Enabling Data Analysis on High-Throughput Data in Large Data Depository Using Web-Based Analysis Platform - A Case Study on Integrating QUEST with GenePattern in Epigenetics Research. - Terry Camerlengo; Hatice Gulcin Ozer; Pearlly Yan; Jeffrey D. Parvin; Tim Hui-Ming Huang; Kun Huang 001; Mingxiang Teng; Lang Li 001; Yunlong Liu; Francisco Perez; Tahsin M. Kurç (BIBM, 2009)

A Biclustering Method to Discover Co-regulated Genes Using Diverse Gene Expression Datasets. - Doruk Bozdag; Jeffrey D. Parvin; Ümit V. Çatalyürek (BICoB, 2009)

A Comprehensive Analysis Workflow for Genome-Wide Screening Data from ChIP-Sequencing Experiments. - Hatice Gulcin Ozer; Doruk Bozdag; Terry Camerlengo; Jiejun Wu; Yi-Wen Huang; Timothy D. R. Hartley; Jeffrey D. Parvin; Tim Hui-Ming Huang; Ümit V. Çatalyürek; Kun Huang 001 (BICoB, 2009)

Comparative study on ChIP-seq data: normalization and binding pattern characterization. - Cenny Taslim; Jiejun Wu; Pearlly Yan; Greg Singer; Jeffrey D. Parvin; Tim Hui-Ming Huang; Shili Lin; Kun Huang 001 (Bioinform., 2009)

Inference of hierarchical regulatory network of estrogen-dependent breast cancer through ChIP-based data. - Fei Gu; Hang-Kai Hsu; Pei-Yin Hsu; Jiejun Wu; Yilin Ma; Jeffrey D. Parvin; Tim Hui-Ming Huang; Victor X. Jin (BMC Syst. Biol., 2010)

Identifying smoking associated gene co-expression networks related to oral cancer initiation. - Jie Zhang 010; Thomas Knobloch; Jeffrey D. Parvin; Christopher Weghorst; Kun Huang 001 (BIBM Workshops, 2011)

Predicting Parkinson's disease related genes using frequent gene co-expression analysis. - Jie Zhang 010; Shiwei Ni; Jeffrey D. Parvin; Yufeng Yang; Kun Huang 001 (BIBM Workshops, 2011)

Comparing Multiple Chip-Sequencing Experiments. - Hatice Gulcin Ozer; Yi-Wen Huang; Jiejun Wu; Jeffrey D. Parvin; Tim Hui-Ming Huang; Kun Huang 001 (J. Bioinform. Comput. Biol., 2011)

Weighted Frequent Gene Co-expression Network Mining to Identify Genes Involved in Genome Stability. - Jie Zhang 010; Kewei Lu; Yang Xiang; Muhtadi Islam; Shweta Kotian; Zeina Kais; Cindy Lee; Mansi Arora; Hui-wen Liu; Jeffrey D. Parvin; Kun Huang 001 (PLoS Comput. Biol., 2012)

Gene co-expression analysis predicts genetic aberration loci associated with colon cancer metastasis. - Jie Zhang 010; Shiwei Ni; Yang Xiang; Jeffrey D. Parvin; Yufeng Yang; Yongjian Zhou; Kun Huang 001 (Int. J. Comput. Biol. Drug Des., 2013)

Mining massive SNP data for identifying associated SNPs and uncovering gene relationships. - Amy Webb; Aaron Albin; Zhan Ye; Majid Rastegar-Mojarad; Kun Huang 001; Jeffrey D. Parvin; Wolfgang Sadee; Lang Li 001; Simon M. Lin; Yang Xiang (BCB, 2014)

MMAD: microarray microdissection with analysis of differences is a computational tool for deconvoluting cell type-specific contributions from tissue samples. - David A. Liebner; Kun Huang; Jeffrey D. Parvin (Bioinform., 2014)

MICA: MicroRNA integration for active module discovery. - Ayat Hatem; Kamer Kaya; Jeffrey D. Parvin; Kun Huang 001; Ümit V. Çatalyürek (BCB, 2015)