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BMC Bioinformatics|April 30, 2013
Incorporating phylogenetic-based covarying mutations into RNAalifold for RNA consensus structure predictionPing Ge, Shaojie ZhangMethods (San Diego, Calif.)|February 18, 2015
Computational analysis of RNA structures with chemical probing dataPing Ge, Shaojie ZhangNucleic Acids Research|July 18, 2015
STAR3D: a stack-based RNA 3D structural alignment toolPing Ge, Shaojie ZhangBioinformatics (Oxford, England)|August 7, 2016
WebSTAR3D: a web server for RNA 3D structural alignmentErwin Holzhauser, Ping Ge, Shaojie ZhangNucleic Acids Research|June 24, 2017
CompAnnotate: a comparative approach to annotate base-pairing interactions in RNA 3D structuresShahidul Islam, Ping Ge, Shaojie ZhangBMC Bioinformatics|September 26, 2014
ProbeAlign: incorporating high-throughput sequencing-based structure probing information into ncRNA homology searchPing Ge, Cuncong Zhong, Shaojie ZhangNucleic Acids Research|March 14, 2018
De novo discovery of structural motifs in RNA 3D structures through clusteringPing Ge, Shahidul Islam, Cuncong Zhong, et al.Bioinformatics (Oxford, England)|September 10, 2011
Finding stable local optimal RNA secondary structuresYuan Li, Shaojie ZhangNucleic Acids Research|October 7, 2011
Clustering RNA structural motifs in ribosomal RNAs using secondary structural alignmentCuncong Zhong, Shaojie ZhangIscience|July 5, 2019
Accurate and Efficient Mapping of the Cross-Linked microRNA-mRNA Duplex ReadsCuncong Zhong, Shaojie ZhangPageof 54