CLASSEQ: Classification of Sequences via Comparative Analysis of Multiple Genomes. - Kwangmin Choi; Youngik Yang; Sun Kim (ICMLA, 2007)

BioVLAB-Microarray: Microarray Data Analysis in Virtual Environment. - Youngik Yang; Jong Youl Choi; Kwangmin Choi; Marlon E. Pierce; Dennis Gannon; Sun Kim (eScience, 2008)

Experience report: issues in comparing gene function annotation in text. - Youngik Yang; Sun Kim (SIGDOC, 2009)

Annotation confidence score for genome annotation: a genome comparison approach. - Youngik Yang; Donald Gilbert; Sun Kim (Bioinform., 2010)

A novel K-mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters. - Youngik Yang (BCB, 2011)

BioVLAB-MMIA: A Reconfigurable Cloud Computing Environment for microRNA and mRNA Integrated Analysis. - Hyungro Lee; Youngik Yang; Heejoon Chae; Seungyoon Nam; Donghoon Choi; Patanachai Tangchaisin; Chathura Herath; Suresh Marru; Kenneth P. Nephew; Sun Kim (BIBM, 2011)

A novel k-mer mixture logistic regression for methylation susceptibility modeling of CpG dinucleotides in human gene promoters. - Youngik Yang; Kenneth P. Nephew; Sun Kim (BMC Bioinform., 2012)

SFA-SPA: a suffix array based short peptide assembler for metagenomic data. - Youngik Yang; Cuncong Zhong; Shibu Yooseph (Bioinform., 2015)

GRASPx: efficient homolog-search of short peptide metagenome database through simultaneous alignment and assembly. - Cuncong Zhong; Youngik Yang; Shibu Yooseph (BMC Bioinform., 2016)

Metagenome and Metatranscriptome Analyses Using Protein Family Profiles. - Cuncong Zhong; Anna Edlund; Youngik Yang; Jeffrey S. McLean; Shibu Yooseph (PLoS Comput. Biol., 2016)

GRASP2: Fast and memory-efficient gene-centric assembly and homolog search. - Cuncong Zhong; Youngik Yang; Shibu Yooseph (ICCABS, 2017)

GRASP2: fast and memory-efficient gene-centric assembly and homolog search for metagenomic sequencing data. - Cuncong Zhong; Youngik Yang; Shibu Yooseph (BMC Bioinform., 2019)