The Protein Information Resource: an integrated public resource of functional annotation of proteins. - Cathy H. Wu; Hongzhan Huang; Leslie Arminski; Jorge Castro-Alvear; Yongxing Chen; Zhang-Zhi Hu; Robert S. Ledley; Kali C. Lewis; Hans-Werner Mewes; Bruce C. Orcutt; Baris E. Suzek; Akira Tsugita; et al. (Nucleic Acids Res., 2002)

The Protein Information Resource. - Cathy H. Wu; Lai-Su L. Yeh; Hongzhan Huang; Leslie Arminski; Jorge Castro-Alvear; Yongxing Chen; Zhang-Zhi Hu; Panagiotis Kourtesis; Robert S. Ledley; Baris E. Suzek; Cholanayakanahalli R. Vinayaka; Jian Zhang 051; et al. (Nucleic Acids Res., 2003)

iProLINK: an integrated protein resource for literature mining. - Zhang-Zhi Hu; Inderjeet Mani; Vincent Hermoso; Hongfang Liu; Cathy H. Wu (Comput. Biol. Chem., 2004)

The iProClass integrated database for protein functional analysis. - Cathy H. Wu; Hongzhan Huang; Anastasia N. Nikolskaya; Zhang-Zhi Hu; Winona C. Barker (Comput. Biol. Chem., 2004)

The PIR integrated protein databases and data retrieval system. - Hongzhan Huang; Zhang-Zhi Hu; Baris E. Suzek; Cathy H. Wu (Data Sci. J., 2004)

PIRSF: family classification system at the Protein Information Resource. - Cathy H. Wu; Anastasia N. Nikolskaya; Hongzhan Huang; Lai-Su L. Yeh; Darren A. Natale; Cholanayakanahalli R. Vinayaka; Zhang-Zhi Hu; Raja Mazumder; Sandeep Kumar; Panagiotis Kourtesis; Robert S. Ledley; Baris E. Suzek; et al. (Nucleic Acids Res., 2004)

Dynamically Generating a Protein Entity Dictionary Using Online Resources. - Hongfang Liu; Zhang-Zhi Hu; Cathy H. Wu (ACL, 2005)

Literature mining and database annotation of protein phosphorylation using a rule-based system. - Zhang-Zhi Hu; Meenakshi Narayanaswamy; K. E. Ravikumar; K. Vijay-Shanker; Cathy H. Wu (Bioinform., 2005)

DynGO: a tool for visualizing and mining of Gene Ontology and its associations. - Hongfang Liu; Zhang-Zhi Hu; Cathy H. Wu (BMC Bioinform., 2005)

Substring selection for biomedical document classification. - Bo Han; Zoran Obradovic; Zhang-Zhi Hu; Cathy H. Wu; Slobodan Vucetic (Bioinform., 2006)

BioThesaurus: a web-based thesaurus of protein and gene names. - Hongfang Liu; Zhang-Zhi Hu; Jian Zhang 051; Cathy H. Wu (Bioinform., 2006)

An online literature mining tool for protein phosphorylation. - X. Yuan; Zhang-Zhi Hu; H. T. Wu; Manabu Torii; Meenakshi Narayanaswamy; K. E. Ravikumar; K. Vijay-Shanker; Cathy H. Wu (Bioinform., 2006)

Research Paper: Quantitative Assessment of Dictionary-based Protein Named Entity Tagging. - Hongfang Liu; Zhang-Zhi Hu; Manabu Torii; Cathy H. Wu; Carol Friedman (J. Am. Medical Informatics Assoc., 2006)

Mapping Gene/Protein Names in Free Text to Biomedical Databases. - Hongfang Liu; Manabu Torii; Zhang-Zhi Hu; Cathy H. Wu (ICDM Workshops, 2007)

Dependence network modeling for biomarker identification. - Peng Qiu; Z. Jane Wang 001; K. J. Ray Liu; Zhang-Zhi Hu; Cathy H. Wu (Bioinform., 2007)

Framework for a Protein Ontology. - Darren A. Natale; Cecilia N. Arighi; Winona C. Barker; Judith A. Blake; Ti-Cheng Chang; Zhang-Zhi Hu; Hongfang Liu; Barry Smith 001; Cathy H. Wu (BMC Bioinform., 2007)

A comparison study on algorithms of detecting long forms for short forms in biomedical text. - Manabu Torii; Zhang-Zhi Hu; Min Song 001; Cathy H. Wu; Hongfang Liu (BMC Bioinform., 2007)

iProLINK: A Framework for Linking Text Mining with Ontology and Systems Biology. - Zhang-Zhi Hu; K. Bretonnel Cohen; Lynette Hirschman; Alfonso Valencia; Hongfang Liu; Michelle G. Giglio; Cathy H. Wu (BIBM, 2008)

Document Classification for Mining Host Pathogen Protein-Protein Interactions. - Guixian Xu; Lanlan Yin; Manabu Torii; Zhendong Niu; Cathy H. Wu; Zhang-Zhi Hu; Hongfang Liu (BIBM, 2008)

Learning from Positive and Unlabeled Documents for Retrieval of Bacterial Protein-Protein Interaction Literature. - Hongfang Liu; Manabu Torii; Guixian Xu; Zhang-Zhi Hu; Johannes Goll (BioLINK@ISMB/ECCB, 2008)

Bioinformatic Databases. - Katherine G. Herbert; Junilda Spirollari; Jason Tsong-Li Wang; William H. Piel; John D. Westbrook; Winona C. Barker; Zhang-Zhi Hu; Cathy H. Wu (Wiley Encyclopedia of Computer Science and Engineering, 2008)

Information Extraction of Protein Phosphorylation from Biomedical Literature. - Meenakshi Narayanaswamy; K. E. Ravikumar; Zhang-Zhi Hu; K. Vijay-Shanker; Cathy H. Wu (Information Retrieval in Biomedicine, 2009)

Support Vector Machine-Based Mucin-Type O-linked Glycosylation Site Prediction Using Enhanced Sequence Feature Encoding. - Manabu Torii; Hongfang Liu; Zhang-Zhi Hu (AMIA, 2009)

Generating Abstract Networks Using Multi-relational Biological Data. - Paul Caravelli; Mitchell Beard; Brian Gopalan; Lisa Singh; Zhang-Zhi Hu (IV, 2009)

Research Paper: BioTagger-GM: A Gene/Protein Name Recognition System. - Manabu Torii; Zhang-Zhi Hu; Cathy H. Wu; Hongfang Liu (J. Am. Medical Informatics Assoc., 2009)

Evaluating gene/protein name tagging and mapping for article retrieval. - Chong Min Lee; Manabu Torii; Zhang-Zhi Hu; Yi-Ting Tsai; Jinesh Shah; Hongfang Liu (Semantic Mining in Biomedicine, 2010)

Document classification for mining host pathogen protein-protein interactions. - Lanlan Yin; Guixian Xu; Manabu Torii; Zhendong Niu; José M. Maisog; Cathy H. Wu; Zhang-Zhi Hu; Hongfang Liu (Artif. Intell. Medicine, 2010)

dbOGAP - An Integrated Bioinformatics Resource for Protein O-GlcNAcylation. - Jinlian Wang; Manabu Torii; Hongfang Liu; Gerald W. Hart; Zhang-Zhi Hu (BMC Bioinform., 2011)