MetaboMiner - semi-automated identification of metabolites from 2D NMR spectra of complex biofluids. - Jianguo Xia; Trent C. Bjorndahl; Peter Tang; David S. Wishart (BMC Bioinform., 2008)

HMDB: a knowledgebase for the human metabolome. - David S. Wishart; Craig Knox; Anchi Guo; Roman Eisner; Nelson Young; Bijaya Gautam; David D. Hau; Nick Psychogios; Edison Dong; Souhaila Bouatra; Rupasri Mandal; Igor Sinelnikov; et al. (Nucleic Acids Res., 2009)

MetaboAnalyst: a web server for metabolomic data analysis and interpretation. - Jianguo Xia; Nick Psychogios; Nelson Young; David S. Wishart (Nucleic Acids Res., 2009)

MetPA: a web-based metabolomics tool for pathway analysis and visualization. - Jianguo Xia; David S. Wishart (Bioinform., 2010)

SMPDB: The Small Molecule Pathway Database. - Alex Frolkis; Craig Knox; Emilia Lim; Timothy Jewison; Vivian Law; David D. Hau; Philip Liu; Bijaya Gautam; Son Ly; Anchi Guo; Jianguo Xia; Yongjie Liang; et al. (Nucleic Acids Res., 2010)

MSEA: a web-based tool to identify biologically meaningful patterns in quantitative metabolomic data. - Jianguo Xia; David S. Wishart (Nucleic Acids Res., 2010)

MetATT: a web-based metabolomics tool for analyzing time-series and two-factor datasets. - Jianguo Xia; Igor Sinelnikov; David S. Wishart (Bioinform., 2011)

METAGENassist: a comprehensive web server for comparative metagenomics. - David Arndt; Jianguo Xia; Yifeng Liu 001; You Zhou; Anchi Guo; Joseph A. Cruz; Igor Sinelnikov; Karen Budwill; Camilla L. Nesbø; David S. Wishart (Nucleic Acids Res., 2012)

MetaboAnalyst 2.0 - a comprehensive server for metabolomic data analysis. - Jianguo Xia; Rupasri Mandal; Igor Sinelnikov; David Broadhurst; David S. Wishart (Nucleic Acids Res., 2012)

INVEX - a web-based tool for integrative visualization of expression data. - Jianguo Xia; Ngan H. Lyle; Matthew L. Mayer; Olga M. Pena; Robert E. W. Hancock (Bioinform., 2013)

HMDB 3.0 - The Human Metabolome Database in 2013. - David S. Wishart; Timothy Jewison; Anchi Guo; Michael Wilson 002; Craig Knox; Yifeng Liu 001; Yannick Djoumbou; Rupasri Mandal; Farid Aziat; Edison Dong; Souhaila Bouatra; Igor Sinelnikov; et al. (Nucleic Acids Res., 2013)

INMEX - a web-based tool for integrative meta-analysis of expression data. - Jianguo Xia; Christopher D. Fjell; Matthew L. Mayer; Olga M. Pena; David S. Wishart; Robert E. W. Hancock (Nucleic Acids Res., 2013)

NetworkAnalyst - integrative approaches for protein-protein interaction network analysis and visual exploration. - Jianguo Xia; Maia J. Benner; Robert E. W. Hancock (Nucleic Acids Res., 2014)

MetaboAnalyst 3.0 - making metabolomics more meaningful. - Jianguo Xia; Igor Sinelnikov; Beomsoo Han; David S. Wishart (Nucleic Acids Res., 2015)

miRNet - dissecting miRNA-target interactions and functional associations through network-based visual analysis. - Yannan Fan; Keith Siklenka; Simran K. Arora; Paula Ribeiro; Sarah Kimmins; Jianguo Xia (Nucleic Acids Res., 2016)

MicrobiomeAnalyst: a web-based tool for comprehensive statistical, visual and meta-analysis of microbiome data. - Achal Dhariwal; Jasmine Chong; Salam Habib; Irah L. King; Luis B. Agellon; Jianguo Xia (Nucleic Acids Res., 2017)

MetaboAnalystR: an R package for flexible and reproducible analysis of metabolomics data. - Jasmine Chong; Jianguo Xia (Bioinform., 2018)

MetaboAnalyst 4.0: towards more transparent and integrative metabolomics analysis. - Jasmine Chong; Othman Soufan; Carin Li; Iurie Caraus; Shuzhao Li; Guillaume Bourque; David S. Wishart; Jianguo Xia (Nucleic Acids Res., 2018)

OmicsNet: a web-based tool for creation and visual analysis of biological networks in 3D space. - Guangyan Zhou; Jianguo Xia (Nucleic Acids Res., 2018)

NetworkAnalyst 3.0: a visual analytics platform for comprehensive gene expression profiling and meta-analysis. - Guangyan Zhou; Othman Soufan; Jessica Ewald; Robert E. W. Hancock; Niladri Basu; Jianguo Xia (Nucleic Acids Res., 2019)

Metabolome Analysis. - Saravanan Dayalan; Jianguo Xia; Rachel A. Spicer; Reza M. Salek; Ute Roessner (Encyclopedia of Bioinformatics and Computational Biology (2), 2019)

miRNet 2.0: network-based visual analytics for miRNA functional analysis and systems biology. - Le Chang; Guangyan Zhou; Othman Soufan; Jianguo Xia (Nucleic Acids Res., 2020)

FastBMD: an online tool for rapid benchmark dose-response analysis of transcriptomics data. - Jessica Ewald; Othman Soufan; Jianguo Xia; Niladri Basu (Bioinform., 2021)

MetaboAnalyst 5.0: narrowing the gap between raw spectra and functional insights. - Zhiqiang Pang; Jasmine Chong; Guangyan Zhou; David A. de Lima Morais; Le Chang; Michel Barrette; Carol Gauthier; Pierre-Étienne Jacques; Shuzhao Li; Jianguo Xia (Nucleic Acids Res., 2021)

OmicsAnalyst: a comprehensive web-based platform for visual analytics of multi-omics data. - Guangyan Zhou; Jessica Ewald; Jianguo Xia (Nucleic Acids Res., 2021)

OmicsNet 2.0: a web-based platform for multi-omics integration and network visual analytics. - Guangyan Zhou; Zhiqiang Pang; Yao Lu; Jessica Ewald; Jianguo Xia (Nucleic Acids Res., 2022)

Comprehensive investigation of pathway enrichment methods for functional interpretation of LC-MS global metabolomics data. - Yao Lu; Zhiqiang Pang; Jianguo Xia (Briefings Bioinform., 2023)

MicrobiomeAnalyst 2.0: comprehensive statistical, functional and integrative analysis of microbiome data. - Yao Lu; Guangyan Zhou; Jessica Ewald; Zhiqiang Pang; Tanisha Shiri; Jianguo Xia (Nucleic Acids Res., 2023)

Spectral CT - a new supplementary method for preoperative assessment of pathological grades of esophageal squamous cell carcinoma. - Yi Wang; Weizhong Tian; Shuangfeng Tian; Liang He; Jianguo Xia; Ji Zhang (BMC Medical Imaging, 2023)

Common data models to streamline metabolomics processing and annotation, and implementation in a Python pipeline. - Joshua M. Mitchell; Yuanye Chi; Maheshwor Thapa; Zhiqiang Pang; Jianguo Xia; Shuzhao Li (PLoS Comput. Biol., 2024)