Publications

Conferences

1.      Alberto Paccanaro, Ahmed Hassan, Prajwal Bhat, Tamas Nepusz, and Haixuan Yang. SimplyGO: a Cytoscape plug-in for quick and easy graph visualization and functional analyses. In 18th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB2010), Boston, USA, July 11-13, 2010. (Poster)

2.      Hao Ma, Haixuan Yang, Irwin King, & Michael R. Lyu. Semi-nonnegative matrix factorization with global statistical consistency for collaborative filtering. CIKM09.

3.      Haixuan Yang, Irwin King, & Michael R. Lyu. Learning with consistency between Inductive functions and kernels. NIPS08. [PDF][SPOTLIGHT]

4.      Haixuan Yang, Prajwal Bhat, Hugh Shanahan, and Alberto Paccanaro. A maximal eigenvalue method for detecting process representative genes by integrating data from multiple sources. In NIPS 2008 – worshop on Learning from Multiple Sources. (Poster)

5.      Hao Ma, Haixuan Yang, Michael R. Lyu, &Irwin King. SoRec: social recommendation using probabilistic matrix factorization. CIKM08.

6.      Hao Ma, Haixuan Yang, Irwin King, & Michael R. Lyu. Learning latent semantic relations from query logs for query suggestion. CIKM08.

7.      Hao Ma,Haixuan Yang, Michael R. Lyu, & Irwin King. Mining social networks using heat diffusion processes for marketing candidates selection. CIKM08.

8.      Haixuan Yang, Irwin King, & Michael R. Lyu. DiffusionRank: a possible penicillin for Web spamming. SIGIR07. [PDF] [Matlab Code] [Presentation]

9.      Haixuan Yang, Irwin King, & Michael R. Lyu. Predictive random graph ranking on the Web. WCCI06.

10.  Yangfan Zhou, Haixuan Yang, Michael R. Lyu, & Edith C.-H. Ngai. A point-distribution index and its application to sensor grouping in wireless sensor networks. IWCMC06.

11.  Haixuan Yang, Irwin King, & Michael R. Lyu. Predictive ranking: a novel rage ranking approach by estimating the Web structure. WWW05 (Special interest tracks and posters).[PDF]

12.  Haixuan Yang, Irwin King, & Michael R. Lyu. NHDC and PHDC: non-propagating and propagating deat diffusion classifiers. ICONIP05.

Journals

1.     Pierre C. Havugimana, G. Traver Hart, Tamás Nepusz, Haixuan Yang, Andrei L. Turinsky, Zhihua Li, Peggy I. Wang, Daniel R. Boutz, Vincent Fong, Sadhna Phanse, Mohan Babu, Stephanie A. Craig, Pingzhao Hu, Cuihong Wan, James Vlasblom, Vaqaar-un-Nisa Dar, Alexandr Bezginov, Gregory W. Clark, Gabriel C. Wu, Shoshana J. Wodak, Elisabeth R.M. Tillier, Alberto Paccanaro, Edward M. Marcotte, Andrew Emili. A Census of Human Soluble Protein Complexes. Cell, Vol. 150, No. 5, 2012.

2.     Predrag Radivojac, Wyatt T Clark, Tal Ronnen Oron, Alexandra M Schnoes, Tobias Wittkop, Artem Sokolov, Kiley Graim, Christopher Funk, Karin Verspoor, Asa Ben-Hur, Gaurav Pandey, Jeffrey M Yunes, Ameet S Talwalkar, Susanna Repo, Michael L Souza, Damiano Piovesan, Rita Casadio, Zheng Wang, Jianlin Cheng, Hai Fang, Julian Gough, Patrik Koskinen, Petri Törönen, Jussi Nokso-Koivisto, Liisa Holm, Domenico Cozzetto, Daniel W A Buchan, Kevin Bryson, David T Jones, Bhakti Limaye, Harshal Inamdar, Avik Datta, Sunitha K Manjari, Rajendra Joshi, Meghana Chitale, Daisuke Kihara, Andreas M Lisewski, Serkan Erdin, Eric Venner, Olivier Lichtarge, Robert Rentzsch, Haixuan Yang, Alfonso E Romero, Prajwal Bhat, Alberto Paccanaro, Tobias Hamp, Rebecca Kassner, Stefan Seemayer, Esmeralda Vicedo, Christian Schaefer, Dominik Achten, Florian Auer, Ariane Böhm, Tatjana Braun, Maximilian Hecht, Mark Heron, Peter Hönigschmid, Thomas Hopf, Stefanie Kaufmann, Michael Kiening, Denis Krompass, Cedric Landerer, Yannick Mahlich, Manfred Roos, Jari Björne, Tapio Salakoski, Andrew Wong, Hagit Shatkay, Fanny Gatzmann, Ingolf Sommer, Mark N Wass, Michael J E Sternberg, Nives Škunca, Fran Supek, Matko Bošnjak, Panče Panov, Sašo Džeroski, Tomislav Šmuc, Yiannis A I Kourmpetis, Aalt D J van Dijk, Cajo J F ter Braak, Yuanpeng Zhou, Qingtian Gong, Xinran Dong, Weidong Tian, Marco Falda, Paolo Fontana, Enrico Lavezzo, Barbara Di Camillo, Stefano Toppo, Liang Lan, Nemanja Djuric, Yuhong Guo, Slobodan Vucetic, Amos Bairoch, Michal Linial, Patricia C Babbitt, Steven E Brenner, Christine Orengo, Burkhard Rost, Sean D Mooney, Iddo Friedberg. A large-scale evaluation of computational protein function prediction. To appear in Nature Methods.

3.      Haixuan Yang, Tamás Nepusz, & Alberto Paccanaro. Improving GO semantic similarity measures by exploring the ontology beneath the terms and modelling uncertainty. Bioinformatics, Vol. 28, No. 10, 2012.

4.      Prajwal Bhat, Haixuan Yang, Laszlo Bögre, Alessandra Devoto, & Alberto Paccanaro. Computational selection of transcriptomics experiments improves Guilt-by-Association analyses. To appear in PLoS ONE.

5.      Haixuan Yang, Michael R. Lyu, & Irwin King. A volume-based heat diffusion classifier.IEEE Transactions on Systems, Man, and Cybernetics: Part B, Vol.39, No.2, 2009. [PDF]

6.      Haixuan Yang, Irwin King, & Michael R. Lyu. The generalized dependency degree between attributes. Journal of the American Society for Information Science and Technology, Vol.58, No.14, 2007. [PDF]

7.      Haixuan Yang. Two operators on the lattice of completely regular semigroup varieties. Semigroup Forum, Vol.64, 2002. [PDF]

  1. Haixuan Yang & Chang-ming Zheng. Identity of semigroup semiring. Journal of Tianjin University of Commerce, Vol.22, No.3, 2002.

9.      Haixuan Yang. The identity of completely π-regular semigroup rings. Journal of Lanzhou University, Vol.37, No.2, 2001. [PDF]

10.  Haixuan Yang. Identities of regular semigroup rings. Semigroup Forum, Vol.57, No.2, 1998. [PDF]

11.  Haixuan Yang. Properties of a class of lattice of subvarieties of varieties of completely regular semigroups. Acta Mathematica Sinica, Vol.41, No.4, 1998. [PDF]

12.  Haixuan Yang & Xiying Zhao. Semigroups whose idempotents are primtive. Journal of Lanzhou University, Vol.34, No.3, 1998.

13.  Haixuan Yang & Yanfeng Luo, The existence of identity of periodic semigroup rings. Chinese Science Bulletin, Vol.42, No.7, 1997.

14.  M.K. Sen, H.X. Yang, & Y.Q. Guo. A note on H relation on an inverse semigroup. Journal of Pure Mathematics, Vol.14, 1997.

15.  Haixuan Yang, Cong Cao, & Bingshen Yang. The identity of periodic semigroup rings. Journal of Lanzhou University, Vol.33, No.2, 1997.

16.  Haixuan Yang. Orthogroups of which every subgroup is abelian. Journal of Lanzhou University, Vol.33, No.4, 1997.

17.  Haixuan Yang. The Join of the varieties of OLBG and ORBG. Soochow Journal of Mathematics, Vol.22, No.3, 1996. [PDF]

18.  M.K. Sen, H.X. Yang, & Y.Q. Guo. Characterizations of some kinds of regular semigroups by inverse of elements. Fiomat, Vol.10, 1996.

19.  Liu Zhongkui, and  Haixuan Yang. Excellent extensions and Smach products. Journal of Northwest Normal Univeristy, Vol.32, No.1, 1996.

20.  Haixuan Yang. The join of the varieties of completely regular semigroups. Journal of Yunnan University, Vol.18, No.2, 1996.

21.  Haixuan Yang & Zhenji Tian. The descriptions of semigropups whose H realtion is a left congruence.Journal of Lanzhou Railway University, Vol.15, No.2, 1996.

22.  Yanfeng Luo & Haixuan Yang.The congruence and its image if a left C-semigroup. Journal of Lanzhou University, Vol.31, No.4,  1995.

23.  Haixuan Yang.  An application of a cyclic matrix. Journal of Shandong Normal University, Vol.7, No.4, 1992.

24.  Shangui Tang, Zhaolin Jiang , & Haixuan Yang.  The properties of strong idempoent elements in a periodic semigroup. Journal of Linyi Normal College, No.Z1, 1992.