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ORCIDRui Jiang 0001
Person information
- affiliation: Tsinghua University, Department of Automation, Beijing, China
Other persons with the same name
- Rui Jiang — disambiguation page
- Rui Jiang 0002
![[0000-0002-8141-5376]](https://dblp.uni-trier.de/img/orcid-mark.12x12.png "0000-0002-8141-5376")
— Xuchang University, School of Information Engineering, China (and 2 more) - Rui Jiang 0003 — Nanyang Technological University, School of Electrical and Electronic Engineering, Singapore
- Rui Jiang 0004 — Tsinghua University, Tsinghua National Laboratory for Information Science and Technology, Beijing, China
- Rui Jiang 0005 — Stanford University, Department of Energy Resources Engineering, USA
- Rui Jiang 0006 — South China University of Technology, School of Computer Science and Engineering, Guangzhou, China
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2020 – today
- 2024
[j70]Yan Pan, Zijing Gao, Xuejian Cui, Zhen Li, Rui Jiang:
collectNET: a web server for integrated inference of cell-cell communication network. Database J. Biol. Databases Curation 2024 (2024)- [j69]Xuejian Cui, Xiaoyang Chen, Zhen Li, Zijing Gao, Shengquan Chen, Rui Jiang:
Discrete latent embedding of single-cell chromatin accessibility sequencing data for uncovering cell heterogeneity. Nat. Comput. Sci. 4(5): 346-359 (2024) - [j68]Yuhang Jia, Siyu Li, Rui Jiang, Shengquan Chen:
Accurate Annotation for Differentiating and Imbalanced Cell Types in Single-Cell Chromatin Accessibility Data. IEEE ACM Trans. Comput. Biol. Bioinform. 21(3): 461-471 (2024) - [i6]Tianyu Zhang, Chengbin Hou, Rui Jiang, Xuegong Zhang, Chenghu Zhou, Ke Tang, Hairong Lv:
Label Informed Contrastive Pretraining for Node Importance Estimation on Knowledge Graphs. CoRR abs/2402.17791 (2024) - 2023
- [j67]Qiao Liu, Wanwen Zeng, Wei Zhang, Sicheng Wang, Hongyang Chen, Rui Jiang, Mu Zhou, Shaoting Zhang:
Deep generative modeling and clustering of single cell Hi-C data. Briefings Bioinform. 24(1) (2023) - [j66]Yiming Xu, Bowen Zheng, Xiaohong Liu, Tao Wu, Jinxiu Ju, Shi-jie Wang, Yufan Lian, Hongjun Zhang, Tong Liang, Ye Sang, Rui Jiang, Guangyu Wang, Jie Ren, Ting Chen:
Improving artificial intelligence pipeline for liver malignancy diagnosis using ultrasound images and video frames. Briefings Bioinform. 24(1) (2023) - [j65]Chen Li, Xiaoyang Chen, Shengquan Chen, Rui Jiang, Xuegong Zhang:
simCAS: an embedding-based method for simulating single-cell chromatin accessibility sequencing data. Bioinform. 39(8) (2023) - [j64]Wanwen Zeng, Qiao Liu, Qijin Yin, Rui Jiang, Wing Hung Wong:
HiChIPdb: a comprehensive database of HiChIP regulatory interactions. Nucleic Acids Res. 51(D1): 159-166 (2023) - [j63]Xuegong Zhang, Lei Wei, Rui Jiang, Xiaowo Wang, Jin Gu, Zhen Xie, Hairong Lv:
Building digital life systems for future biology and medicine. Quant. Biol. 11(3): 207-213 (2023) - [j62]Qijin Yin, Rui Fan, Xusheng Cao, Qiao Liu, Rui Jiang, Wanwen Zeng:
DeepDrug: A general graph-based deep learning framework for drug-drug interactions and drug-target interactions prediction. Quant. Biol. 11(3): 260-274 (2023) - [c18]Yonghao Liu, Di Liang, Fang Fang, Sirui Wang, Wei Wu, Rui Jiang:
Time-Aware Multiway Adaptive Fusion Network for Temporal Knowledge Graph Question Answering. ICASSP 2023: 1-5 - [i5]Yonghao Liu, Di Liang, Fang Fang, Sirui Wang, Wei Wu, Rui Jiang:
Time-aware Multiway Adaptive Fusion Network for Temporal Knowledge Graph Question Answering. CoRR abs/2302.12529 (2023) - 2022
- [j61]Qijin Yin, Qiao Liu, Zhuoran Fu, Wanwen Zeng, Boheng Zhang, Xuegong Zhang, Rui Jiang, Hairong Lv:
scGraph: a graph neural network-based approach to automatically identify cell types. Bioinform. 38(11): 2996-3003 (2022) - [j60]Tianxing Ma, Qiao Liu, Haochen Li, Mu Zhou, Rui Jiang, Xuegong Zhang:
DualGCN: a dual graph convolutional network model to predict cancer drug response. BMC Bioinform. 23-S(4): 129 (2022) - [j59]Yaowen Gu, Si Zheng, Qijin Yin, Rui Jiang, Jiao Li:
REDDA: Integrating multiple biological relations to heterogeneous graph neural network for drug-disease association prediction. Comput. Biol. Medicine 150: 106127 (2022) - [j58]Qiao Liu, Kui Hua, Xuegong Zhang, Wing Hung Wong, Rui Jiang:
DeepCAGE: Incorporating Transcription Factors in Genome-wide Prediction of Chromatin Accessibility. Genom. Proteom. Bioinform. 20(3): 496-507 (2022) - [j57]Pengshuai Yang, Xiaoxu Yin, Haiming Lu, Zhongliang Hu, Xuegong Zhang, Rui Jiang, Hairong Lv:
CS-CO: A Hybrid Self-Supervised Visual Representation Learning Method for H&E-stained Histopathological Images. Medical Image Anal. 81: 102539 (2022) - [j56]Xiaoyang Chen, Shengquan Chen, Shuang Song, Zijing Gao, Lin Hou, Xuegong Zhang, Hairong Lv, Rui Jiang:
Cell type annotation of single-cell chromatin accessibility data via supervised Bayesian embedding. Nat. Mach. Intell. 4(2): 116-126 (2022) - 2021
- [j55]Liangyong Yu, Ran Li, Xiangrui Zeng, Hongyi Wang, Jie Jin, Ge Yang, Rui Jiang, Min Xu:
Few shot domain adaptation for in situ macromolecule structural classification in cryoelectron tomograms. Bioinform. 37(2): 185-191 (2021) - [j54]Shengquan Chen, Boheng Zhang, Xiaoyang Chen, Xuegong Zhang, Rui Jiang:
stPlus: a reference-based method for the accurate enhancement of spatial transcriptomics. Bioinform. 37(Supplement): 299-307 (2021) - [j53]Shengquan Chen, Mingxin Gan, Hairong Lv, Rui Jiang:
DeepCAPE: A Deep Convolutional Neural Network for the Accurate Prediction of Enhancers. Genom. Proteom. Bioinform. 19(4): 565-577 (2021) - [j52]Wanwen Zeng, Shengquan Chen, Xuejian Cui, Xiaoyang Chen, Zijing Gao, Rui Jiang:
SilencerDB: a comprehensive database of silencers. Nucleic Acids Res. 49(Database-Issue): D221-D228 (2021) - [j51]Shengquan Chen, Qiao Liu, Xuejian Cui, Zhan-Ying Feng, Chunquan Li, Xiaowo Wang, Xuegong Zhang, Yong Wang, Rui Jiang:
OpenAnnotate: a web server to annotate the chromatin accessibility of genomic regions. Nucleic Acids Res. 49(Webserver-Issue): 483-490 (2021) - [j50]Qiao Liu, Shengquan Chen, Rui Jiang, Wing Hung Wong:
Simultaneous deep generative modelling and clustering of single-cell genomic data. Nat. Mach. Intell. 3(6): 536-544 (2021) - [c17]Pengshuai Yang, Zhiwei Hong, Xiaoxu Yin, Chengzhan Zhu, Rui Jiang:
Self-supervised Visual Representation Learning for Histopathological Images. MICCAI (2) 2021: 47-57 - 2020
- [j49]Honglei Liu, Yan Xu, Zhiqiang Zhang, Ni Wang, Yanqun Huang, Yanjun Hu, Zhenghan Yang, Rui Jiang, Hui Chen:
A Natural Language Processing Pipeline of Chinese Free-Text Radiology Reports for Liver Cancer Diagnosis. IEEE Access 8: 159110-159119 (2020) - [j48]Wanwen Zeng, Yong Wang, Rui Jiang:
Integrating distal and proximal information to predict gene expression via a densely connected convolutional neural network. Bioinform. 36(2): 496-503 (2020) - [j47]Xiaoyang Chen, Shengquan Chen, Rui Jiang:
EnClaSC: a novel ensemble approach for accurate and robust cell-type classification of single-cell transcriptomes. BMC Bioinform. 21-S(13): 392 (2020) - [j46]Ran Li, Liangyong Yu, Bo Zhou, Xiangrui Zeng, Zhenyu Wang, Xiaoyan Yang, Jing Zhang, Xin Gao, Rui Jiang, Min Xu:
Few-shot learning for classification of novel macromolecular structures in cryo-electron tomograms. PLoS Comput. Biol. 16(11) (2020) - [j45]Jie Shi, Xiangrui Zeng, Rui Jiang, Tao Jiang, Min Xu:
A simulated annealing approach for resolution guided homogeneous cryo-electron microscopy image selection. Quant. Biol. 8(1): 51-63 (2020) - [j44]Jianyu Zhou, Pan Li, Wanwen Zeng, Wenxiu Ma, Zhipeng Lu, Rui Jiang, Qiangfeng Cliff Zhang, Tao Jiang:
IRIS: A method for predicting in vivo RNA secondary structures using PARIS data. Quant. Biol. 8(4): 369-381 (2020) - [i4]Qiao Liu, Jiaze Xu, Rui Jiang, Wing Hung Wong:
Roundtrip: A Deep Generative Neural Density Estimator. CoRR abs/2004.09017 (2020) - [i3]Honglei Liu, Yan Xu, Zhiqiang Zhang, Ni Wang, Yanqun Huang, Zhenghan Yang, Rui Jiang, Hui Chen:
A Natural Language Processing Pipeline of Chinese Free-text Radiology Reports for Liver Cancer Diagnosis. CoRR abs/2004.13848 (2020) - [i2]Liangyong Yu, Ran Li, Xiangrui Zeng, Hongyi Wang, Jie Jin, Ge Yang, Rui Jiang, Min Xu:
Few shot domain adaptation for in situ macromolecule structural classification in cryo-electron tomograms. CoRR abs/2007.15422 (2020)
2010 – 2019
- 2019
- [j43]Wanwen Zeng, Xu Min, Rui Jiang:
EnDisease: a manually curated database for enhancer-disease associations. Database J. Biol. Databases Curation 2019: baz020 (2019) - [j42]Qiao Liu, Hairong Lv, Rui Jiang:
hicGAN infers super resolution Hi-C data with generative adversarial networks. Bioinform. 35(14): i99-i107 (2019) - [j41]Ran Li, Xiangrui Zeng, Stephanie E. Sigmund, Ruogu Lin, Bo Zhou, Chang Liu, Kaiwen Wang, Rui Jiang, Zachary Freyberg, Hairong Lv, Min Xu:
Automatic localization and identification of mitochondria in cellular electron cryo-tomography using faster-RCNN. BMC Bioinform. 20-S(3): 75-85 (2019) - [j40]Shengquan Chen, Kui Hua, Hongfei Cui, Rui Jiang:
VPAC: Variational projection for accurate clustering of single-cell transcriptomic data. BMC Bioinform. 20-S(7): 139-151 (2019) - [j39]Qijin Yin, Mengmeng Wu, Qiao Liu, Hairong Lv, Rui Jiang:
DeepHistone: a deep learning approach to predicting histone modifications. BMC Genom. 20(S2) (2019) - [j38]Mingxin Gan, Lily Sun, Rui Jiang:
GLORY: Exploration and integration of global and local correlations to improve personalized online social recommendations. Inf. Syst. Frontiers 21(4): 925-939 (2019) - [j37]Shaoming Song, Hongfei Cui, Shengquan Chen, Qiao Liu, Rui Jiang:
EpiFIT: functional interpretation of transcription factors based on combination of sequence and epigenetic information. Quant. Biol. 7(3): 233-243 (2019) - [c16]Pengshuai Yang, Yupeng Zhai, Lin Li, Hairong Lv, Jigang Wang, Chengzhan Zhu, Rui Jiang:
Liver Histopathological Image Retrieval Based on Deep Metric Learning. BIBM 2019: 914-919 - [c15]Jie Wang, Hairong Lv, Rui Jiang, Zhen Xie:
Rule-Based Method to Develop Question-Answer Dataset from Chest X-Ray Reports. CBMS 2019: 26-31 - [c14]Jie Wang, Zhigang Li, Rui Jiang, Zhen Xie:
Instance Segmentation of Anatomical Structures in Chest Radiographs. CBMS 2019: 441-446 - 2018
- [j36]Qiao Liu, Fei Xia, Qijin Yin, Rui Jiang:
Chromatin accessibility prediction via a hybrid deep convolutional neural network. Bioinform. 34(5): 732-738 (2018) - [j35]Wanwen Zeng, Mengmeng Wu, Rui Jiang:
Prediction of enhancer-promoter interactions via natural language processing. BMC Genom. 19(S2) (2018) - [j34]Mingxin Gan, Rui Jiang:
FLOWER: Fusing global and local associations towards personalized social recommendation. Future Gener. Comput. Syst. 78: 462-473 (2018) - [j33]Xiaodan Fan, Xinglai Ji, Rui Jiang:
Guest Editorial for Special Section on the Sixth National Conference on Bioinformatics and System Biology of China. IEEE ACM Trans. Comput. Biol. Bioinform. 15(4): 1092 (2018) - [c13]Guannan Zhao, Bo Zhou, Kaiwen Wang, Rui Jiang, Min Xu:
Respond-CAM: Analyzing Deep Models for 3D Imaging Data by Visualizations. MICCAI (1) 2018: 485-492 - [i1]Guannan Zhao, Bo Zhou, Kaiwen Wang, Rui Jiang, Min Xu:
Respond-CAM: Analyzing Deep Models for 3D Imaging Data by Visualizations. CoRR abs/1806.00102 (2018) - 2017
- [j32]Xu Min, Wanwen Zeng, Ning Chen, Ting Chen, Rui Jiang:
Chromatin accessibility prediction via convolutional long short-term memory networks with k-mer embedding. Bioinform. 33(14): i92-i101 (2017) - [j31]Xu Min, Wanwen Zeng, Shengquan Chen, Ning Chen, Ting Chen, Rui Jiang:
Predicting enhancers with deep convolutional neural networks. BMC Bioinform. 18(S-13): 35-46 (2017) - [j30]Qiao Liu, Mingxin Gan, Rui Jiang:
A sequence-based method to predict the impact of regulatory variants using random forest. BMC Syst. Biol. 11(S-2): 7:1-7:9 (2017) - [j29]Mingxin Gan, Wenran Li, Wanwen Zeng, Xiaojian Wang, Rui Jiang:
Mimvec: a deep learning approach for analyzing the human phenome. BMC Syst. Biol. 11(S-4): 3-16 (2017) - [c12]Mengmeng Wu, Wanwen Zeng, Wenqiang Liu, Yijia Zhang, Ting Chen, Rui Jiang:
Integrating embeddings of multiple gene networks to prioritize complex disease-associated genes. BIBM 2017: 208-215 - [c11]Guanghui Zhu, Rui Jiang, Xing-Ming Zhao:
PPIM: A protein-protein interaction database for Maize. CASE 2017: 97 - [c10]Tianyi Sun, Zhuo Liu, Xing-Ming Zhao, Rui Jiang:
Exploring functional variant using a deep learning framework. CASE 2017: 98-99 - 2016
- [j28]Jiaxin Wu, Mengmeng Wu, Lianshuo Li, Zhuo Liu, Wanwen Zeng, Rui Jiang:
dbWGFP: a database and web server of human whole-genome single nucleotide variants and their functional predictions. Database J. Biol. Databases Curation 2016 (2016) - [j27]Mengmeng Wu, Ting Chen, Rui Jiang:
Global inference of disease-causing single nucleotide variants from exome sequencing data. BMC Bioinform. 17(S-17): 145-157 (2016) - [j26]Lianshuo Li, Zicheng Wang, Peng He, Shining Ma, Jie Du, Rui Jiang:
Construction and Analysis of Functional Networks in the Gut Microbiome of Type 2 Diabetes Patients. Genom. Proteom. Bioinform. 14(5): 314-324 (2016) - [j25]Mingxin Gan, Lily Sun, Rui Jiang:
Trinity: Walking on a User-Object-Tag Heterogeneous Network for Personalised Recommendations. J. Comput. Sci. Technol. 31(3): 577-594 (2016) - [j24]Jiaxin Wu, Mengmeng Wu, Ting Chen, Rui Jiang:
Whole genome sequencing and its applications in medical genetics. Quant. Biol. 4(2): 115-128 (2016) - [c9]Xu Min, Ning Chen, Ting Chen, Rui Jiang:
DeepEnhancer: Predicting enhancers by convolutional neural networks. BIBM 2016: 637-644 - 2015
- [j23]Shining Ma, Tao Jiang, Rui Jiang:
Differential regulation enrichment analysis via the integration of transcriptional regulatory network and gene expression data. Bioinform. 31(4): 563-571 (2015) - [j22]Rui Jiang, Mengmeng Wu, Lianshuo Li:
Pinpointing disease genes through phenomic and genomic data fusion. BMC Genom. 16(S-2): S3 (2015) - [j21]Mingxin Gan, Rui Jiang:
ROUND: Walking on an object-user heterogeneous network for personalized recommendations. Expert Syst. Appl. 42(22): 8791-8804 (2015) - 2014
- [j20]Yong Chen, Thibault Jacquemin, Shuyan Zhang, Rui Jiang:
Prioritizing protein complexes implicated in human diseases by network optimization. BMC Syst. Biol. 8(S-1): S2 (2014) - [j19]Huiru Zheng, Rui Jiang, Zhongming Zhao:
Integrated Approach in Systems Biology. Comput. Math. Methods Medicine 2014: 656473:1-656473:2 (2014) - [j18]Congmin Zhu, Rui Jiang, Ting Chen:
Constructing a Boolean implication network to study the interactions between environmental factors and OTUs. Quant. Biol. 2(4): 127-141 (2014) - 2013
- [j17]Feng Zeng, Rui Jiang, Ting Chen:
PyroHMMvar: a sensitive and accurate method to call short indels and SNPs for Ion Torrent and 454 data. Bioinform. 29(22): 2859-2868 (2013) - [j16]Mingxin Gan, Rui Jiang:
Improving accuracy and diversity of personalized recommendation through power law adjustments of user similarities. Decis. Support Syst. 55(3): 811-821 (2013) - [j15]Mingxin Gan, Rui Jiang:
Constructing a user similarity network to remove adverse influence of popular objects for personalized recommendation. Expert Syst. Appl. 40(10): 4044-4053 (2013) - [c8]Mingxin Gan, Rui Jiang:
Inferring semantic similarity through correlating information contents of gene ontology terms. BIBM 2013: 1-5 - 2012
- [j14]Rui Jiang, Mingxin Gan, Jiaxin Wu:
Identification of disease-related nsSNPs via the integration of protein sequence features and domain-domain interaction data. Int. J. Comput. Biol. Drug Des. 5(3/4): 206-221 (2012) - [c7]Mingxin Gan, Xue Dou, Rui Jiang:
Improving Recommendation Performance through Ontology-Based Semantic Similarity. ICICA (LNCS) 2012: 203-210 - [c6]Yue Huang, Mingxin Gan, Rui Jiang:
Ontology-Based Genes Similarity Calculation with TF-IDF. ICICA (LNCS) 2012: 600-607 - 2011
- [j13]Xiaolin Hao, Rui Jiang, Ting Chen:
Clustering 16S rRNA for OTU prediction: a method of unsupervised Bayesian clustering. Bioinform. 27(5): 611-618 (2011) - [j12]Yong Chen, Tao Jiang, Rui Jiang:
Uncover disease genes by maximizing information flow in the phenome-interactome network. Bioinform. 27(13): 167-176 (2011) - [j11]Wangshu Zhang, Fengzhu Sun, Rui Jiang:
Integrating multiple protein-protein interaction networks to prioritize disease genes: a Bayesian regression approach. BMC Bioinform. 12(S-1): S11 (2011) - [j10]Wangshu Zhang, Yong Chen, Fengzhu Sun, Rui Jiang:
DomainRBF: a Bayesian regression approach to the prioritization of candidate domains for complex diseases. BMC Syst. Biol. 5: 55 (2011) - [j9]Rui Jiang, Mingxin Gan, Peng He:
Constructing a gene semantic similarity network for the inference of disease genes. BMC Syst. Biol. 5(S-2): S2 (2011) - [j8]Jiaxin Wu, Mingxin Gan, Rui Jiang:
Prioritisation of candidate Single Amino Acid Polymorphisms using one-class learning machines. Int. J. Comput. Biol. Drug Des. 4(4): 316-331 (2011) - [j7]Jianxing Feng, Rui Jiang, Tao Jiang:
A Max-Flow-Based Approach to the Identification of Protein Complexes Using Protein Interaction and Microarray Data. IEEE ACM Trans. Comput. Biol. Bioinform. 8(3): 621-634 (2011) - [c5]Mingxin Gan, Xue Dou, Daoping Wang, Rui Jiang:
DOPCA: A New Method for Calculating Ontology-Based Semantic Similarity. ACIS-ICIS 2011: 110-115 - [c4]Rui Jiang, Jiaxin Wu:
Integrating sequence conservation features and a domain-domain interaction network to detect disease-associated nsSNPs. BIBM Workshops 2011: 262-267 - [c3]Jiaxin Wu, Mingxin Gan, Rui Jiang:
A genetic algorithm for optimizing subnetwork markers for the study of breast cancer metastasis. ICNC 2011: 1578-1582
2000 – 2009
- 2009
- [j6]Xuebing Wu, Qifang Liu, Rui Jiang:
Align human interactome with phenome to identify causative genes and networks underlying disease families. Bioinform. 25(1): 98-104 (2009) - [j5]Rui Jiang, Wanwan Tang, Xuebing Wu, Wenhui Fu:
A random forest approach to the detection of epistatic interactions in case-control studies. BMC Bioinform. 10(S-1) (2009) - [j4]Ting Chen, Rui Jiang, Fengzhu Sun:
Bayesian Models and Gibbs Sampling Strategies for Local Graph Alignment and Motif Identification in Stochastic Biological Networks. Commun. Inf. Syst. 9(4): 347-370 (2009) - [c2]Rui Jiang, Feng Zeng, Wangshu Zhang, Xuebing Wu, Zhihong Yu:
Accelerating Genome-Wide Association Studies Using CUDA Compatible Graphics Processing Units. IJCBS 2009: 70-76 - [c1]Wangshu Zhang, Feng Zeng, Xuebing Wu, Xuegong Zhang, Rui Jiang:
A Comparative Study of Ensemble Learning Approaches in the Classification of Breast Cancer Metastasis. IJCBS 2009: 242-245 - 2007
- [j3]Rui Jiang, Kueiming Lo:
Optimal Adaptive Controller for Multidimensional Armax Model. Cybern. Syst. 38(2): 141-154 (2007) - 2006
- [j2]Rui Jiang, Hua Yang, Fengzhu Sun, Ting Chen:
Searching for interpretable rules for disease mutations: a simulated annealing bump hunting strategy. BMC Bioinform. 7: 417 (2006) - 2000
- [j1]Dongcheng Hu, Rui Jiang, Yupin Luo:
An adaptive classifier system tree for extending genetics-based machine learning in a dynamic environment. Artif. Life Robotics 4(1): 7-11 (2000)
Coauthor Index
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