Data analysis in molecular biology and evolution. - Xuhua Xia (Kluwer, 2000)

AMADA: analysis of microarray data. - Xuhua Xia; Zheng Xie (Bioinform., 2001)

MBEToolbox: a Matlab toolbox for sequence data analysis in molecular biology and evolution. - James J. Cai; David K. Smith 001; Xuhua Xia; Kwok-Yung Yuen (BMC Bioinform., 2005)

Bioinformatics and the cell - modern computational approaches in genomics, proteomics and transcriptomics. - Xuhua Xia (Springer, 2007)

Using Generalized Procrustes Analysis (GPA) for normalization of cDNA microarray data. - Huiling Xiong; Dapeng Zhang 001; Christopher J. Martyniuk; Vance L. Trudeau; Xuhua Xia (BMC Bioinform., 2008)

Comparative Genomics. - Xuhua Xia (Handbook of Statistical Bioinformatics, 2011)

A comparative study of codon adaptation in ssDNA and dsDNA phages. - Shivapriya Chithambaram; Ramanandan Prabhakaran; Xuhua Xia (BCB, 2012)

Phylogenetic Bias in the Likelihood Method Caused by Missing Data Coupled with Among-Site Rate Variation: An Analytical Approach. - Xuhua Xia (ISBRA, 2014)

Aeromonas phages encode tRNAs for their overused codons. - Ramanandan Prabhakaran; Shivapriya Chithambaram; Xuhua Xia (Int. J. Comput. Biol. Drug Des., 2014)

Self-Organizing Map for Characterizing Heterogeneous Nucleotide and Amino Acid Sequence Motifs. - Xuhua Xia (Comput., 2017)

Three-Way Alignment Improves Multiple Sequence Alignment of Highly Diverged Sequences. - Mahbubeh Askari Rad; Alibek Kruglikov; Xuhua Xia (Algorithms, 2024)