- J19: Murat Kantarcioglu, Wei Jiang, Ying Liu, and Bradley Malin. A Cryptographic Approach to Securely Share and Query Genomic Sequences To appear in IEEE Transactions on Information Technology in Biomedicine
- J18: Yongjing Lin, Wenyuan Li, Keke Chen and Ying Liu. A Document
Clustering and Ranking System for Exploring MEDLINE Citations. To appear
in Jounral of the American Medical Informatics Association (JAMIA)
- J17: Wenyuan Li, Wee-Keong Ng,Ying Liu and Kok-Leong Ong. Enhancing the Effectiveness of Clustering with Spectra Analysis. IEEE Transactions on Knowledge and Data Engineering (TKDE). To Appear.
- J16: Xiuwen Zheng, Hung-Chung Huang, Wenyuan Li, Peng Liu, Quan-Zhen Li, and Ying Liu. Modeling Nonlinearity in Dilution Design Microarray Data. Bioinformatics,To Appear.
- J15: Wenyuan Li, Yanxiong Peng, Hung-Chung Huang and Ying Liu. Biomarker Discovery And Visualization In Gene Expression Data With Efficient Generalized Matrix Approximations. Journal of Bioinformatics and Computational Biology (JBCB), To Appear.
- J14: Wenyuan Li, Yongjing Lin, and Ying Liu. The Structure of Weighted Small-World Network. Physica A: Statistical Mechanics and its Applications, 378:708-718, 2007.
- J13: Yanxiong Peng,Wenyuan Li and Ying Liu. A Hybrid Approach for Biomarker Discovery from Microarray Gene Expression Data. Cancer Informatics, 2: 301-311, 2006.
- J12: MAQC Consortium. The MicroArray Quality
Control (MAQC) project shows inter- and intraplatform
reproducibility of gene expression measurements. Nature Biotechnology,
24 (9): 1151-1161, 2006.
- J11: Wenyuan Li, Ying Liu, H.-C. Huang, Yanxiong Peng, Yongjing
Lin, Wee-Keong Ng, and Kok-Leong Ong. Dynamical Systems for
Discovering
Protein Complexes and Functional Modules from Biological Networks. To
appear in IEEE/ACM Transactions on Computational Biology and
Bioinformatics.
- J10: Ying Liu, Shamkant B. Navathe, Alex Pivoshenko, Venu Dasigi, Ray Dingledine, and Brian J. Ciliax. Text Analysis of MEDLINE for Discovering Functional Relationships among Genes: Evaluation of Keyword Extraction Weighting Schemes.
International Journal of Data Mining and Bioinformatics, 1:88-110, 2006.
- J09: Ying Liu. Serum Proteomic Pattern Analysis for Early Cancer Detection.
Technology in Cancer Research and Treatment, 5: 61-66, 2006.
- J08: Ying Liu, Shamkant B. Navathe, Jorge Civera, Venu
Dasigi, Ashwin Ram,
Brian J. Ciliax, and Ray Dingledine. (2005)
Text Mining Biomedical Literature for Discovering Gene-to-Gene
Relationships.
A Comparative Study of Algorithms.
IEEE/ACM Transactions on Computational Biology and Bioinformatics 2:62-76
- J07: Ying Liu. (2004) A Comparative Study of Feature Selection Methods
for Drug Discovery.
Journal of Chemical Information and Computer Sciences 44: 1823-1828.
- J06: Ying Liu. (2004) Active learning with support vector machine
applied to gene expression
data analysis for cancer classification.
Journal of Chemical Information and Computer Sciences 44: 1936-1941.
- J05: F.X. Kong, Ying Liu et al. (2000) Biochemical responses of the
mycorrhizae in Pinus
massoniana to combined effects of Al, Ca, and low pH. Chemosphere
40: 311-318.
- J04:
Ying Liu, Zhang Min. (1999) Study of Strontium and Boron as Antidotes
to
Fluoride Toxicity. Toxicological and Environmental Chemistry 70:1-7.
- J03:
F.X. Kong, C.L. Zhou, Ying Liu (1998) Biochemical and cytological
responses of ectomycorrhizae in Pinus
massoniana to artificial acid rain. Chemosphere 37: 179-187.
- J02:
F.X. Kong, W. Hu, Ying Liu (1998) Molecular structure and biochemical
toxicity of four halogeno-benzenes
on the unicellular green alga Selenastrum capricornutum.
Environmental and Experimental Botany. 40: 105-111.
- J01:
F.X. Kong, Ying Liu, F.-D. Cheng (1997) Aluminum toxicity and nutrient utilization
in the mycorrihizal fungus Hebeloma mesophacus.
Bull. Environ. Contam. Toxicol. 59: 125-131.
- C10: Wenyuan Li, and Ying Liu. Modeling Species-Genes Data for Efficient Phylogenetic Inference. To appear in Computational Systems Biology Conference, San Diego, CA, August 13-17, 2007
- C09: Juan Miguel Gomez, Mariano Rico, Francisco Garcia-Sanchez, Ying Liu, and Marilia Terra de Mello. BIRD: Biomedical Information Integration and
Discovery with Semantic Web Services.
2nd. International Work-Conference on the Interplay between Natural and Artificial Computation (IWINAC 2007), Murcia, Spain, p561-570
- C08: Wenyuan Li and Ying Liu. Generalized Replicator Dynamics for Efficient Phylogenetic Inference. 7th SIAM International Conference on Data Mining (SDM) Workshop on Data Mining for Biomedical Informatics, Minneapolis, USA, April 2007.
- C07: M. Qiu, Z. Jia, C. Xue, Z.Shao, Y. Liu and E. H.-M. Sha, Loop Scheduling to Minimize Cost with Data Mining and Prefetching for Heterogeneous DSP, IASTED Parallel and Distributed Computing and Systems (PDCS) , pp. 572-577, Dallas, November 13 - 15, 2006
- C06: Wenyuan Li, Yanxiong Peng, H.-C. Huang, and Ying Liu.(2006) Efficient Generalized
Matrix Approximations for Biomarker Discovery and Visualization in Gene Expression
Data. To Appear in CSB 2006.
- C05: Guanglei Song, Yu Qian, Ying Liu, Kang Zhang. (2006) Oasis: a Mapping and Integration Framework for Biomedical Ontologies.
19th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2006).
- C04: Ying Liu. (2005) Drug Design by Machine Learning: Ensemble Learning for QSAR Modeling.
Procedding of The Fourth International Conference on Machine Learning and Applications (ICMLA'05), Los Angelos CA, December 15-17, 2005, p187-193
- C03: N. Polavarapu, S. B. Navathe, R. Ramnarayanan, A. Haque, S. Sahay, Ying Liu. (2005) Investigation into Biomedical Literature
Classification using Support Vector Machines. Proceedings of 2005 IEEE
Computational Systems Bioinformatics
Conference (CSB2005), Stanford University, August 8-11, 2005.
- C02: Ying Liu, Brian J. Ciliax, Karin Borges, Venu Dasigi, Ashwin Ram,
Shamkant B. Navathe,
and Ray Dingledine. Comparison of Two Schemes for Automatic Keyword
Extraction from MEDLINE
for Functional Gene Clustering. Proceedings of 2004 IEEE
Computational Systems Bioinformatics
Conference (CSB2004), Stanford University, August 16-19, 2004, pp394-404.
- C01: Ying Liu, Martin Brandon, Shamkant Navathe, Ray Dingledine, and Brian
J. Ciliax.
Text mining functional keywords associated with genes.
11th MEDInfo 2004 (American Medical Informatics Association Official
Annual Conference),
San Francisco, September 7-11, 2004, pp292-296.
- Ying Liu et al. (2004) Evaluation of a New Algorithm for
Keyword-Based Functional Clustering of Genes.
RECOMB March 26-31, 2004 San Diego, CA.
- R.J. Dingledine, Ying Liu, B.J. Ciliax, J. Civera, A. Ram, S.B.
Navathe.
Evaluating MEDLINE Text-Mining Strategies for Interpreting DNA
Microarray Expression Profiles.
Program No. 250.1. 2002 Abstract Viewer/Itinerary Planner. Washington,
DC: Society for Neuroscience, 2002
-
B.J. Ciliax, M. Brandon, Ying Liu, S.B. Navathe, R. Dingledine. Data
Mining Keywords Associated with Genes
Identified by Expression Profiling with DNA Microarrays. Program No.
249. 2001 Abstract Viewer/Itinerary Planner. Washington, DC: Society for
Neuroscience, 2001
- Assisted with the Chapter 29 (Emerging Database Technologies and
Applications) of
Fundamentals of Database Systems, Elmasri and Navathe, 4th
edition, Addison-Wesley, 2003
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