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2020 – today
- 2022
[j26]Tianci Song, Kathleen K. Markham
, Zhuliu Li, Kristen E. Muller, Kathleen Greenham, Rui Kuang:
Detecting spatially co-expressed gene clusters with functional coherence by graph-regularized convolutional neural network. Bioinform. 38(5): 1344-1352 (2022)- [j25]Zhuliu Li, Raphael Petegrosso, Shaden Smith, David Sterling, George Karypis, Rui Kuang:
Scalable Label Propagation for Multi-Relational Learning on the Tensor Product of Graphs. IEEE Trans. Knowl. Data Eng. 34(12): 5964-5978 (2022) - 2021
- [j24]Jianhong Huang, Guangjun Xie, Rui Kuang, Feifei Deng, Yongqiang Zhang:
QCA-based Hamming code circuit for nano communication network. Microprocess. Microsystems 84: 104237 (2021) - [j23]Zhuliu Li, Tianci Song, Jeongsik Yong, Rui Kuang:
Imputation of spatially-resolved transcriptomes by graph-regularized tensor completion. PLoS Comput. Biol. 17(4) (2021) - [j22]Fei Peng, Yongqiang Zhang, Rui Kuang, Guangjun Xie:
Spars: A Full Flow Quantum-Dot Cellular Automata Circuit Design Tool. IEEE Trans. Circuits Syst. II Express Briefs 68(4): 1233-1237 (2021) - 2020
- [j21]Raphael Petegrosso, Zhuliu Li, Rui Kuang:
Machine learning and statistical methods for clustering single-cell RNA-sequencing data. Briefings Bioinform. 21(4): 1209-1223 (2020) - [j20]Jiao Sun, Jae-Woong Chang, Teng Zhang, Jeongsik Yong, Rui Kuang, Wei Zhang:
Platform-integrated mRNA isoform quantification. Bioinform. 36(8): 2466-2473 (2020)
2010 – 2019
- 2019
- [j19]Huanan Zhang, David Roe, Rui Kuang:
Detecting Population-Differentiation Copy Number Variants in Human Population Tree by Sparse Group Selection. IEEE ACM Trans. Comput. Biol. Bioinform. 16(2): 538-549 (2019) - [j18]Ying Song, Tianci Song, Rui Kuang:
Path segmentation for movement trajectories with irregular sampling frequency using space-time interpolation and density-based spatial clustering. Trans. GIS 23(3): 558-578 (2019) - [c21]Zhuliu Li, Wei Zhang, Rong Stephanie Huang, Rui Kuang:
Learning a Low-Rank Tensor of Pharmacogenomic Multi-relations from Biomedical Networks. ICDM 2019: 409-418 - 2018
- [j17]Huanan Zhang, Catherine A. A. Lee, Zhuliu Li, John R. Garbe, Cindy R. Eide, Raphael Petegrosso, Rui Kuang, Jakub Tolar:
A multitask clustering approach for single-cell RNA-seq analysis in Recessive Dystrophic Epidermolysis Bullosa. PLoS Comput. Biol. 14(4) (2018) - [i5]Zhuliu Li, Raphael Petegrosso, Shaden Smith, David Sterling, George Karypis, Rui Kuang:
Scalable Label Propagation for Multi-relational Learning on Tensor Product Graph. CoRR abs/1802.07379 (2018) - 2017
- [j16]Raphael Petegrosso, Sunho Park, TaeHyun Hwang, Rui Kuang:
Transfer learning across ontologies for phenome-genome association prediction. Bioinform. 33(4): 529-536 (2017) - [c20]Wenjun Zeng, Si-Chi Chin, Brenda Zeimet, Rui Kuang, Chih-Lin Chi:
Dropout Prediction in Home Care Training. EDM 2017 - [i4]Raphael Petegrosso, Wei Zhang, Zhuliu Li, Yousef Saad, Rui Kuang:
Low-rank Label Propagation for Semi-supervised Learning with 100 Millions Samples. CoRR abs/1702.08884 (2017) - 2015
- [j15]Nicholas Johnson, Huanan Zhang, Gang Fang, Vipin Kumar, Rui Kuang:
SubPatCNV: approximate subspace pattern mining for mapping copy-number variations. BMC Bioinform. 16: 16:1-16:12 (2015) - [j14]Hong Cai, Timothy G. Lilburn, Changjin Hong, Jianying Gu, Rui Kuang, Yufeng Wang:
Predicting and exploring network components involved in pathogenesis in the malaria parasite via novel subnetwork alignments. BMC Syst. Biol. 9(S-4): S1 (2015) - [j13]Wei Zhang, Jae-Woong Chang, Lilong Lin, Kay Minn, Baolin Wu, Jeremy Chien, Jeongsik Yong, Hui Zheng, Rui Kuang:
Network-Based Isoform Quantification with RNA-Seq Data for Cancer Transcriptome Analysis. PLoS Comput. Biol. 11(12) (2015) - [c19]Ankit Sharma, Rui Kuang, Jaideep Srivastava, Xiaodong Feng, Kartik Singhal:
Predicting Small Group Accretion in Social Networks: A topology based incremental approach. ASONAM 2015: 408-415 - [i3]Ankit Sharma, Xiaodong Feng, Kartik Singhal, Rui Kuang, Jaideep Srivastava:
Predicting Small Group Accretion in Social Networks: A topology based incremental approach. CoRR abs/1507.03183 (2015) - 2014
- [i2]Wei Zhang, Kay Minn, Lilong Lin, Baolin Wu, Jeremy Chien, Hui Zheng, Rui Kuang:
Network-based Transcript Quantification with RNA-Seq Data. CoRR abs/1403.5029 (2014) - 2013
- [j12]Hong Cai, Changjin Hong, Timothy G. Lilburn, Armando L. Rodriguez, Sheng Chen, Jianying Gu, Rui Kuang, Yufeng Wang:
A novel subnetwork alignment approach predicts new components of the cell cycle regulatory apparatus in Plasmodium falciparum. BMC Bioinform. 14(S-12): S2 (2013) - [j11]Wei Zhang, Takayo Ota, Viji Shridhar, Jeremy Chien, Baolin Wu, Rui Kuang:
Network-based Survival Analysis Reveals Subnetwork Signatures for Predicting Outcomes of Ovarian Cancer Treatment. PLoS Comput. Biol. 9(3) (2013) - [c18]Huanan Zhang, Ze Tian, Rui Kuang:
Transfer Learning across Cancers on DNA Copy Number Variation Analysis. ICDM 2013: 1283-1288 - 2012
- [j10]Hong Cai, Changjin Hong, Jianying Gu, Timothy G. Lilburn, Rui Kuang, Yufeng Wang:
Module-based subnetwork alignments reveal novel transcriptional regulators in malaria parasite Plasmodium falciparum. BMC Syst. Biol. 6(S-3): S5 (2012) - [c17]Wei Zhang, Nicholas Johnson, Baolin Wu, Rui Kuang:
Signed network propagation for detecting differential gene expressions and DNA copy number variations. BCB 2012: 337-344 - [c16]Nicholas Johnson, Gang Fang, Rui Kuang:
Approximate subspace pattern mining for mapping copy-number variations. BCB 2012: 616 - [c15]Hong Cai, Changjin Hong, Jianying Gu, Timothy G. Lilburn, Rui Kuang, Yufeng Wang:
Prediction of novel systems components in cell cycle regulation in malaria parasite by subnetwork alignments. BIBM 2012: 1-6 - [c14]Ze Tian, Huanan Zhang, Rui Kuang:
Sparse Group Selection on Fused Lasso Components for Identifying Group-Specific DNA Copy Number Variations. ICDM 2012: 665-674 - [c13]Maoqiang Xie, TaeHyun Hwang, Rui Kuang:
Prioritizing Disease Genes by Bi-Random Walk. PAKDD (2) 2012: 292-303 - [c12]Ze Tian, Rui Kuang:
Global Linear Neighborhoods for Efficient Label Propagation. SDM 2012: 863-872 - 2011
- [j9]TaeHyun Hwang, Wei Zhang, Maoqiang Xie, Jinfeng Liu, Rui Kuang:
Inferring disease and gene set associations with rank coherence in networks. Bioinform. 27(19): 2692-2699 (2011) - [i1]TaeHyun Hwang, Wei Zhang, Maoqiang Xie, Rui Kuang:
Inferring Disease and Gene Set Associations with Rank Coherence in Networks. CoRR abs/1102.3919 (2011) - 2010
- [j8]Ze Tian, Rui Kuang:
Integrative classification and analysis of multiple arrayCGH datasets with probe alignment. Bioinform. 26(18): 2313-2320 (2010) - [c11]Rohit Gupta, Smita Agrawal, Navneet Rao, Ze Tian, Rui Kuang, Vipin Kumar:
Integrative Biomarker Discovery for Breast Cancer Metastasis from Gene Expression and Protein Interaction Data Using Error-tolerant Pattern Mining. BICoB 2010: 171-177 - [c10]Wei Zhang, Baryun Hwang, Baolin Wu, Rui Kuang:
Network propagation models for gene selection. GENSiPS 2010: 1-4 - [c9]Julie A. Jacko, Terrence Adam, Bonnie L. Westra, Marty Witrak, Ron Berkeland, Andrew F. Nelson, Adel L. Ali, Layne Johnson, Rui Kuang, Kathy LaTour, Sandra J. Potthoff, Amy Watters:
Launching: university partnership for health informatics. IHI 2010: 521-525 - [c8]Gang Fang, Rui Kuang, Gaurav Pandey, Michael S. Steinbach, Chad L. Myers, Vipin Kumar:
Subspace Differential Coexpression Analysis: Problem Definition and a General Approach. Pacific Symposium on Biocomputing 2010: 145-156 - [c7]TaeHyun Hwang, Rui Kuang:
A Heterogeneous Label Propagation Algorithm for Disease Gene Discovery. SDM 2010: 583-594
2000 – 2009
- 2009
- [j7]Ze Tian, TaeHyun Hwang, Rui Kuang:
A hypergraph-based learning algorithm for classifying gene expression and arrayCGH data with prior knowledge. Bioinform. 25(21): 2831-2838 (2009) - [c6]Thanh T. Ngo, Rui Kuang:
Partial profile alignment kernels for protein classification. GENSiPS 2009: 1-4 - [c5]Ze Tian, TaeHyun Hwang, Rui Kuang:
A hypergraph-based learning algorithm for classifying arraycgh data with spatial prior. GENSiPS 2009: 1-4 - [c4]Martin Renqiang Min, Rui Kuang, Anthony J. Bonner, Zhaolei Zhang:
Learning Random-Walk Kernels for Protein Remote Homology Identification and Motif Discovery. SDM 2009: 133-144 - 2008
- [j6]TaeHyun Hwang, Hugues Sicotte, Ze Tian, Baolin Wu, Jean-Pierre A. Kocher, Dennis A. Wigle, Vipin Kumar, Rui Kuang:
Robust and efficient identification of biomarkers by classifying features on graphs. Bioinform. 24(18): 2023-2029 (2008) - [c3]TaeHyun Hwang, Ze Tian, Rui Kuang, Jean-Pierre A. Kocher:
Learning on Weighted Hypergraphs to Integrate Protein Interactions and Gene Expressions for Cancer Outcome Prediction. ICDM 2008: 293-302 - 2007
- [j5]Iain Melvin, Eugene Ie, Rui Kuang, Jason Weston, William Stafford Noble, Christina S. Leslie:
SVM-Fold: a tool for discriminative multi-class protein fold and superfamily recognition. BMC Bioinform. 8(S-4) (2007) - 2006
- [j4]Jason Weston, Rui Kuang, Christina S. Leslie, William Stafford Noble:
Protein Ranking by Semi-Supervised Network Propagation. BMC Bioinform. 7(S-1) (2006) - 2005
- [j3]Rui Kuang, Jason Weston, William Stafford Noble, Christina S. Leslie:
Motif-based protein ranking by network propagation. Bioinform. 21(19): 3711-3718 (2005) - 2004
- [j2]Rui Kuang, Christina S. Leslie, An-Suei Yang:
Protein backbone angle prediction with machine learning approaches. Bioinform. 20(10): 1612-1621 (2004) - [j1]Christina S. Leslie, Rui Kuang:
Fast String Kernels using Inexact Matching for Protein Sequences. J. Mach. Learn. Res. 5: 1435-1455 (2004) - [c2]Rui Kuang, Eugene Ie, Ke Wang, Kai Wang, Mahira Siddiqi, Yoav Freund, Christina S. Leslie:
Profile-Based String Kernels for Remote Homology Detection and Motif Extraction. CSB 2004: 152-160 - 2003
- [c1]Christina S. Leslie, Rui Kuang:
Fast Kernels for Inexact String Matching. COLT 2003: 114-128
Coauthor Index
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