Hong Fang

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.

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.

pSPARQL: A Querying Language for Probabilistic RDF (Extended Abstract)

Hong Fang, Xiaowang Zhang, Xiaowang Zhang, 2016, SEMWEB.

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.

Decision forest for classification of gene expression data

Hong Fang, Jianping Huang, Xiao-hui Fan, 2010, Comput. Biol. Medicine.

High-accuracy tracking of piezoelectric positioning stage by using iterative learning controller plus PI control

Hong Fang, Fei Meng, Gang-feng Yan, 2019 .

Failure mode and effects analysis: an integrated approach based on rough set theory and prospect theory

Hong Fang, Jing Li, Wenyan Song, 2020, Soft Comput..

Traceability of elastic parameters in elastography — A feasibility study

Ke Liu, Xin Zhou, Jing Bai, 2011, 2011 4th International Conference on Biomedical Engineering and Informatics (BMEI).

A phenome-guided drug repositioning through a latent variable model

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

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

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

Discriminant Function Analyses of Liver-Specific Carcinogens

Richard D. Beger, Hong Fang, John F. Young, 2004, J. Chem. Inf. Model..

An efficient radial basis functions mesh deformation with greedy algorithm based on recurrence Choleskey decomposition and parallel computing

Jie Liu, Hong Fang, Chunye Gong, 2019, J. Comput. Phys..

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.

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..

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.

Gene Expression Profiles Distinguish the Carcinogenic Effects of Aristolochic Acid in Target (Kidney) and Non-target (Liver) Tissues in Rats

Tao Chen, Lu Zhang, Leming Shi, 2006, BMC Bioinformatics.

QSAR Models Using a Large Diverse Set of Estrogens

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

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..

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

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

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

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

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.

A Tableau-Based Forgetting in ALCQ

Hong Fang, Xiaowang Zhang, 2016, CCKS.

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.

The balance of reproducibility, sensitivity, and specificity of lists of differentially expressed genes in microarray studies

Catalin C. Barbacioru, Leming Shi, Hong Fang, 2008, BMC Bioinformatics.

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.

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

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

pSPARQL: A Querying Language for Probabilistic RDF Data

Hong Fang, Hong Fang, 2019, Complex..

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.

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.

A United Framework for Large-Scale Resource Description Framework Stream Processing

Bo Zhao, Hong Fang, Xiaowang Zhang, 2019, Journal of Computer Science and Technology.

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.

Data mining tools for Salmonella characterization: application to gel-based fingerprinting analysis

Weizhong Zhao, James J. Chen, Hong Fang, 2013, BMC Bioinformatics.

Efficient mesh deformation based on Cartesian background mesh

Xing Zhang, Liquan Xiao, Hong Fang, 2017, Comput. Math. Appl..

Microarray scanner calibration curves: characteristics and implications

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

Modified failure mode and effects analysis under uncertainty: A rough cloud theory-based approach

Jing Li, Hong Fang, Wenyan Song, 2019, Appl. Soft Comput..

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.

Technical attribute prioritisation in QFD based on cloud model and grey relational analysis

Hong Fang, Xu Wang, Wenyan Song, 2020, Int. J. Prod. Res..

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.

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.

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

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

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

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

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.

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

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

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.

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.

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.

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

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

SNPTrackTM : an integrated bioinformatics system for genetic association studies

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

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.

Does Applicability Domain Exist in Microarray-Based Genomic Research?

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

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.

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.

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.

Phytoestrogens and mycoestrogens bind to the rat uterine estrogen receptor.

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

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.

Assessing QSAR Limitations - A Regulatory Perspective

Weida Tong, Qian Xie, Huixiao Hong, 2005 .

Approaches and Practical Considerations for the Analysis of Toxicogenomics Data

Weida Tong, Huixiao Hong, Leming Shi, 2011 .

The Reproducibility of Lists of Differentially Expressed Genes in Microarray Studies

Weida Tong, Qian Xie, Huixiao Hong, 2007 .

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 .

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

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

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.

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.

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.