Reconstruction of human protein interolog network using evolutionary conserved network

by Huang, Tao-Wei, Lin, Chung-Yen, Kao, Cheng-Yan
Published 2007

SQUAT: a Sequencing Quality Assessment Tool for data quality assessments of genome assemblies

by Yang, Li-An, Chang, Yu-Jung, Chen, Shu-Hwa, Lin, Chung-Yen, Ho, Jan-Ming
Published in BMC Genomics (2019)

The unique probe selector: a comprehensive web service for probe design and oligonucleotide arrays

by Chen, Shu-Hwa, Lo, Chen-Zen, Tsai, Ming-Chi, Hsiung, Chao A, Lin, Chung-Yen
Published 2008

A hub-attachment based method to detect functional modules from confidence-scored protein interactions and expression profiles

by Chin, Chia-Hao, Chen, Shu-Hwa, Ho, Chin-Wen, Ko, Ming-Tat, Lin, Chung-Yen
Published 2010

Compartment-specific transcriptomics in a reef-building coral exposed to elevated temperatures

by Mayfield, Anderson B, Wang, Yu-Bin, Chen, Chii-Shiarng, Lin, Chung-Yen, Chen, Shu-Hwa
Published in Mol Ecol (2014)

Precise genotyping and recombination detection of Enterovirus

by Lin, Chieh-Hua, Wang, Yu-Bin, Chen, Shu-Hwa, Hsiung, Chao Agnes, Lin, Chung-Yen
Published in BMC Genomics (2015)

De Novo Assembly of the Whole Transcriptome of the Wild Embryo, Preleptocephalus, Leptocephalus, and Glass Eel of Anguilla japonica and Deciphering the Digestive and Absorptive Cap...

by Hsu, Hsiang-Yi, Chen, Shu-Hwa, Cha, Yuh-Ru, Tsukamoto, Katsumi, Lin, Chung-Yen, Han, Yu-San
Published in PLoS One (2015)

Genomic shotgun array: a procedure linking large-scale DNA sequencing with regional transcript mapping

by Li, Ling-Hui, Li, Jian-Chiuan, Lin, Yung-Feng, Lin, Chung-Yen, Chen, Chung-Yung, Tsai, Shih-Feng
Published 2004

Hubba: hub objects analyzer—a framework of interactome hubs identification for network biology

by Lin, Chung-Yen, Chin, Chia-Hao, Wu, Hsin-Hung, Chen, Shu-Hwa, Ho, Chin-Wen, Ko, Ming-Tat
Published 2008

UPS 2.0: unique probe selector for probe design and oligonucleotide microarrays at the pangenomic/ genomic level

by Chen, Shu-Hwa, Lo, Chen-Zen, Su, Sheng-Yao, Kuo, Bao-Han, Hsiung, Chao A, Lin, Chung-Yen
Published 2010

cytoHubba: identifying hub objects and sub-networks from complex interactome

by Chin, Chia-Hao, Chen, Shu-Hwa, Wu, Hsin-Hung, Ho, Chin-Wen, Ko, Ming-Tat, Lin, Chung-Yen
Published in BMC Syst Biol (2014)

Subset selection of high-depth next generation sequencing reads for de novo genome assembly using MapReduce framework

by Fang, Chih-Hao, Chang, Yu-Jung, Chung, Wei-Chun, Hsieh, Ping-Heng, Lin, Chung-Yen, Ho, Jan-Ming
Published in BMC Genomics (2015)

ATACgraph: Profiling Genome-Wide Chromatin Accessibility From ATAC-seq

by Lu, Rita Jui-Hsien, Liu, Yen-Ting, Huang, Chih Wei, Yen, Ming-Ren, Lin, Chung-Yen, Chen, Pao-Yang
Published in Front Genet (2021)

Metagenomic analysis reveals a functional signature for biomass degradation by cecal microbiota in the leaf-eating flying squirrel (Petaurista alborufus lena)

by Lu, Hsiao-Pei, Wang, Yu-bin, Huang, Shiao-Wei, Lin, Chung-Yen, Wu, Martin, Hsieh, Chih-hao, Yu, Hon-Tsen
Published 2012

POWER: PhylOgenetic WEb Repeater—an integrated and user-optimized framework for biomolecular phylogenetic analysis

by Lin, Chung-Yen, Lin, Fan-Kai, Lin, Chieh Hua, Lai, Li-Wei, Hsu, Hsiu-Jun, Chen, Shu-Hwa, Hsiung, Chao A.
Published 2005

PALM: A Paralleled and Integrated Framework for Phylogenetic Inference with Automatic Likelihood Model Selectors

by Chen, Shu-Hwa, Su, Sheng-Yao, Lo, Chen-Zen, Chen, Kuei-Hsien, Huang, Teng-Jay, Kuo, Bo-Han, Lin, Chung-Yen
Published 2009

Simultaneous Detection of Multiple Fish Pathogens Using a Naked-Eye Readable DNA Microarray

by Chang, Chin-I, Hung, Pei-Hsin, Wu, Chia-Che, Cheng, Ta Chih, Tsai, Jyh-Ming, Lin, King-Jung, Lin, Chung-Yen
Published 2012

TEA: the epigenome platform for Arabidopsis methylome study

by Su, Sheng-Yao, Chen, Shu-Hwa, Lu, I-Hsuan, Chiang, Yih-Shien, Wang, Yu-Bin, Chen, Pao-Yang, Lin, Chung-Yen
Published in BMC Genomics (2016)

A gene profiling deconvolution approach to estimating immune cell composition from complex tissues

by Chen, Shu-Hwa, Kuo, Wen-Yu, Su, Sheng-Yao, Chung, Wei-Chun, Ho, Jen-Ming, Lu, Henry Horng-Shing, Lin, Chung-Yen
Published in BMC Bioinformatics (2018)

The role of the bacterial protease Prc in the uropathogenesis of extraintestinal pathogenic Escherichia coli

by Huang, Wen-Chun, Lin, Chung-Yen, Hashimoto, Masayuki, Wu, Jiunn-Jong, Wang, Ming-Cheng, Lin, Wei-Hung, Chen, Chang-Shi, Teng, Ching-Hao
Published in J Biomed Sci (2020)