Computational Inference of Regulatory Pathways in Microbes. - Zhengchang Su; PhuongAn Dam; Xin Chen 037; Victor Olman; Tao Jiang 001; Brian Palenik; Ying Xu 001 (CSB, 2003)

Computational Inference of Transcription Regulation and Response Networks in Synechococcus sp. WH8102. - Zhengchang Su; PhuongAn Dam; Victor Olman; Ying Xu 001 (BIBE, 2004)

In Silico Construction of the Carbon Fixation Pathway in Synechococcus sp. WH8102. - PhuongAn Dam; Zhengchang Su; Victor Olman; Ying Xu 001 (CSB, 2004)

Pathway Mapping with Operon Information: An Integer-Programming Method. - Fenglou Mao; Zhengchang Su; Victor Olman; David Chuang; Ying Xu 001 (CSB, 2004)

CUBIC: Search for Binding Sites. - Victor Olman; Jizhu Lu; PhuongAn Dam; Zhengchang Su; Ying Xu 001 (CSB, 2004)

Mapping of Microbial Pathways through Constrained Mapping of Orthologous Genes. - Victor Olman; Hanchuan Peng; Zhengchang Su; Ying Xu 001 (CSB, 2004)

Computational Construction of Nitrogen Assimilation Pathway in Cyanobacteria Synechococcus sp. WH8102. - Zhengchang Su; PhuongAn Dam; X. Chen; Victor Olman; Tao Jiang 001; Ying Xu 001 (CSB, 2004)

A Knowledge Base for Computational Pathway Reconstruction. - Peng Wang; Zhengchang Su; PhuongAn Dam; Ying Xu 001 (CSB, 2004)

Structural Analysis of FGFR1 Kinase Activation through Molecular Dynamics Simulation. - Peng Wang; Zhengchang Su; Jun-tao Guo; Ying Xu 001 (CSB, 2004)

Computational Reconstruction of the carbon fixation pathway in Synechococcus SP. Wh 8102. - PhuongAn Dam; Zhengchang Su; Victor Olman; Ying Xu 001 (Advances in Bioinformatics and Its Applications, 2005)

Understanding microbial genomic structures and applications to biological pathway inference. - Zhengchang Su; Fenglou Mao; Hongwei Wu; PhuongAn Dam; Xin Chen 037; Tao Jiang 001; Victor Olman; Brian Palenik; Ying Xu 001 (GrC, 2006)

Mapping of orthologous genes in the context of biological pathways: An application of integer programming. - Fenglou Mao; Zhengchang Su; Victor Olman; PhuongAn Dam; Zhijie Liu; Ying Xu 001 (Proc. Natl. Acad. Sci. USA, 2006)

Simultaneous prediction of transcription factor binding sites in a group of prokaryotic genomes. - Shaoqiang Zhang; Shan Li; Phuc T. Pham; Zhengchang Su (BMC Bioinform., 2010)

A Simulated Annealing Algorithm for Resource Allocation and Scheduling with Precedence Constraints in the GLECLUBS/eGLECLUBS Pipelines. - Shaoqiang Zhang; Huazhi Sun; Guojun Li; Zhengchang Su (CSE, 2011)

MotifClick: prediction of cis-regulatory binding sites via merging cliques. - Shaoqiang Zhang; Shan Li; Meng Niu; Phuc T. Pham; Zhengchang Su (BMC Bioinform., 2011)

A novel information contents based similarity metric for comparing TFBS motifs. - Shaoqiang Zhang; Lifen Jiang; Chuanbin Du; Zhengchang Su (ISB, 2012)

SPIC: A novel similarity metric for comparing transcription factor binding site motifs based on information contents. - Shaoqiang Zhang; Xiguo Zhou; Chuanbin Du; Zhengchang Su (BMC Syst. Biol., 2013)

Identification of cell types from single-cell transcriptomes using a novel clustering method. - Chen Xu; Zhengchang Su (Bioinform., 2015)

ProSampler: an ultrafast and accurate motif finder in large ChIP-seq datasets for combinatory motif discovery. - Yang Li 089; Pengyu Ni; Shaoqiang Zhang; Guojun Li; Zhengchang Su (Bioinform., 2019)

RecBic: a fast and accurate algorithm recognizing trend-preserving biclusters. - Xiangyu Liu; Di Li; Juntao Liu; Zhengchang Su; Guojun Li (Bioinform., 2020)

Clustering single-cell RNA-seq data by rank constrained similarity learning. - Qinglin Mei; Guojun Li; Zhengchang Su (Bioinform., 2021)

PCRMS: a database of predicted cis-regulatory modules and constituent transcription factor binding sites in genomes. - Pengyu Ni; Zhengchang Su (Database J. Biol. Databases Curation, 2022)