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Journal

Schulte J., Sepp K. J., Wu C., Hong P., Littleton J. T. (2011) High-Content Chemical and RNAi Screens for Suppressors of Neurotoxicity in a Huntington's Disease Model. PLoS One

Friedman AA., Tucker G., Singh R., Yan D., Vinayagam A., Hu Y., Binari R., Hong P., Sun X., Porto M., Pacifico S., Murali T., Finley Jr. R. L., Asara J. M., Berger B., Perrimon N. (2011) Proteomic and Functional Genomic Landscape of Receptor Tyrosine Kinase and Ras to Extracellular Signal–Regulated Kinase Signaling. Science Signaling 4(196)

Warner J. L., Anick P., Hong P., and Xue N. (2011) Natural Language Processing and the Oncologic History: Is There a Match? Journal of Oncology Practice 2011 July; e15-e-19.

Shang Y., Haynes P., Pírez N., Harrington K. I., Guo F., Pollack J., Hong P., Griffith L. C., and Rosbash M. (2011) Imaging analysis of clock neurons reveals light buffers the wake-promoting effect of dopamine. Nature Neuroscience, 14, 889–895.

Li L., Karabacaka N. M., Cobba J. S., Wang Q., Hong P*, Agara J.N.*. (2010) Memory Efficient Calculation of the Isotopic Mass States of a Molecule. Rapid Communications in Mass Spectrometry, 2010 Sep 30; 24(18):2689–2696.
Wu, C., Schulte J., Sepp K.J., Littleton J.T., and Hong P. (2010) Automatic Robust Neurite Detection and Morphological Analysis of Neuronal Cell Cultures in High-content Screening. Neuroinformatics. 2010 Jun;8(2):83-100.
Schulte J., Sepp K., Jorquera R., Wu C,. Song Y., Hong P., and Littleton J.T. (2010) DMob4/Phocein regulates synapse formation, axonal transport, and microtubule organization. Journal of Neuroscience. 2010, 30(15):5189-5203.
Schoemans, R., Aigrot M.S., Wu C., Maree R., Hong P., Belachew S., Josse C., Lubetzki C., and Bours V. (2010). Oligodendrocyte development and myelinogenesis are not impaired by high concentrations of phenylalanine or its metabolites. J Inherit Metab Dis, 2010 Apr;33(2):113-20.
Sun X. and Hong P. (2009). Automatic inference of multicellular regulatory networks using informative priors. International Journal of Computational Biology and Drug Design 2009, 2(2):115-133.
Karabacak N.M., Li L., Tiwari A., Hayward L.J., Hong P., Easterling M.L., and Agar A.N. (2009). Sensitive and specific identification of wild-type and variant proteins from 8 to 669 kDa using top-down mass spectrometry. Molecular & Cellular Proteomics. 2009 Apr;8(4):846-56.
Zhou R., Hotta I., Denli A.M., Hong P., Perrimon N., and Hannon G.J. (2008). Comparative Analysis of Argonaute-Dependent Small RNA Pathways in Drosophila. Molecular Cell. 2008 Nov 21;32(4):592-9
Li L., Kresh J.A., Karabacak N.M., Cobb J.S., Agar J.N., and Hong P. (2008). A Hierarchical Algorithm for Calculating the Isotopic Fine Structures of Molecules. Journal of the American Society for Mass Spectrometry, 19(12), pp 1867-1874.
Sepp K.J., Hong P., Lizarraga S.B., Liu J.S., Mejia L.A., Walsh C.A., Perrimon N. (2008). Identification of neural outgrowth genes using genome-wide RNAi. PLoS Genet. 2008 Jul 4;4(7):e1000111.
Sun X. and Hong P. Computational Modeling of Caenorhabditis elegans Vulval Induction. Bioinformatics. 2007;23(13):i499-i507.
Kulkarni, M. M., Booker, M., Silver, S. J., Friedman, A., Hong, P., Perrimon, N., Mathey-Prevot, B. (2006) Evidence of off-target effects associated with long dsRNAs in Drosophila melanogaster cell-based assays. Nature Methods. 3(10):833-838
Hong, P., Liu, X. S., Zhou, Q., Lu, Q., Liu, J. S., and Wong, W. H. A boosting approach for motif modeling using ChIP-chip Data, Bioinformatics, 21, pp. 2636-2643.
Hong, P. and Wong, W. H. GeneNotes: A novel information management software for biologists, BMC Bioinformatics 2005, 6:20.
Hong, P., Zhong, S., Wong, W. H. (2005) Towards Ubiquitous Bio-information Computing: Data Protocols, Middleware, and Web service for Heterogeneous Bio-information Integration and Retrieval. International Journal Software Engineering and Knowledge Engineering, special issue on Software and Knowledge Engineering Support in Bioinformatics. 15(3), 475-485.
Hong, P. and Huang, T. S. (2004) Spatial pattern discovery by learning a probabilistic parametric model from multiple attributed relational graphs. Journal of Discrete Applied Mathematics, vol. 130, pp. 113-135.
Hong, P., Wen, Z., and Huang, T. S. (2002) Real-time speech-driven expressive synthetic talking faces using neural networks. IEEE Transaction on Neural Networks, 13(4), pp. 916-927.
Hong, P., Wen, Z., and Huang, T. S. (2001) IFACE: A 3D synthetic talking face. International Journal of Image and Graphics, 1(1), pp. 19-26.

Conference

Anick P., Hong P., Xue N., and Anick D. I2B2 2010 Challenge: Machine Learning for Information Extraction from Patient Records. Fourth i2b2/VA Shared-Task and Workshop Challenges in Natural Language Processing for Clinical Data, Washington, DC. November 2010.
Lin, C. and Hong P. Novel Morphological Phenotypes Discovery in High-Content Screens Using Underused Features. in International Conference on Bioinformatics and Computational Biology. 2010. Honolulu, Hawaii, USA.
Sun X. and Hong P. Improving Automatic Inference of the Biological Network Governing C. elegans Vulval Induction by Incorporating Interaction Data. Biocomp 2008.
Lin C., Mak W., Hong P., Sepp K., Perrimon N. Intelligent Interfaces for Mining Large-Scale RNAi-HCS Image Databases, IEEE International Symposium on Bioinformatics and Bioengineering. 2007.
Hong, P. (2006). Interactive Analysis of High-Content Cellular Images via Relevant Feedback. 2006 Workshop on Multiscale Biological Imaging, Data Mining and Informatics, Santa Barbara, CA, USA.
Hong, P., K. J. Sepp, et al. (2006). Intelligent Interfaces for Interactive Analysis of High-Content Cellular Images. Frontiers in Live Cell Imaging, NIH, Bethesda, MD.
Hong, P., Zhong, S., Wong, W. H. (2004) Towards Ubiquitous Bio-information Computing: Data Protocols, Middleware, and Web service for Heterogeneous Bio-information Integration and Retrieval. Proc. IEEE 4th Sym. on Bioinformatics and Bioengineering. 2004:57-64.
Chai, J., Hong, P., and Zhou, M. X. (2004) A Probabilistic Approach to Reference Resolution in Multimodal User Interface. International Conference on Intelligent User Interfaces, Madeira, Portugal, Jan. 2004.
Chai, J., Hong, P., Zhou, M., and Prasov, Z. (2004) Optimization in Multimodal Interpretation. The 42nd Annual Conference of Association of Computational Linguistics, Barcelona, Spain. July 22-24, 2004.
Chai, J., Prasov, Z., and Hong, P. (2004) Performance Evaluation and Error Analysis for Multimodal Interpretation in Conversational Systems. In Proceedings of HLT-NAACL, Boston, MA, May 3-7, 2004.
Hong, P. and Huang, T. S. (2002) Inexact spatial pattern mining. Workshop on Discrete Mathematics and Data Mining. 2002.
Hong, P., Wen, Z., Huang, T. S., and Shum, H. Y. (2002) Real-time speech-driven 3D face animation. International Symposium on 3D Data Processing Visualization Transmission, Padova, Italy, June 2002.
Hong, P. and Huang, T. S. (2002) Multimodal temporal pattern mining. International Conference on Pattern Recognition. 2002.
Huang, T. S. and Hong, P. (2002) Exemplar-based face and facial motion tracking. International Conference on Acoustics, Speech, and Signal Processing, 2002.
Hong, P. and Huang, T. S. (2002) Unsupervised temporal pattern extraction and association. International Conference on Acoustics, Speech, and Signal Processing, 2002.
Hong, P. and Huang, T. S. (2001) Learning the isomorphic sub-graph from multiple attributed relation graphs. IWCIA and ENTCS 2001.
Hong, P., Wen, Z., and Huang, T. S. (2001) An integrated framework for face modeling, facial motion analysis and synthesis. ACM Multimedia 2001.
Hong, P., Wen, Z., and Huang, T. S. (2001) Real-time speech-driven avatar with constant short time delay. EUROIMAGE ICAV3D 2001.
Hong, P., Wen, Z., Huang, T. S., and Chan, M. T. (2001) Speech-driven avatars. Army Research Lab Symposium 2001.
Hong, P., Tian, Q., and Huang, T. S. (2000) Incorporate support vector machines to content-based image retrieval with relevant feedback. IEEE International Conference on Image Processing, Vancouver, Canada, Sep. 10-13, 2000.
Hong, P. and Huang, T. S. (2000) Learning to extract multi-temporal signal patterns from a temporal signal sequence. International Conference on Pattern Recognition, Barcelona, Spain, Sep 3-7, 2000.
Hong, P., Turk, M., and Huang, T. S., Constructing finite state machines for fast gesture recognition. International Conference on Pattern Recognition, Barcelona, Spain, Sep 3-7, 2000.
Wang, R., Hong, P., and Huang, T. S. (2000) An automatic moving object extraction system for video indexing. International Conference on Pattern Recognition, Barcelona, Spain, Sep 3-7, 2000.
Huang, T. S., Cohen, I., Hong, P., and Li, Y. (2000) IA3: intelligent affective animated agents. International Conference on Image and Graphic Technology toward 21 Century and Beyond, Tianjin, China, August 16-18, 2000.
Tian, Q., Hong, P., and Huang, T. S. (2000) Update relevant image weights for content-based image retrieval using support vector machines. IEEE International Conference on Multimedia and Expo, Hilton New York & Towers, New York, NY, July 30 - Aug. 2, 2000.
Hong, P., Wang, R., Huang, T. S. (2000) Learning patterns from images by combining soft decisions and hard decisions. IEEE Conference on Computer Vision and Pattern Recognition, Hilton Head Island, South Carolina, June 13-15, 2000.
Hong, P., Turk, M., and Huang, T. S. (2000) Gesture modeling and recognition using finite state machines. IEEE International Conference on Automatic Face and Gesture Recognition, March 28-30, 2000, Grenoble, France.
Hong, P. and Huang, T. S. (2000) Extracting the recurring patterns from image. Asian Conference on Computer Vision, Jan. 5-8, 2000, Taipei, Taiwan.
Hong, P. and Huang, T. S. (1999) Natural mouse - a novel human-computer interface. International Conference on Image Processing, Oct 24-28, 1999, Kobe, Japan.
Hong, P., Ray, S. R., and Huang, T. S. (1999) A new scheme for extracting multi temporal sequence patterns. International Joint Conference on Neural Networks, July 10-16, 1999, Washington DC. USA.
Hong, P., Huang, T. S., and Lin X. (1988) Mouth motion learning and generating from observations. IEEE Workshop on Multimedia Signal Processing, Dec. 7-9, 1998, Los Angeles, California, USA.
Si, Y., Hong, P., et al. (1995) A synchronization model for multimedia presentation with user interaction. National Conference on Multimedia Technology, Nov. 1995, Guangzhou, P. R. China.

Book chapter contributions

Wen, Z., Hong, P., Tu, J., and Huang, T. S. (2003) Learning 3D Face Deformation Models: Methods and Applications. in 3D Modeling and Animation: Synthesis and Analysis Techniques for the Human Body, Idea Group Inc., Hershey, PA 17033, USA.
Hong, P., Wen, Z., Huang, T. S. (2002) Speech-driven face animation. in MPEG-4 Facial Animation - The Standard, implementations and applications, John Wiley & Sons, ISBN 0-470-84465-5.
Hong, P., Wen, Z., Li Y., and Huang, T. S. (2000) Avatars. in Computer Science Handbook of the Army Research Lab, ADID FedLab.