`	Finding optimal interaction interface alignments between biological complexes. Bioinform. Xuefeng Cui, Hammad Naveed, Xin Gao
2015	J	`jnl`	Markov State Models Reveal a Two-Step Mechanism of miRNA Loading into the Human Argonaute Protein: Selective Binding followed by Structural Re-arrangement. PLoS Comput. Biol. Hanlun Jiang, Fu Kit Sheong, Lizhe Zhu, Xin Gao, Julie Bernauer, Xuhui Huang
2015	J	`jnl`	Max-min distance nonnegative matrix factorization. Neural Networks Jim Jing-Yan Wang, Xin Gao
2015	J	`jnl`	Maximum mutual information regularized classification. Eng. Appl. Artif. Intell. Jim Jing-Yan Wang, Yi Wang, Shiguang Zhao, Xin Gao
2015	A*	`conf`	Noise-Robust Semi-Supervised Learning by Large-Scale Sparse Coding. AAAI Zhiwu Lu, Xin Gao, Liwei Wang, Ji-Rong Wen, Songfang Huang
2015	—	`conf`	Pairwise structure alignment specifically tuned for surface pockets and interaction interfaces. BCB Xuefeng Cui, Hammad Naveed, Xin Gao
2015	J	`jnl`	Parameter estimation methods for gene circuit modeling from time-series mRNA data: a comparative study. Briefings Bioinform. Ming Fan, Hiroyuki Kuwahara, Xiaolei Wang, Suojin Wang, Xin Gao
2015	A	`conf`	Partially Labeled Data Tuple Can Optimize Multivariate Performance Measures. CIKM Jim Jing-Yan Wang, Xin Gao
2015	J	`jnl`	Regularized maximum correntropy machine. CoRR Jim Jing-Yan Wang, Yunji Wang, Bing-Yi Jing, Xin Gao
2015	J	`jnl`	Regularized maximum correntropy machine. Neurocomputing Jim Jing-Yan Wang, Yunji Wang, Bing-Yi Jing, Xin Gao
2015	A*	`conf`	Social Image Parsing by Cross-Modal Data Refinement. IJCAI Zhiwu Lu, Xin Gao, Songfang Huang, Liwei Wang, Ji-Rong Wen
2015	J	`jnl`	Sparse structure regularized ranking. Multim. Tools Appl. Jim Jing-Yan Wang, Yijun Sun, Xin Gao
2014	A	`conf`	Adding Robustness to Support Vector Machines Against Adversarial Reverse Engineering. CIKM Ibrahim M. Alabdulmohsin, Xin Gao, Xiangliang Zhang
2014	J	`jnl`	Bayesian Peak Picking for NMR Spectra. Genom. Proteom. Bioinform. Yichen Cheng, Xin Gao, Faming Liang
2014	J	`jnl`	Beyond cross-domain learning: Multiple-domain nonnegative matrix factorization. Eng. Appl. Artif. Intell. Jim Jing-Yan Wang, Xin Gao
2014	J	`jnl`	Feature selection and multi-kernel learning for sparse representation on a manifold. Neural Networks Jim Jing-Yan Wang, Halima Bensmail, Xin Gao
2014	J	`jnl`	Large Margin Image Set Representation and Classification. CoRR Jim Jing-Yan Wang, Majed Alzahrani, Xin Gao
2014	B	`conf`	Large margin image set representation and classification. IJCNN Jim Jing-Yan Wang, Majed Alzahrani, Xin Gao
2014	J	`jnl`	Learning manifold to regularize nonnegative matrix factorization. CoRR Jim Jing-Yan Wang, Xin Gao
2014	J	`jnl`	LigandRFs: random forest ensemble to identify ligand-binding residues from sequence information alone. BMC Bioinform. Peng Chen, Jianhua Z. Huang, Xin Gao
2014	J	`jnl`	Maximum mutual information regularized classification. CoRR Jim Jing-Yan Wang, Yi Wang, Shiguang Zhao, Xin Gao
2014	—	`conf`	Minimum Information Loss Based Multi-kernel Learning for Flagellar Protein Recognition in Trypanosoma Brucei. ICDM Workshops Jim Jing-Yan Wang, Xin Gao
2014	J	`jnl`	Modeling DNA affinity landscape through two-round support vector regression with weighted degree kernels. BMC Syst. Biol. Xiaolei Wang, Hiroyuki Kuwahara, Xin Gao
2014	—	`conf`	Quick Mining of Isomorphic Exact Large Patterns from Large Graphs. ICDM Workshops Islam Almasri, Xin Gao, Nina Fedoroff
2014	B	`conf`	Semi-supervised sparse coding. IJCNN Jim Jing-Yan Wang, Xin Gao
2014	A*	`conf`	Supervised Transfer Sparse Coding. AAAI Maruan Al-Shedivat, Jim Jing-Yan Wang, Majed Alzahrani, Jianhua Z. Huang, Xin Gao
2014	C	`conf`	Support vector machines with indefinite kernels. ACML Ibrahim M. Alabdulmohsin, Xin Gao, Xiangliang Zhang
2013	J	`jnl`	A framework for scalable parameter estimation of gene circuit models using structural information. Bioinform. Hiroyuki Kuwahara, Ming Fan, Suojin Wang, Xin Gao
2013	J	`jnl`	Assessing protein conformational sampling methods based on bivariate lag-distributions of backbone angles. Briefings Bioinform. Mehdi Maadooliat, Xin Gao, Jianhua Z. Huang
2013	J	`jnl`	Discriminative sparse coding on multi-manifolds. Knowl. Based Syst. Jim Jing-Yan Wang, Halima Bensmail, Nan Yao, Xin Gao
2013	J	`jnl`	Joint learning and weighting of visual vocabulary for bag-of-feature based tissue classification. Pattern Recognit. Jim Jing-Yan Wang, Halima Bensmail, Xin Gao
2013	J	`jnl`	Multiple graph regularized nonnegative matrix factorization. Pattern Recognit. Jim Jing-Yan Wang, Halima Bensmail, Xin Gao
2013	J	`jnl`	Non-negative matrix factorization by maximizing correntropy for cancer clustering. BMC Bioinform. Jim Jing-Yan Wang, Xiaolei Wang, Xin Gao
2013	J	`jnl`	Poly(A) motif prediction using spectral latent features from human DNA sequences. Bioinform. Bo Xie, Boris R. Jankovic, Vladimir B. Bajic, Le Song, Xin Gao
2013	J	`jnl`	Recent Advances in Computational Methods for Nuclear Magnetic Resonance Data Processing. Genom. Proteom. Bioinform. Xin Gao
2012	B	`conf`	Adaptive graph regularized Nonnegative Matrix Factorization via feature selection. ICPR Jingyan Wang, Islam Almasri, Xin Gao
2012	J	`jnl`	Combining automated peak tracking in SAR by NMR with structure-based backbone assignment from BMC Bioinform. Richard Jang, Xin Gao, Ming Li
2012	J	`jnl`	Multiple graph regularized protein domain ranking. BMC Bioinform. Jingyan Wang, Halima Bensmail, Xin Gao
2012	J	`jnl`	ProClusEnsem: Predicting membrane protein types by fusing different modes of pseudo amino acid composition. Comput. Biol. Medicine Jingyan Wang, Yongping Li, Quanquan Wang, Xinge You, Jiaju Man, Chao Wang, Xin Gao
2012	J	`jnl`	ProDis-ContSHC: learning protein dissimilarity measures and hierarchical context coherently for protein-protein comparison in protein database retrieval. BMC Bioinform. Jingyan Wang, Xin Gao, Quanquan Wang, Yongping Li
2012	J	`jnl`	Protein domain recurrence and order can enhance prediction of protein functions. Bioinform. Mario Abdel Messih, Meghana Chitale, Vladimir B. Bajic, Daisuke Kihara, Xin Gao
2012	J	`jnl`	WaVPeak: picking NMR peaks through wavelet-based smoothing and volume-based filtering. Bioinform. Zhi Liu, Ahmed Abbas, Bing-Yi Jing, Xin Gao
2011	J	`jnl`	A protein-dependent side-chain rotamer library. BMC Bioinform. Md Shariful Bhuyan, Xin Gao
2011	—	`conf`	An efficient parallel stochastic simulation method for analysis of nonviral gene delivery systems. CMSB Hiroyuki Kuwahara, Xin Gao
2011	—	`conf`	Combining ambiguous chemical shift mapping with structure-based backbone and NOE assignment from BCB Richard Jang, Xin Gao, Ming Li
2011	J	`jnl`	Error Tolerant NMR Backbone Resonance Assignment and Automated Structure Generation. J. Bioinform. Comput. Biol. Babak Alipanahi, Xin Gao, Emre Karakoç, Shuai Cheng Li, Frank J. Balbach, Guangyu Feng, Logan Donaldson, Ming Li
2011	J	`jnl`	Towards Fully Automated Structure-Based NMR Resonance Assignment of J. Comput. Biol. Richard Jang, Xin Gao, Ming Li
2010	B	`conf`	Towards Automated Structure-Based NMR Resonance Assignment. RECOMB Richard Jang, Xin Gao, Ming Li
2009	J	`jnl`	PICKY: a novel SVD-based NMR spectra peak picking method. Bioinform. Babak Alipanahi, Xin Gao, Emre Karakoç, Logan Donaldson, Ming Li
2009	J	`jnl`	Predicting Local Quality of a Sequence-Structure Alignment. J. Bioinform. Comput. Biol. Xin Gao, Jinbo Xu, Shuai Cheng Li, Ming Li
2009	—	`—`	Towards Automating Protein Structure Determination from NMR Data. Xin Gao
2008	A	`conf`	Designing succinct structural alphabets. ISMB Shuai Cheng Li, Dongbo Bu, Xin Gao, Jinbo Xu, Ming Li
2008	B	`conf`	Rapid and Accurate Protein Side Chain Prediction with Local Backbone Information. RECOMB Jing Zhang, Xin Gao, Jinbo Xu, Ming Li
2007	Misc	`conf`	New Algorithms for the Spaced Seeds. FAW Xin Gao, Shuaicheng Li, Yinan Lu