List of works - Junwen Wang

A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer

scientific article

A mammalian promoter model links cis elements to genetic networks

scientific article published on 21 June 2006

Absence of NUCKS augments paracrine effects of mesenchymal stem cells-mediated cardiac protection.

scientific article published on 12 April 2017

Accurate Identification of Subclones in Tumor Genomes

scientific article published in 2022

Advanced Computational Approaches for Medical Genetics and Genomics

scientific article

Analysis of heritability and shared heritability based on genome-wide association studies for thirteen cancer types

journal article published in 2015

Basonuclin regulates a subset of ribosomal RNA genes in HaCaT cells

scientific article

ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor

scientific article

Correlated evolution of transcription factors and their binding sites.

scientific article

Current trend of annotating single nucleotide variation in humans--A case study on SNVrap

scientific article

DDGni: dynamic delay gene-network inference from high-temporal data using gapped local alignment.

scientific article

DLX1 acts as a crucial target of FOXM1 to promote ovarian cancer aggressiveness by enhancing TGF-β/SMAD4 signaling

scientific article published on 05 September 2016

Dataset of TWIST1-regulated genes in the cranial mesoderm and a transcriptome comparison of cranial mesoderm and cranial neural crest

scientific article published on 12 September 2016

Developments in Blood-Brain Barrier Penetrance and Drug Repurposing for Improved Treatment of Glioblastoma

scientific article published on 23 October 2018

EpiRegNet: constructing epigenetic regulatory network from high throughput gene expression data for humans

scientific article

Evaluation of tools for highly variable gene discovery from single-cell RNA-seq data

scientific article published on 01 July 2019

Exploring the function of genetic variants in the non-coding genomic regions: approaches for identifying human regulatory variants affecting gene expression

scientific article

Exploring the sequence patterns in the alpha-helices of proteins

scientific article published in November 2003

FaSD-somatic: a fast and accurate somatic SNV detection algorithm for cancer genome sequencing data

scientific article

FastPval: a fast and memory efficient program to calculate very low P-values from empirical distribution.

scientific article

Five endometrial cancer risk loci identified through genome-wide association analysis

scientific article published on 02 May 2016

GWASdb v2: an update database for human genetic variants identified by genome-wide association studies

scientific article

GWASdb: a database for human genetic variants identified by genome-wide association studies

scientific article published on December 2011

Generalizations of Markov model to characterize biological sequences

scientific article

Genetic variant representation, annotation and prioritization in the post-GWAS era.

scientific article published on 17 July 2012

Genome-wide association analysis identifies new lung cancer susceptibility loci in never-smoking women in Asia

scientific journal article

Hybrid-denovo: A de novo OTU-picking pipeline integrating single-end and paired-end 16S sequence tags

scientific article published on 15 December 2017

Hyperglycemia-induced protein kinase C β2 activation induces diastolic cardiac dysfunction in diabetic rats by impairing caveolin-3 expression and Akt/eNOS signaling.

scientific article published on 08 March 2013

Improved cell survival and paracrine capacity of human embryonic stem cell-derived mesenchymal stem cells promote therapeutic potential for pulmonary arterial hypertension

scientific article

Imputation and subset-based association analysis across different cancer types identifies multiple independent risk loci in the TERT-CLPTM1L region on chromosome 5p15.33

journal article published in 2014

Inference of gene-phenotype associations via protein-protein interaction and orthology

scientific article

Inferring RNA sequence preferences for poorly studied RNA-binding proteins based on co-evolution.

scientific article published on 12 March 2018

Inferring gene regulatory networks by integrating ChIP-seq/chip and transcriptome data via LASSO-type regularization methods.

scientific article

Inhibition of KAP1 enhances hypoxia-induced Kaposi's sarcoma-associated herpesvirus reactivation through RBP-Jκ.

scientific article

Integrated transcriptomic and regulatory network analyses identify microRNA-200c as a novel repressor of human pluripotent stem cell-derived cardiomyocyte differentiation and maturation.

scientific article published on 24 January 2018

Lung cancer tumorigenicity and drug resistance are maintained through ALDH(hi)CD44(hi) tumor initiating cells

scientific article published on October 2013

Meta-analysis of genome-wide association studies identifies multiple lung cancer susceptibility loci in never-smoking Asian women

scientific article

MetaMarker: a pipeline for de novo discovery of novel metagenomic biomarkers

scientific article published on 01 October 2019

MetaProm: a neural network based meta-predictor for alternative human promoter prediction

scientific article

Mouse ribosomal RNA genes contain multiple differentially regulated variants

scientific article

NdPASA: a novel pairwise protein sequence alignment algorithm that incorporates neighbor-dependent amino acid propensities

scientific article published on February 2005

NdPASA: a pairwise sequence alignment server for distantly related proteins.

scientific article

Next generation sequencing has lower sequence coverage and poorer SNP-detection capability in the regulatory regions

scientific article published on 5 August 2011

Novel Neural Network Approach to Predict Drug-Target Interactions Based on Drug Side Effects and Genome-Wide Association Studies

scientific article published on 22 October 2018

PU.1 can recruit BCL6 to DNA to repress gene expression in germinal center B cells

scientific article published on 29 June 2009

Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation

scientific article published on 22 April 2007

Potent Paracrine Effects of human induced Pluripotent Stem Cell-derived Mesenchymal Stem Cells Attenuate Doxorubicin-induced Cardiomyopathy

scientific article published on 9 June 2015

Proteomic profiling identifies the SIM-associated complex of KSHV-encoded LANA.

scientific article published on 26 May 2015

Rare SNP rs12731181 in the miR-590-3p Target Site of the Prostaglandin F2α Receptor Gene Confers Risk for Essential Hypertension in the Han Chinese Population

scientific article published on 14 May 2015

Robust and rapid algorithms facilitate large-scale whole genome sequencing downstream analysis in an integrative framework

scientific article

Search for basonuclin target genes

scientific article

Susceptibility to myocardial ischemia reperfusion injury at early stage of type 1 diabetes in rats

scientific article published on 17 September 2013

The support of human genetic evidence for approved drug indications

scientific article published on 29 June 2015

Transcriptional targets of TWIST1 in the cranial mesoderm regulate cell-matrix interactions and mesenchyme maintenance.

scientific article published on 18 August 2016

UClncR: Ultrafast and comprehensive long non-coding RNA detection from RNA-seq.

scientific article published on 27 October 2017

YY1 controls Igκ repertoire and B-cell development, and localizes with condensin on the Igκ locus ⬇️

scientific article published on March 26, 2013

List of works by Junwen Wang

A genome-wide association study identifies alleles in FGFR2 associated with risk of sporadic postmenopausal breast cancer

A mammalian promoter model links cis elements to genetic networks

Absence of NUCKS augments paracrine effects of mesenchymal stem cells-mediated cardiac protection.

Accurate Identification of Subclones in Tumor Genomes

Advanced Computational Approaches for Medical Genetics and Genomics

Analysis of heritability and shared heritability based on genome-wide association studies for thirteen cancer types

Basonuclin regulates a subset of ribosomal RNA genes in HaCaT cells

ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor

Correlated evolution of transcription factors and their binding sites.

Current trend of annotating single nucleotide variation in humans--A case study on SNVrap

DDGni: dynamic delay gene-network inference from high-temporal data using gapped local alignment.

DLX1 acts as a crucial target of FOXM1 to promote ovarian cancer aggressiveness by enhancing TGF-β/SMAD4 signaling

Dataset of TWIST1-regulated genes in the cranial mesoderm and a transcriptome comparison of cranial mesoderm and cranial neural crest

Developments in Blood-Brain Barrier Penetrance and Drug Repurposing for Improved Treatment of Glioblastoma

EpiRegNet: constructing epigenetic regulatory network from high throughput gene expression data for humans

Evaluation of tools for highly variable gene discovery from single-cell RNA-seq data

Exploring the function of genetic variants in the non-coding genomic regions: approaches for identifying human regulatory variants affecting gene expression

Exploring the sequence patterns in the alpha-helices of proteins

FaSD-somatic: a fast and accurate somatic SNV detection algorithm for cancer genome sequencing data

FastPval: a fast and memory efficient program to calculate very low P-values from empirical distribution.

Five endometrial cancer risk loci identified through genome-wide association analysis

GWASdb v2: an update database for human genetic variants identified by genome-wide association studies

GWASdb: a database for human genetic variants identified by genome-wide association studies

Generalizations of Markov model to characterize biological sequences

Genetic variant representation, annotation and prioritization in the post-GWAS era.

Genome-wide association analysis identifies new lung cancer susceptibility loci in never-smoking women in Asia

Hybrid-denovo: A de novo OTU-picking pipeline integrating single-end and paired-end 16S sequence tags

Hyperglycemia-induced protein kinase C β2 activation induces diastolic cardiac dysfunction in diabetic rats by impairing caveolin-3 expression and Akt/eNOS signaling.

Improved cell survival and paracrine capacity of human embryonic stem cell-derived mesenchymal stem cells promote therapeutic potential for pulmonary arterial hypertension

Imputation and subset-based association analysis across different cancer types identifies multiple independent risk loci in the TERT-CLPTM1L region on chromosome 5p15.33

Inference of gene-phenotype associations via protein-protein interaction and orthology

Inferring RNA sequence preferences for poorly studied RNA-binding proteins based on co-evolution.

Inferring gene regulatory networks by integrating ChIP-seq/chip and transcriptome data via LASSO-type regularization methods.

Inhibition of KAP1 enhances hypoxia-induced Kaposi's sarcoma-associated herpesvirus reactivation through RBP-Jκ.

Integrated transcriptomic and regulatory network analyses identify microRNA-200c as a novel repressor of human pluripotent stem cell-derived cardiomyocyte differentiation and maturation.

Lung cancer tumorigenicity and drug resistance are maintained through ALDH(hi)CD44(hi) tumor initiating cells

Meta-analysis of genome-wide association studies identifies multiple lung cancer susceptibility loci in never-smoking Asian women

MetaMarker: a pipeline for de novo discovery of novel metagenomic biomarkers

MetaProm: a neural network based meta-predictor for alternative human promoter prediction

Mouse ribosomal RNA genes contain multiple differentially regulated variants

NdPASA: a novel pairwise protein sequence alignment algorithm that incorporates neighbor-dependent amino acid propensities

NdPASA: a pairwise sequence alignment server for distantly related proteins.

Next generation sequencing has lower sequence coverage and poorer SNP-detection capability in the regulatory regions

Novel Neural Network Approach to Predict Drug-Target Interactions Based on Drug Side Effects and Genome-Wide Association Studies

PU.1 can recruit BCL6 to DNA to repress gene expression in germinal center B cells

Position and distance specificity are important determinants of cis-regulatory motifs in addition to evolutionary conservation

Potent Paracrine Effects of human induced Pluripotent Stem Cell-derived Mesenchymal Stem Cells Attenuate Doxorubicin-induced Cardiomyopathy

Proteomic profiling identifies the SIM-associated complex of KSHV-encoded LANA.

Rare SNP rs12731181 in the miR-590-3p Target Site of the Prostaglandin F2α Receptor Gene Confers Risk for Essential Hypertension in the Han Chinese Population

Robust and rapid algorithms facilitate large-scale whole genome sequencing downstream analysis in an integrative framework

Search for basonuclin target genes

Susceptibility to myocardial ischemia reperfusion injury at early stage of type 1 diabetes in rats

The support of human genetic evidence for approved drug indications

Transcriptional targets of TWIST1 in the cranial mesoderm regulate cell-matrix interactions and mesenchyme maintenance.

UClncR: Ultrafast and comprehensive long non-coding RNA detection from RNA-seq.

YY1 controls Igκ repertoire and B-cell development, and localizes with condensin on the Igκ locus ⬇️