Weida Tong

发表

Assessment of Prediction Confidence and Domain Extrapolation of Two Structure–Activity Relationship Models for Predicting Estrogen Receptor Binding Activity

Weida Tong, Qian Xie, Huixiao Hong, 2004, Environmental health perspectives.

Microarray analysis distinguishes differential gene expression patterns from large and small colony Thymidine kinase mutants of L5178Y mouse lymphoma cells

Tao Chen, Tao Han, Jianyong Wang, 2006, BMC Bioinformatics.

GOFFA: Gene Ontology For Functional Analysis – A FDA Gene Ontology Tool for Analysis of Genomic and Proteomic Data

Tao Chen, Weida Tong, Hong Fang, 2006, BMC Bioinformatics.

Selecting a single model or combining multiple models for microarray-based classifier development? – A comparative analysis based on large and diverse datasets generated from the MAQC-II project

Weida Tong, Leming Shi, Hong Fang, 2011, BMC Bioinformatics.

ArrayTrack--supporting toxicogenomic research at the U.S. Food and Drug Administration National Center for Toxicological Research.

Weida Tong, Qian Xie, Huixiao Hong, 2003, Environmental health perspectives.

Comprehensive analysis of pulmonary adenocarcinoma in situ (AIS) revealed new insights into lung cancer progression

Yifan Zhang, Renchu Guan, Weida Tong, 2017, 2017 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).

Toxicogenomics: A 2020 Vision.

Weida Tong, Zhichao Liu, Ruili Huang, 2019, Trends in pharmacological sciences.

A phenome-guided drug repositioning through a latent variable model

Xiaowei Xu, Weida Tong, Hong Fang, 2014, BMC Bioinformatics.

QuaPra: Efficient transcript assembly and quantification using quadratic programming with Apriori algorithm

Weida Tong, Christopher E. Mason, Pawel P. Labaj, 2019, Science China Life Sciences.

Decision Forest: Combining the Predictions of Multiple Independent Decision Tree Models

Weida Tong, Huixiao Hong, Hong Fang, 2003, J. Chem. Inf. Comput. Sci..

Multi-class tumor classification by discriminant partial least squares using microarray gene expression data and assessment of classification models

Charles Wang, Weida Tong, Leming Shi, 2004, Comput. Biol. Chem..

Applying network analysis and Nebula (neighbor-edges based and unbiased leverage algorithm) to ToxCast data.

Hao Ye, Weida Tong, Huixiao Hong, 2016, Environment international.

Meeting Report: Validation of Toxicogenomics-Based Test Systems: ECVAM–ICCVAM/NICEATM Considerations for Regulatory Use

Thomas Hartung, Weida Tong, George R. Douglas, 2005, Environmental health perspectives.

Applications of Molecular Dynamics Simulations in Computational Toxicology

Weida Tong, Huixiao Hong, Sugunadevi Sakkiah, 2019, Challenges and Advances in Computational Chemistry and Physics.

Decision Forest Analysis of 61 Single Nucleotide Polymorphisms in a Case-Control Study of Esophageal Cancer; a novel method

Nan Hu, Weida Tong, Huixiao Hong, 2005, BMC Bioinformatics.

ArrayTrack: an FDA and public genomic tool.

Weida Tong, Leming Shi, Hong Fang, 2009, Methods in molecular biology.

Investigating drug repositioning opportunities in FDA drug labels through topic modeling

Xiaowei Xu, Weida Tong, Hong Fang, 2012, BMC Bioinformatics.

Scaling bioinformatics applications on HPC

Nicholas Petrick, Weida Tong, Stephen Whitney, 2017, BMC Bioinformatics.

A Pair Ranking (PRank) Method for Assessing Assay Transferability Among the Toxicogenomics Testing Systems

Weida Tong, Zhichao Liu, Brian Delavan, 2019, Challenges and Advances in Computational Chemistry and Physics.

Discovering functional modules by topic modeling RNA-Seq based toxicogenomic data.

Weida Tong, Roger Perkins, Ke Yu, 2014, Chemical research in toxicology.

The Accurate Prediction of Protein Family from Amino Acid Sequence by Measuring Features of Sequence Fragments

Weida Tong, Huixiao Hong, Leming Shi, 2009, J. Comput. Biol..

Toxicoinformatics: An Introduction

William J. Welsh, Weida Tong, Panos G. Georgopoulos, 2006 .

Asymmetric author-topic model for knowledge discovering of big data in toxicogenomics

Ming-Hua Chung, Xiaowei Xu, Weida Tong, 2015, Front. Pharmacol..

5.21 – Computational Toxicology☆

Weida Tong, Huixiao Hong, S. Thakkar, 2018 .

Reproducible and reliable microarray results through quality control: good laboratory proficiency and appropriate data analysis practices are essential.

Weida Tong, Leming Shi, Hong Fang, 2008, Current opinion in biotechnology.

QSAR Models Using a Large Diverse Set of Estrogens

Weida Tong, Leming Shi, Hong Fang, 2001, J. Chem. Inf. Comput. Sci..

Omics Biomarkers in Risk Assessment: A Bioinformatics Perspective

Weida Tong, Huixiao Hong, Reagan Kelly, 2013 .

Translating Clinical Findings into Knowledge in Drug Safety Evaluation - Drug Induced Liver Injury Prediction System (DILIps)

Weida Tong, Hong Fang, Reagan Kelly, 2011, PLoS Comput. Biol..

DLI-IT: a deep learning approach to drug label identification through image and text embedding

Xiaowei Xu, Weida Tong, Joe Meehan, 2020, BMC Medical Informatics and Decision Making.

Mining hidden knowledge for drug safety assessment: topic modeling of LiverTox as a case study

Jie Zhang, Xiaowei Xu, Weida Tong, 2014, BMC Bioinformatics.

Bioinformatics approaches for cross-species liver cancer analysis based on microarray gene expression profiling

Weida Tong, Huixiao Hong, Leming Shi, 2005, BMC Bioinformatics.

Microarray Technology: Unresolved Issues and Future Challenges from a Regulatory Perspective

Weida Tong, Leming Shi, Federico Goodsaid, 2008 .

Competitive molecular docking approach for predicting estrogen receptor subtype α agonists and antagonists

Weida Tong, Huixiao Hong, Roger Perkins, 2014, BMC Bioinformatics.

Perspectives on validation of high-throughput assays supporting 21st century toxicity testing.

Thomas Hartung, Ruili Huang, Raymond R Tice, 2013, ALTEX.

The international MAQC Society launches to enhance reproducibility of high-throughput technologies

Cesare Furlanello, Weida Tong, Leming Shi, 2017, Nature Biotechnology.

Mold2, Molecular Descriptors from 2D Structures for Chemoinformatics and Toxicoinformatics

Weida Tong, Huixiao Hong, Leming Shi, 2008, J. Chem. Inf. Model..

Estimating relative noise to signal in DNA microarray data

Jie Liu, Weida Tong, Huixiao Hong, 2013, Int. J. Bioinform. Res. Appl..

Comparing SVM and ANN based Machine Learning Methods for Species Identification of Food Contaminating Beetles

Weida Tong, Leihong Wu, Zhichao Liu, 2018, Scientific Reports.

Differential gene expression in mouse primary hepatocytes exposed to the peroxisome proliferator-activated receptor α agonists

Weida Tong, Leming Shi, Hong Fang, 2006, BMC Bioinformatics.

Two new ArrayTrack libraries for personalized biomedical research

Weida Tong, Huixiao Hong, Hong Fang, 2010, BMC Bioinformatics.

ArrayTrack: An FDA and Public Genomic Tool.

Weida Tong, Leming Shi, Hong Fang, 2017, Methods in molecular biology.

Evaluation of Quantitative Structure-Activity Relationship Methods for Large-Scale Prediction of Chemicals Binding to the Estrogen Receptor

Yu Chen, William J. Welsh, Weida Tong, 1998, J. Chem. Inf. Comput. Sci..

Gaining Confidence on Molecular Classification through Consensus Modeling and Validation

Huixiao Hong, Weida Tong, Roger Perkins, 2006, Toxicology mechanisms and methods.

Protein-Protein Interaction Extraction Using Attention-Based Convolution Neural Networks

Renchu Guan, Hao Zhang, Weida Tong, 2017, BCB.

Alignment of Short Reads: A Crucial Step for Application of Next-Generation Sequencing Data in Precision Medicine

Hao Ye, Weida Tong, Huixiao Hong, 2015, Pharmaceutics.

Integrating time-course microarray gene expression profiles with cytotoxicity for identification of biomarkers in primary rat hepatocytes exposed to cadmium

Charles Wang, Jun Xu, Weida Tong, 2006, Bioinform..

Development of public toxicogenomics software for microarray data management and analysis.

Weida Tong, Qian Xie, Huixiao Hong, 2004, Mutation research.

Constructing a robust protein-protein interaction network by integrating multiple public databases

Xiaowei Xu, Weida Tong, Hong Fang, 2011, BMC Bioinformatics.

Global Summit on Regulatory Science 2013.

Weida Tong, Marion Healy, William Slikker, 2014, Regulatory toxicology and pharmacology : RTP.

Application of dynamic topic models to toxicogenomics data

Ruili Huang, Weida Tong, Zhichao Liu, 2016, BMC Bioinformatics.

Direct comparison of performance of single nucleotide variant calling in human genome with alignment-based and assembly-based approaches

Weida Tong, Huixiao Hong, Leihong Wu, 2017, Scientific Reports.

Mining FDA drug labels using an unsupervised learning technique - topic modeling

Xiaowei Xu, Weida Tong, Hong Fang, 2011, BMC Bioinformatics.

Correction to: Similarities and differences between variants called with human reference genome HG19 or HG38

Chaoyang Zhang, Weida Tong, Huixiao Hong, 2019, BMC Bioinformatics.

Whole genome sequencing of 35 individuals provides insights into the genetic architecture of Korean population

Weida Tong, Huixiao Hong, Roger Perkins, 2014, BMC Bioinformatics.

The EDKB: an established knowledge base for endocrine disrupting chemicals

Lei Xu, Weida Tong, Huixiao Hong, 2010, BMC Bioinformatics.

Very Important Pool (VIP) genes – an application for microarray-based molecular signatures

Weida Tong, Huixiao Hong, Leming Shi, 2008, BMC Bioinformatics.

DNA Microarrays Are Predictive of Cancer Prognosis: A Re-evaluation

Weida Tong, Leming Shi, Yiyu Cheng, 2010, Clinical Cancer Research.

Regulatory bioinformatics for food and drug safety.

Weida Tong, William Slikker, Marion J Healy, 2016, Regulatory toxicology and pharmacology : RTP.

Toward a checklist for exchange and interpretation of data from a toxicology study.

Susan Hester, Weida Tong, Stephen W. Edwards, 2007, Toxicological sciences : an official journal of the Society of Toxicology.

Of text and gene – using text mining methods to uncover hidden knowledge in toxicogenomics

Weida Tong, Reagan Kelly, Zhichao Liu, 2014, BMC Systems Biology.

Advances in translational bioinformatics facilitate revealing the landscape of complex disease mechanisms

Yunlong Liu, Dong Xu, Hamid R. Arabnia, 2014, BMC Bioinformatics.

Towards Interoperable Reporting Standards for Omics Data: Hopes and Hurdles

Chris F. Taylor, Marco Brandizi, Weida Tong, 2009, Summit on translational bioinformatics.

The Current Status of DNA Microarrays

Weida Tong, Leming Shi, Roger Perkins, 2009 .

OpenTox Principles and Best Practices for Trusted Reproducible In Silico Methods Supporting Research and Regulatory Applications in Toxicological Science

Weida Tong, Barry Hardy, Joh Dokler, 2019, Challenges and Advances in Computational Chemistry and Physics.

Toward the precision breast cancer survival prediction utilizing combined whole genome-wide expression and somatic mutation analysis

Yifan Zhang, Renchu Guan, Weida Tong, 2018, BMC Medical Genomics.

An FDA bioinformatics tool for microbial genomics research on molecular characterization of bacterial foodborne pathogens using microarrays

James J. Chen, Weida Tong, Hong Fang, 2010, BMC Bioinformatics.

Towards the development of an omics data analysis framework.

Weida Tong, Florian Caiment, Timothy W Gant, 2020, Regulatory toxicology and pharmacology : RTP.

The challenge of the application of 'omics technologies in chemicals risk assessment: Background and outlook.

Weida Tong, Jörg Hackermüller, Carole Yauk, 2017, Regulatory toxicology and pharmacology : RTP.

ebTrack: an environmental bioinformatics system built upon ArrayTrack™

Weida Tong, Hong Fang, Panos G Georgopoulos, 2009, BMC proceedings.

Impact of RNA-seq data analysis algorithms on gene expression estimation and downstream prediction

May D. Wang, Weida Tong, Leming Shi, 2020, Scientific Reports.

An Image Analysis Environment for Species Identification of Food Contaminating Beetles

Weida Tong, Daniel Martin, Leihong Wu, 2016, AAAI.

Chaoyang Zhang, Weida Tong, Huixiao Hong, 2019, BMC Bioinformatics.

Microarray scanner calibration curves: characteristics and implications

Tao Han, James J. Chen, Weida Tong, 2005, BMC Bioinformatics.

A novel procedure on next generation sequencing data analysis using text mining algorithm

Yuping Wang, Weizhong Zhao, James J. Chen, 2016, BMC Bioinformatics.

Quality control and quality assessment of data from surface-enhanced laser desorption/ionization (SELDI) time-of flight (TOF) mass spectrometry (MS)

Weida Tong, Huixiao Hong, Leming Shi, 2005, BMC Bioinformatics.

From decision tree to heterogeneous decision forest : A novel chemometrics approach for structure-activity relationship modeling

Weida Tong, Huixiao Hong, Hong Fang, 2005 .

Assessing batch effects of genotype calling algorithm BRLMM for the Affymetrix GeneChip Human Mapping 500 K array set using 270 HapMap samples

Tao Han, James J. Chen, Weida Tong, 2008, BMC Bioinformatics.

An Approach to Comparative Analysis of Chromatographic Fingerprints for Assuring the Quality of Botanical Drugs

Weida Tong, Minjun Chen, Yiyu Cheng, 2003, J. Chem. Inf. Comput. Sci..

Accurate Prediction and Recognition of Subfamilies of G Protein-Coupled Receptors from Amino Acid Sequences

Weida Tong, Huixiao Hong, Qilong Hong, 2009, BIOCOMP.

Cross-platform comparability of microarray technology: Intra-platform consistency and appropriate data analysis procedures are essential

Tao Han, James J. Chen, Weida Tong, 2005, BMC Bioinformatics.

A systems approach for analysis of high content screening assay data with topic modeling

Yuping Wang, Xiaowei Xu, Weida Tong, 2013, BMC Bioinformatics.

Structure‐activity relationship approaches and applications

Weida Tong, Leming Shi, Hong Fang, 2003, Environmental toxicology and chemistry.

Consensus analysis of multiple classifiers using non-repetitive variables: Diagnostic application to microarray gene expression data

Weida Tong, Huixiao Hong, Roger Perkins, 2007, Comput. Biol. Chem..

Study of serious adverse drug reactions using FDA-approved drug labeling and MedDRA

Weida Tong, Hong Fang, Leihong Wu, 2019, BMC Bioinformatics.

Identification of genes and pathways involved in kidney renal clear cell carcinoma

Yunlong Liu, Dong Xu, Hamid R. Arabnia, 2014, BMC Bioinformatics.

Evaluation of gene expression data generated from expired Affymetrix GeneChip® microarrays using MAQC reference RNA samples

Charles Wang, Ying Huang, Quan Shi, 2010, BMC Bioinformatics.

QSAR Models at the US FDA/NCTR.

Weida Tong, Huixiao Hong, Minjun Chen, 2016, Methods in molecular biology.

Homology modeling, molecular docking, and molecular dynamics simulations elucidated α-fetoprotein binding modes

Weida Tong, Huixiao Hong, Hong Fang, 2013, BMC Bioinformatics.

A decade of toxicogenomic research and its contribution to toxicological science.

Min Zhang, Weida Tong, Minjun Chen, 2012, Toxicological sciences : an official journal of the Society of Toxicology.

BUILDING AN ORGAN-SPECIFIC CARCINOGENIC DATABASE FOR SAR ANALYSES

Weida Tong, Qian Xie, Hong Fang, 2004, Journal of toxicology and environmental health. Part A.

R-ODAF: Omics data analysis framework for regulatory application

Weida Tong, Timothy W. Gant, Florian Caiment, 2021, Toxicology Letters.

InferBERT: A Transformer-Based Causal Inference Framework for Enhancing Pharmacovigilance

Weida Tong, Zhichao Liu, Xingqiao Wang, 2021, Frontiers in Artificial Intelligence.

DICE: A Drug Indication Classification and Encyclopedia for AI-Based Indication Extraction

Weida Tong, Zhichao Liu, Qais Hatim, 2021, Frontiers in Artificial Intelligence.

BERT-Based Natural Language Processing of Drug Labeling Documents: A Case Study for Classifying Drug-Induced Liver Injury Risk

Weida Tong, Leihong Wu, Zhichao Liu, 2021, Frontiers in Artificial Intelligence.

DeepCarc: Deep Learning-Powered Carcinogenicity Prediction Using Model-Level Representation

Weida Tong, Zhichao Liu, Shraddha Thakkar, 2021, Frontiers in Artificial Intelligence.

Abstract IA-26: Artificial intelligence for regulatory science research

Weida Tong, 2021 .

Text Fingerprinting and Topic Mining in the Prescription Opioid Use Literature

Weizhong Zhao, Weida Tong, Huixiao Hong, 2021 .

Versatility or Promiscuity: The Estrogen Receptors, Control of Ligand Selectivity and an Update on Subtype Selective Ligands

Weida Tong, Huixiao Hong, Roger Perkins, 2014, International journal of environmental research and public health.

FDA drug labeling: rich resources to facilitate precision medicine, drug safety, and regulatory science.

Weida Tong, Hong Fang, Zhichao Liu, 2016, Drug discovery today.

Investigation of reproducibility of differentially expressed genes in DNA microarrays through statistical simulation

Weida Tong, Leming Shi, Hong Fang, 2009, BMC proceedings.

Influence of the structural diversity of data sets on the statistical quality of three-dimensional quantitative structure-activity relationship (3D-QSAR) models: predicting the estrogenic activity of xenoestrogens.

Weida Tong, William J Welsh, W. Tong, 2002, Chemical research in toxicology.

Modeling Chemical Interaction Profiles: I. Spectral Data-Activity Relationship and Structure-Activity Relationship Models for Inhibitors and Non-inhibitors of Cytochrome P450 CYP3A4 and CYP2D6 Isozymes

Bruce A. Pearce, Laura K. Schnackenberg, Dan A. Buzatu, 2012, Molecules.

Is toxicogenomics a more reliable and sensitive biomarker than conventional indicators from rats to predict drug-induced liver injury in humans?

Min Zhang, Weida Tong, Minjun Chen, 2012, Chemical research in toxicology.

Gene expression profile exploration of a large dataset on chronic fatigue syndrome.

Weida Tong, Qian Xie, Hong Fang, 2006, Pharmacogenomics.

CoMPARA: Collaborative Modeling Project for Androgen Receptor Activity

Ruili Huang, Scott Boyer, Xin Hu, 2020, Environmental health perspectives.

Emerging efforts for discovering new biomarkers of liver disease and hepatotoxicity.

Weida Tong, Huixiao Hong, W. Tong, 2014, Biomarkers in medicine.

Comparative analysis of predictive models for nongenotoxic hepatocarcinogenicity using both toxicogenomics and quantitative structure-activity relationships.

Weida Tong, Hong Fang, Reagan Kelly, 2011, Chemical research in toxicology.

Development of Quantitative Structure-Activity Relationships ( QSARs ) and Their Use for Priority Setting in the Testing Strategy of Endocrine Disruptors

Weida Tong, Qian Xie, Huixiao Hong, 2002 .

In vitro to in vivo extrapolation for drug-induced liver injury using a pair ranking method.

Weida Tong, Hong Fang, Zhichao Liu, 2017, ALTEX.

Can Transcriptomic Profiles from Cancer Cell Lines be Used for Toxicity Assessment?

Weida Tong, Zhichao Liu, Shraddha Thakkar, 2019, Chemical research in toxicology.

Quantitative structure-activity relationship models for predicting drug-induced liver injury based on FDA-approved drug labeling annotation and using a large collection of drugs.

Weida Tong, Huixiao Hong, Hong Fang, 2013, Toxicological sciences : an official journal of the Society of Toxicology.

Evaluation of external RNA controls for the assessment of microarray performance

Weida Tong, Huixiao Hong, Leming Shi, 2006, Nature Biotechnology.

Classification of cDNA array genes that have a highly significant discriminative power due to their unique distribution in four brain regions.

Weida Tong, Leming Shi, Hong Fang, 2004, DNA and cell biology.

Multi-class cancer classification by total principal component regression (TPCR) using microarray gene expression data

Weida Tong, Leming Shi, Yongxi Tan, 2005, Nucleic acids research.

Baseline Practices for the Application of Genomic Data Supporting Regulatory Food Safety.

Weida Tong, Gary Van Domselaar, Fiona Brinkman, 2017, Journal of AOAC International.

Predicting idiosyncratic drug-induced liver injury – some recent advances

Weida Tong, Minjun Chen, W. Tong, 2014, Expert review of gastroenterology & hepatology.

The Liver Toxicity Knowledge Base (LKTB) and drug-induced liver injury (DILI) classification for assessment of human liver injury

Weida Tong, Hong Fang, Zhichao Liu, 2018, Expert review of gastroenterology & hepatology.

In silico drug repositioning: what we need to know.

Weida Tong, Hong Fang, Zhichao Liu, 2013, Drug discovery today.

Voluntary exploratory data submissions to the US FDA and the EMA: experience and impact

Jiri Aubrecht, Weida Tong, Huixiao Hong, 2010, Nature Reviews Drug Discovery.

FDA-approved drug labeling for the study of drug-induced liver injury.

Weida Tong, Hong Fang, Zhichao Liu, 2011, Drug discovery today.

DILIrank: the largest reference drug list ranked by the risk for developing drug-induced liver injury in humans.

Weida Tong, Ayako Suzuki, Ke Yu, 2016, Drug Discovery Today.

Genome-Wide Association Studies of Type 2 Diabetes: Current Status, Open Challenges, and Future Perspectives

Weida Tong, Huixiao Hong, Donna L. Mendrick, 2011 .

Machine Learning Methods for Predicting HLA–Peptide Binding Activity

Weida Tong, Huixiao Hong, Leming Shi, 2015, Bioinformatics and biology insights.

Next generation sequencing for profiling expression of miRNAs: technical progress and applications in drug development.

Weida Tong, Huixiao Hong, Steven F Jennings, 2011, Journal of biomedical science and engineering.

An integrated study of acute effects of valproic acid in the liver using metabonomics, proteomics, and transcriptomics platforms.

Weida Tong, Richard D Beger, Sheeno Thyparambil, 2006, Omics : a journal of integrative biology.

SNPTrackTM : an integrated bioinformatics system for genetic association studies

Weida Tong, Huixiao Hong, Hong Fang, 2012, Human Genomics.

Drug-induced liver injury severity and toxicity (DILIst): binary classification of 1303 drugs by human hepatotoxicity.

Weida Tong, Leihong Wu, Zhichao Liu, 2019, Drug discovery today.

Significant variations in alternative splicing patterns and expression profiles between human-mouse orthologs in early embryos

Weida Tong, Leming Shi, Yongxiang Zhao, 2017, Science China Life Sciences.

Study of 202 natural, synthetic, and environmental chemicals for binding to the androgen receptor.

Weida Tong, Qian Xie, Huixiao Hong, 2003, Chemical research in toxicology.

2012 Global Summit on Regulatory Science (GSRS-2012)--modernizing toxicology.

Weida Tong, Xiaohui Fan, William Slikker, 2013, Toxicological sciences : an official journal of the Society of Toxicology.

13 - Microarrays: Technologies and Applications

Weida Tong, Zhenqiang Su, Weiming Hu, 2003 .

Biomarkers for drug-induced liver injury

Weida Tong, Huixiao Hong, Qiang Shi, 2010, Expert review of gastroenterology & hepatology.

Species Identification of Food Contaminating Beetles by Recognizing Patterns in Microscopic Images of Elytra Fragments

Weida Tong, Halil Bisgin, Joshua Xu, 2016, PloS one.

A Partial Least Squares‐Based Consensus Regression Method for the Analysis of Near‐Infrared Complex Spectral Data of Plant Samples

Weida Tong, Leming Shi, Zhenqiang Su, 2006 .

Does Applicability Domain Exist in Microarray-Based Genomic Research?

Weida Tong, Hong Fang, Leihong Wu, 2010, PloS one.

The FDA’s Experience with Emerging Genomics Technologies—Past, Present, and Future

Weida Tong, Shraddha Thakkar, Binsheng Gong, 2016, The AAPS Journal.

Lessons Learned from Two Decades of Anticancer Drugs.

Weida Tong, Zhichao Liu, Brian Delavan, 2017, Trends in pharmacological sciences.

Evaluating variations of genotype calling: a potential source of spurious associations in genome-wide association studies

Weida Tong, Huixiao Hong, Leming Shi, 2010, Journal of Genetics.

Understanding and predicting binding between human leukocyte antigens (HLAs) and peptides by network analysis

Weida Tong, Huixiao Hong, Leming Shi, 2015, BMC Bioinformatics.

Drug-Induced Rhabdomyolysis Atlas (DIRA) for idiosyncratic adverse drug reaction management.

Ruili Huang, Weida Tong, Menglong Li, 2019, Drug discovery today.

The Development of a Database for Herbal and Dietary Supplement Induced Liver Toxicity

Weida Tong, Dianke Yu, Jieqiang Zhu, 2018, International journal of molecular sciences.

Mechanistically linked serum miRNAs distinguish between drug induced and fatty liver disease of different grades

Weida Tong, Zhichao Liu, W. Tong, 2016, Scientific Reports.

QA/QC issues to aid regulatory acceptance of microarray gene expression data

Weida Tong, Leming Shi, Leming Shi, 2007, Environmental and molecular mutagenesis.

Potential Sources of Spurious Associations and Batch Effects in Genome‐Wide Association Studies

Weida Tong, Huixiao Hong, Leming Shi, 2009 .

Maximizing biomarker discovery by minimizing gene signatures

Weida Tong, Jennifer Fostel, Youping Deng, 2011, BMC Genomics.

Pitfall of genome-wide association studies: Sources of inconsistency in genotypes and their effects

Weida Tong, Huixiao Hong, Leming Shi, 2012 .

Prediction of estrogen receptor binding for 58,000 chemicals using an integrated system of a tree-based model with structural alerts.

Weida Tong, Qian Xie, Huixiao Hong, 2001, Environmental health perspectives.

QA/QC: challenges and pitfalls facing the microarray community and regulatory agencies

Weida Tong, Leming Shi, Hong Fang, 2004, Expert review of molecular diagnostics.

High lipophilicity and high daily dose of oral medications are associated with significant risk for drug‐induced liver injury

Weida Tong, Minjun Chen, W. Tong, 2013, Hepatology.

Meta-analysis of microarray data using a pathway-based approach identifies a 37-gene expression signature for systemic lupus erythematosus in human peripheral blood mononuclear cells

Weida Tong, Hong Fang, Shashi Amur, 2011, BMC medicine.

Discovery of Transcriptional Targets Regulated by Nuclear Receptors Using a Probabilistic Graphical Model.

Ruili Huang, Weida Tong, Mikyung Lee, 2016, Toxicological sciences : an official journal of the Society of Toxicology.

Technical Issues Involved in Obtaining Reliable Data from Microarray Experiments

Weida Tong, Leming Shi, James C. Fuscoe, 2006 .

Phytoestrogens and mycoestrogens bind to the rat uterine estrogen receptor.

Weida Tong, Leming Shi, Hong Fang, 2002, The Journal of nutrition.

Development and Validation of Decision Forest Model for Estrogen Receptor Binding Prediction of Chemicals Using Large Data Sets.

Weida Tong, Huixiao Hong, Heng Luo, 2015, Chemical research in toxicology.

A generic Transcriptomics Reporting Framework (TRF) for 'omics data processing and analysis.

Weida Tong, Jörg Hackermüller, Carole Yauk, 2017, Regulatory toxicology and pharmacology : RTP.

EADB: an estrogenic activity database for assessing potential endocrine activity.

Weida Tong, Huixiao Hong, Hong Fang, 2013, Toxicological sciences : an official journal of the Society of Toxicology.

QSARs for Endocrine Disruption Priority Setting Database 2: The Integrated 4‐Phase Model

Weida Tong, Hong Fang, Roger Perkins, 2003 .

Using Decision Forest to Classify Prostate Cancer Samples on the Basis of SELDI-TOF MS Data: Assessing Chance Correlation and Prediction Confidence

Weida Tong, Qian Xie, Huixiao Hong, 2004, Environmental health perspectives.

Molecular biomarkers: a US FDA effort.

Weida Tong, Huixiao Hong, Leming Shi, 2010, Biomarkers in medicine.

Assessing QSAR Limitations - A Regulatory Perspective

Weida Tong, Qian Xie, Huixiao Hong, 2005 .

Modeling Chemical Interaction Profiles: II. Molecular Docking, Spectral Data-Activity Relationship, and Structure-Activity Relationship Models for Potent and Weak Inhibitors of Cytochrome P450 CYP3A4 Isozyme

Bruce A. Pearce, Laura K. Schnackenberg, Dan A. Buzatu, 2012, Molecules.

Approaches and Practical Considerations for the Analysis of Toxicogenomics Data

Weida Tong, Huixiao Hong, Leming Shi, 2011 .

Genomics in the land of regulatory science.

Weida Tong, William Slikker, Burton Blais, 2015, Regulatory toxicology and pharmacology : RTP.

The Reproducibility of Lists of Differentially Expressed Genes in Microarray Studies

Weida Tong, Qian Xie, Huixiao Hong, 2007 .

Five-Feature Model for Developing the Classifier for Synergistic vs. Antagonistic Drug Combinations Built by XGBoost

Weida Tong, Zhichao Liu, Xiangjun Ji, 2019, Front. Genet..

Transcriptional Responses Reveal Similarities Between Preclinical Rat Liver Testing Systems

Weida Tong, Zhichao Liu, Brian Delavan, 2018, Front. Genet..

DMD056267 744..750

Weida Tong, Ke Yu, Xingchao Geng, 2014 .

Toward predictive models for drug-induced liver injury in humans: are we there yet?

Weida Tong, Huixiao Hong, Hong Fang, 2014, Biomarkers in medicine.

Receptor-Mediated Toxicity: QSARs for Estrogen Receptor Binding and Priority Setting of Potential Estrogenic Endocrine Disruptors

Weida Tong, Qian Xie, Huixiao Hong, 2004 .

Regulatory application of SAR/QSAR for priority setting of endocrine disruptors: A perspective

Weida Tong, Qian Xie, Huixiao Hong, 2003 .

Development of estrogen receptor beta binding prediction model using large sets of chemicals

Chaoyang Zhang, Weida Tong, Huixiao Hong, 2017, Oncotarget.

Technical Reproducibility of Genotyping SNP Arrays Used in Genome-Wide Association Studies

Christophe G. Lambert, Weida Tong, Huixiao Hong, 2012, PloS one.

A Rat α-Fetoprotein Binding Activity Prediction Model to Facilitate Assessment of the Endocrine Disruption Potential of Environmental Chemicals

Weida Tong, Huixiao Hong, Hui Wen Ng, 2016, International journal of environmental research and public health.

Structural Changes Due to Antagonist Binding in Ligand Binding Pocket of Androgen Receptor Elucidated Through Molecular Dynamics Simulations

Weida Tong, Huixiao Hong, Wenjing Guo, 2018, Front. Pharmacol..

A Model to predict severity of drug‐induced liver injury in humans

Weida Tong, Minjun Chen, W. Tong, 2016, Hepatology.

Comprehensive Assessments of RNA-seq by the SEQC Consortium: FDA-Led Efforts Advance Precision Medicine

Weida Tong, Huixiao Hong, Leihong Wu, 2016, Pharmaceutics.

Experimental Data Extraction and in Silico Prediction of the Estrogenic Activity of Renewable Replacements for Bisphenol A

Weida Tong, Huixiao Hong, Joseph F. Stanzione, 2016, International journal of environmental research and public health.

Pathway Analysis Revealed Potential Diverse Health Impacts of Flavonoids that Bind Estrogen Receptors

Weida Tong, Huixiao Hong, Roger Perkins, 2016, International journal of environmental research and public health.

Multiclass Decision Forest--a novel pattern recognition method for multiclass classification in microarray data analysis.

Weida Tong, Qian Xie, Huixiao Hong, 2004, DNA and cell biology.

Human sex hormone-binding globulin binding affinities of 125 structurally diverse chemicals and comparison with their binding to androgen receptor, estrogen receptor, and α-fetoprotein.

Weida Tong, Huixiao Hong, Hong Fang, 2015, Toxicological sciences : an official journal of the Society of Toxicology.

Rat α-Fetoprotein binding affinities of a large set of structurally diverse chemicals elucidated the relationships between structures and binding affinities.

Weida Tong, Huixiao Hong, Hong Fang, 2012, Chemical research in toxicology.

Homology Model and Ligand Binding Interactions of the Extracellular Domain of the Human α4β2 Nicotinic Acetylcholine Receptor

Weida Tong, Huixiao Hong, Heng Luo, 2016 .

QSAR models in receptor-mediated effects: the nuclear receptor superfamily

William J. Welsh, Weida Tong, Hong Fang, 2003 .

Mold2 Molecular Descriptors for QSAR

Svetoslav H. Slavov, Weida Tong, Huixiao Hong, 2012 .

An investigation of biomarkers derived from legacy microarray data for their utility in the RNA-seq era

Weida Tong, Huixiao Hong, Leming Shi, 2014, Genome Biology.

An integrated bioinformatics infrastructure essential for advancing pharmacogenomics and personalized medicine in the context of the FDA's Critical Path Initiative.

Weida Tong, Leming Shi, Hong Fang, 2007, Drug discovery today. Technologies.

Deciphering miRNA transcription factor feed-forward loops to identify drug repurposing candidates for cystic fibrosis

Weida Tong, Zhichao Liu, W. Tong, 2014, Genome Medicine.

Competitive docking model for prediction of the human nicotinic acetylcholine receptor α7 binding of tobacco constituents

Weida Tong, Huixiao Hong, Leihong Wu, 2018, Oncotarget.

Consensus Modeling for Prediction of Estrogenic Activity of Ingredients Commonly Used in Sunscreen Products

Weida Tong, Huixiao Hong, Chandrabose Selvaraj, 2016, International journal of environmental research and public health.

Estrogenic activity data extraction and in silico prediction show the endocrine disruption potential of bisphenol A replacement compounds.

Weida Tong, Huixiao Hong, Roger Perkins, 2015, Chemical research in toxicology.

A unifying ontology to integrate histological and clinical observations for drug-induced liver injury.

Jie Zhang, Weida Tong, Reagan Kelly, 2013, The American journal of pathology.

Comparison of Estrogen Receptor α and β Subtypes Based on Comparative Molecular Field Analysis (CoMFA)

William J. Welsh, Weida Tong, Roger Perkins, 1999 .

A testing strategy to predict risk for drug-induced liver injury in humans using high-content screen assays and the ‘rule-of-two’ model

Weida Tong, Leming Shi, Hong Fang, 2014, Archives of Toxicology.

Application of genome analysis strategies in the clinical testing for pediatric diseases

Weida Tong, Huixiao Hong, Baitang Ning, 2018, Pediatric investigation.