DNannotator: annotation software tool kit for regional genomic sequences. - Chunyu Liu 001; Tom I. Bonner; Tu H. Nguyen; Jennifer L. Lyons; Susan L. Christian; Elliot S. Gershon (Nucleic Acids Res., 2003)

Frequency Finder: a multi-source web application for collection of public allele frequencies of SNP markers. - Tu H. Nguyen; Chunyu Liu 001; Elliot S. Gershon; Francis J. McMahon (Bioinform., 2004)

SNP Cutter: a comprehensive tool for SNP PCR-RFLP assay design. - Ruifang Zhang; Zanhua Zhu; Hongming Zhu; Tu H. Nguyen; Fengxia Yao; Kun Xia; Desheng Liang; Chunyu Liu 001 (Nucleic Acids Res., 2005)

MutScreener: primer design tool for PCR-direct sequencing. - Fengxia Yao; Ruifang Zhang; Zanhua Zhu; Kun Xia; Chunyu Liu 001 (Nucleic Acids Res., 2006)

Definition and analysis of SNP-free regions of current genome wide association study databases. - Rang Qiu; Min Wu 002; Chunyu Liu 001; Hang Jiang; Lingyun Fu (BIC-TA, 2010)

eQTL epistasis: Detecting complex interaction effects between multiple loci from eQTL data. - Mingon Kang; Shuo Li 009; Chunyu Liu 001; Jean Gao (BIBM, 2013)

Inference of gene regulatory networks by integrating gene expressions and genetic perturbations. - Dong-Chul Kim; Chunyu Liu 001; Xiaoyong Wu; Baoju Zhang; Jean Gao (BIBM, 2013)

Sparse generalized canonical correlation analysis for biological model integration: A genetic study of psychiatric disorders. - Mingon Kang; Baoju Zhang; Xiaoyong Wu; Chunyu Liu 001; Jean Gao (EMBC, 2013)

eQTL Mapping Study via Regularized Sparse Canonical Correlation Analysis. - Mingon Kang; Shuo Li 009; Dong-Chul Kim; Chunyu Liu 001; Baoju Zhang; Xiaoyong Wu; Jean Gao (ICMLA (1), 2013)

Multi-block and Multi-task Learning for Integrative Genomic Study. - Mingon Kang; Dong-Chul Kim; Chunyu Liu 001; Baoju Zhang; Xiaoyong Wu; Jean Gao (BIBE, 2014)

Integration of DNA Methylation, Copy Number Variation, and Gene Expression for Gene Regulatory Network Inference and Application to Psychiatric Disorders. - Dong-Chul Kim; Mingon Kang; Baoju Zhang; Xiaoyong Wu; Chunyu Liu 001; Jean Gao (BIBE, 2014)

An integrative genomic study for multimodal genomic data using multi-block bipartite graph. - Mingon Kang; Juyoung Park; Dong-Chul Kim; Ashis Kumer Biswas; Chunyu Liu 001; Jean Gao (BIBM, 2015)

Integrative approach for inference of gene regulatory networks using lasso-based random featuring and application to Psychiatric disorders. - Dong-Chul Kim; Mingon Kang; Ashis Kumer Biswas; Chunyu Liu 001; Jean Gao (BIBM, 2015)

eQTL epistasis: detecting epistatic effects and inferring hierarchical relationships of genes in biological pathways. - Mingon Kang; Chunling Zhang; Hyung-Wook Chun; Chris H. Q. Ding; Chunyu Liu 001; Jean Gao (Bioinform., 2015)

Integrative Gene Regulatory Network inference using multi-omics data. - Neda Zarayeneh; Jung Hun Oh; Donghyun Kim 001; Chunyu Liu 001; Jean Gao; Sang C. Suh; Mingon Kang (BIBM, 2016)

Identifying cis/trans-acting expression quantitative trait loci (eQTL). - Mingon Kang; Dong-Chul Kim; Chunyu Liu 001; Jean Gao (Int. J. Data Min. Bioinform., 2017)

Integration of multi-omics data for integrative gene regulatory network inference. - Neda Zarayeneh; Euiseong Ko; Jung Hun Oh; Sang C. Suh; Chunyu Liu 001; Jean Gao; Donghyun Kim 001; Mingon Kang (Int. J. Data Min. Bioinform., 2017)

Multi-Block Bipartite Graph for Integrative Genomic Analysis. - Mingon Kang; Juyoung Park; Dong-Chul Kim; Ashis Kumer Biswas; Chunyu Liu 001; Jean Gao (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

swCAM: estimation of subtype-specific expressions in individual samples with unsupervised sample-wise deconvolution. - Lulu Chen; Chiung-Ting Wu; Chia-Hsiang Lin; Rujia Dai; Chunyu Liu 001; Robert Clarke; Guoqiang Yu; Jennifer E. Van Eyk; David M. Herrington; Yue Wang 021 (Bioinform., 2022)

CAM3.0: determining cell type composition and expression from bulk tissues with fully unsupervised deconvolution. - Chiung-Ting Wu; Dongping Du; Lulu Chen; Rujia Dai; Chunyu Liu 001; Guoqiang Yu; Saurabh Bhardwaj; Sarah J. Parker; Zhen Zhang; Robert Clarke; David M. Herrington; Yue Wang 021 (Bioinform., 2024)