List of works - Doheon Lee

A Bayesian ensemble approach with a disease gene network predicts damaging effects of missense variants of human cancers.

scientific article published on 21 August 2012

A feature-based approach to modeling protein-protein interaction hot spots.

scientific article published on 09 March 2009

A method to improve protein subcellular localization prediction by integrating various biological data sources

scientific article

A protein interaction network associated with asthma

scientific article

Analysis of AML genes in dysregulated molecular networks

scientific article published on 17 September 2009

Anomalies in network bridges involved in bile Acid metabolism predict outcomes of colorectal cancer patients

scientific article

AsiDesigner: exon-based siRNA design server considering alternative splicing

scientific article published on 14 May 2008

BioCAD: an information fusion platform for bio-network inference and analysis

scientific article

Combining tissue transcriptomics and urine metabolomics for breast cancer biomarker identification

scientific article published on 25 September 2009

Comparative analysis of the JAK/STAT signaling through erythropoietin receptor and thrombopoietin receptor using a systems approach

scientific article

Computational identification of combinatorial regulation and transcription factor binding sites.

scientific article published in August 2007

Context-based resolution of semantic conflicts in biological pathways

scientific article published on 20 May 2015

Context-specific functional module based drug efficacy prediction

scientific article

Deconvoluting essential gene signatures for cancer growth from genomic expression in compound-treated cells

article

Differential activation of immune/inflammatory response-related co-expression modules in the hippocampus across the major psychiatric disorders

scientific article

Discovering Health Benefits of Phytochemicals with Integrated Analysis of the Molecular Network, Chemical Properties and Ethnopharmacological Evidence

article

Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis

scientific article published on 23 May 2016

ETM-DB: integrated Ethiopian traditional herbal medicine and phytochemicals database

scientific article published on 14 August 2019

Exploring molecular links between lymph node invasion and cancer prognosis in human breast cancer.

scientific article

Fuzzy clustering of categorical data using fuzzy centroids

Gene expression profiling by mRNA sequencing reveals increased expression of immune/inflammation-related genes in the hippocampus of individuals with schizophrenia

scientific article

HIDEEP: a systems approach to predict hormone impacts on drug efficacy based on effect paths

scientific article published on 30 November 2017

Identification of temporal association rules from time-series microarray data sets

scientific article

In silico profiling of systemic effects of drugs to predict unexpected interactions

scientific article

Inference of combinatorial Boolean rules of synergistic gene sets from cancer microarray datasets

scientific article

Inference of combinatorial neuronal synchrony with Bayesian networks

scientific article published in December 2009

Inferring disease association using clinical factors in a combinatorial manner and their use in drug repositioning

scientific article published on 6 June 2013

Inferring pathway activity toward precise disease classification

scientific article

MKEM: a Multi-level Knowledge Emergence Model for mining undiscovered public knowledge

scientific article

Mathematical modeling of humoral immune response suppression by passively administered antibodies in mice.

scientific article published on 2 March 2006

Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes

scientific article

Meta-analysis method for discovering reliable biomarkers by integrating statistical and biological approaches: An application to liver toxicity

scientific article published on 25 January 2016

Meta-path Based Prioritization of Functional Drug Actions with Multi-Level Biological Networks

scientific article published on 02 April 2019

Mining metastasis related genes by primary-secondary tumor comparisons from large-scale databases

scientific article published on 19 March 2009

Multivariate classification of urine metabolome profiles for breast cancer diagnosis

scientific article

Optogenetic mimicry of the transient activation of dopamine neurons by natural reward is sufficient for operant reinforcement

scientific article

PSExplorer: whole parameter space exploration for molecular signaling pathway dynamics ⬇️

scientific article published on August 2, 2010

Patome: a database server for biological sequence annotation and analysis in issued patents and published patent applications

scientific article

Phenotype-oriented network analysis for discovering pharmacological effects of natural compounds

scientific article published in Scientific Reports

Phytochromes promote seedling light responses by inhibiting four negatively-acting phytochrome-interacting factors

scholarly article

Predicting Pharmacodynamic Drug-Drug Interactions through Signaling Propagation Interference on Protein-Protein Interaction Networks

scientific article

Predicting unintended effects of drugs based on off-target tissue effects.

scientific article published on 25 November 2015

Prediction of compound-target interactions of natural products using large-scale drug and protein information.

scientific article

Prediction of drugs having opposite effects on disease genes in a directed network.

scientific article published on 11 January 2016

Prioritization of SNPs for genome-wide association studies using an interaction model of genetic variation, gene expression, and trait variation

scientific article published on 28 March 2012

RBSDesigner: software for designing synthetic ribosome binding sites that yields a desired level of protein expression.

scientific article

Reliable Data Collection in Participatory Trials to Assess Digital Healthcare Applications

scientific article published in 2020

Rule-based multi-scale simulation for drug effect pathway analysis

scientific article

SoloDel: a probabilistic model for detecting low-frequent somatic deletions from unmatched sequencing data

scientific article

Somatic deletions implicated in functional diversity of brain cells of individuals with schizophrenia and unaffected controls

scientific article published on 22 January 2014

Synergistic Effects of Sanghuang⁻Danshen Bioactives on Arterial Stiffness in a Randomized Clinical Trial of Healthy Smokers: An Integrative Approach to in silico Network Analysis

scientific article published on 07 January 2019

Synergistic mechanisms of Sanghuang-Danshen phytochemicals on postprandial vascular dysfunction in healthy subjects: A network biology approach based on a clinical trial

scientific article published on 05 July 2019

Topological motifs populate complex networks through grouped attachment

scientific article published in Scientific Reports

Transcriptome sequencing of the choroid plexus in schizophrenia

scientific article

bZIPDB: a database of regulatory information for human bZIP transcription factors

scientific article published on 30 May 2007

List of works by Doheon Lee

A Bayesian ensemble approach with a disease gene network predicts damaging effects of missense variants of human cancers.

A feature-based approach to modeling protein-protein interaction hot spots.

A method to improve protein subcellular localization prediction by integrating various biological data sources

A protein interaction network associated with asthma

Analysis of AML genes in dysregulated molecular networks

Anomalies in network bridges involved in bile Acid metabolism predict outcomes of colorectal cancer patients

AsiDesigner: exon-based siRNA design server considering alternative splicing

BioCAD: an information fusion platform for bio-network inference and analysis

Combining tissue transcriptomics and urine metabolomics for breast cancer biomarker identification

Comparative analysis of the JAK/STAT signaling through erythropoietin receptor and thrombopoietin receptor using a systems approach

Computational identification of combinatorial regulation and transcription factor binding sites.

Context-based resolution of semantic conflicts in biological pathways

Context-specific functional module based drug efficacy prediction

Deconvoluting essential gene signatures for cancer growth from genomic expression in compound-treated cells

Differential activation of immune/inflammatory response-related co-expression modules in the hippocampus across the major psychiatric disorders

Discovering Health Benefits of Phytochemicals with Integrated Analysis of the Molecular Network, Chemical Properties and Ethnopharmacological Evidence

Dysregulated signaling hubs of liver lipid metabolism reveal hepatocellular carcinoma pathogenesis

ETM-DB: integrated Ethiopian traditional herbal medicine and phytochemicals database

Exploring molecular links between lymph node invasion and cancer prognosis in human breast cancer.

Fuzzy clustering of categorical data using fuzzy centroids

Gene expression profiling by mRNA sequencing reveals increased expression of immune/inflammation-related genes in the hippocampus of individuals with schizophrenia

HIDEEP: a systems approach to predict hormone impacts on drug efficacy based on effect paths

Identification of temporal association rules from time-series microarray data sets

In silico profiling of systemic effects of drugs to predict unexpected interactions

Inference of combinatorial Boolean rules of synergistic gene sets from cancer microarray datasets

Inference of combinatorial neuronal synchrony with Bayesian networks

Inferring disease association using clinical factors in a combinatorial manner and their use in drug repositioning

Inferring pathway activity toward precise disease classification

MKEM: a Multi-level Knowledge Emergence Model for mining undiscovered public knowledge

Mathematical modeling of humoral immune response suppression by passively administered antibodies in mice.

Mathematical modeling of translation initiation for the estimation of its efficiency to computationally design mRNA sequences with desired expression levels in prokaryotes

Meta-analysis method for discovering reliable biomarkers by integrating statistical and biological approaches: An application to liver toxicity

Meta-path Based Prioritization of Functional Drug Actions with Multi-Level Biological Networks

Mining metastasis related genes by primary-secondary tumor comparisons from large-scale databases

Multivariate classification of urine metabolome profiles for breast cancer diagnosis

Optogenetic mimicry of the transient activation of dopamine neurons by natural reward is sufficient for operant reinforcement

PSExplorer: whole parameter space exploration for molecular signaling pathway dynamics ⬇️

Patome: a database server for biological sequence annotation and analysis in issued patents and published patent applications

Phenotype-oriented network analysis for discovering pharmacological effects of natural compounds

Phytochromes promote seedling light responses by inhibiting four negatively-acting phytochrome-interacting factors

Predicting Pharmacodynamic Drug-Drug Interactions through Signaling Propagation Interference on Protein-Protein Interaction Networks

Predicting unintended effects of drugs based on off-target tissue effects.

Prediction of compound-target interactions of natural products using large-scale drug and protein information.

Prediction of drugs having opposite effects on disease genes in a directed network.

Prioritization of SNPs for genome-wide association studies using an interaction model of genetic variation, gene expression, and trait variation

RBSDesigner: software for designing synthetic ribosome binding sites that yields a desired level of protein expression.

Reliable Data Collection in Participatory Trials to Assess Digital Healthcare Applications

Rule-based multi-scale simulation for drug effect pathway analysis

SoloDel: a probabilistic model for detecting low-frequent somatic deletions from unmatched sequencing data

Somatic deletions implicated in functional diversity of brain cells of individuals with schizophrenia and unaffected controls

Synergistic Effects of Sanghuang⁻Danshen Bioactives on Arterial Stiffness in a Randomized Clinical Trial of Healthy Smokers: An Integrative Approach to in silico Network Analysis

Synergistic mechanisms of Sanghuang-Danshen phytochemicals on postprandial vascular dysfunction in healthy subjects: A network biology approach based on a clinical trial

Topological motifs populate complex networks through grouped attachment

Transcriptome sequencing of the choroid plexus in schizophrenia

bZIPDB: a database of regulatory information for human bZIP transcription factors