Lista de obras - Zhaohui Steve Qin - Dominio Público Uruguay

A comparison of phasing algorithms for trios and unrelated individuals

artículo científico publicado en 2006

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

scientific article published on 11 October 2016

A double-layered mixture model for the joint analysis of DNA copy number and gene expression data

artículo científico publicado en 2010

A genome-wide MeSH-based literature mining system predicts implicit gene-to-gene relationships and networks

artículo científico publicado en 2013

A global protein kinase and phosphatase interaction network in yeast.

artículo científico publicado en 2010

A new probabilistic rule for drug-dug interaction prediction

artículo científico publicado en 2009

A novel statistical method for quantitative comparison of multiple ChIP-seq datasets

artículo científico publicado en 2015

A second generation human haplotype map of over 3.1 million SNPs

artículo científico publicado en 2007

ATAD3A mediates activation of RAS-independent mitochondrial ERK1/2 signaling, favoring head and neck cancer development ⬇️

artículo científico publicado en 2022

Allogeneic T cell responses are regulated by a specific miRNA-mRNA network

artículo científico publicado en 2013

An approach of identifying differential nucleosome regions in multiple samples

artículo científico publicado en 2017

An efficient comprehensive search algorithm for tagSNP selection using linkage disequilibrium criteria

artículo científico publicado en 2005

An empirical bayesian approach for testing gene expression fold change and its application in detecting global dosage effects

artículo científico publicado en 2020

An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression

artículo científico publicado en 2010

Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

artículo científico publicado en 2019

Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

scientific article published on 04 September 2019

Author Correction: Truncation of mutant huntingtin in knock-in mice demonstrates exon1 huntingtin is a key pathogenic form

artículo científico publicado en 2020

Base-resolution methylation patterns accurately predict transcription factor bindings in vivo

artículo científico publicado en 2015

Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms

artículo científico publicado en 2001

Bayesian inference of spatial organizations of chromosomes

artículo científico publicado en 2013

Bayesian inference with historical data-based informative priors improves detection of differentially expressed genes

artículo científico publicado en 2015

C/EBPβ mediates growth hormone-regulated expression of multiple target genes

artículo científico publicado en 2011

CRCView: a web server for analyzing and visualizing microarray gene expression data using model-based clustering

artículo científico publicado en 2007

CRISPR/Cas9-mediated gene editing ameliorates neurotoxicity in mouse model of Huntington's disease

artículo científico publicado en 2017

Characterization of the EZH2-MMSET histone methyltransferase regulatory axis in cancer

artículo científico publicado en 2012

Clustering microarray gene expression data using weighted Chinese restaurant process

artículo científico publicado en 2006

Comparison of laboratory-based and phylogenetic methods to distinguish between Haemophilus influenzae and H. haemolyticus

artículo científico publicado en 2008

Computational and functional analysis of growth hormone (GH)-regulated genes identifies the transcriptional repressor B-cell lymphoma 6 (Bc16) as a participant in GH-regulated transcription

scientific article published on 30 April 2009

Computationally Tractable Multivariate HMM in Genome-Wide Mapping Studies

artículo científico publicado en 2017

Controllable Data Generation by Deep Learning: A Review

artículo científico publicado en 2024

Cooperation between Polycomb and androgen receptor during oncogenic transformation

artículo científico publicado en 2011

Coordinated regulation of polycomb group complexes through microRNAs in cancer.

artículo científico publicado en 2011

DIVAN: accurate identification of non-coding disease-specific risk variants using multi-omics profiles

artículo científico publicado en 2016

Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer

artículo científico publicado en 2011

Different normalization strategies for microarray gene expression traits affect the heritability estimation

artículo científico publicado en 2007

Direct amplification, sequencing and profiling of Chlamydia trachomatis strains in single and mixed infection clinical samples

artículo científico publicado en 2014

Drug-drug interaction prediction assessment

artículo científico publicado en 2009

Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data

EWS/ETS-Driven Ewing Sarcoma Requires BET Bromodomain Proteins

artículo científico publicado en 2018

EgoNet: identification of human disease ego-network modules

artículo científico publicado en 2014

Exploring the cooccurrence patterns of multiple sets of genomic intervals

artículo científico publicado en 2013

FOXP3 orchestrates H4K16 acetylation and H3K4 trimethylation for activation of multiple genes by recruiting MOF and causing displacement of PLU-1.

artículo científico publicado en 2011

Family-based SNP association study on 8q24 in bipolar disorder

artículo científico publicado en 2008

GPUmotif: an ultra-fast and energy-efficient motif analysis program using graphics processing units

artículo científico publicado en 2012

Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains

artículo científico publicado en 2012

Genome-Wide STAT3 Binding Analysis after Histone Deacetylase Inhibition Reveals Novel Target Genes in Dendritic Cells

artículo científico publicado en 2016

Genome-wide detection and characterization of positive selection in human populations

artículo científico publicado en 2007

Global gene expression analysis reveals evidence for decreased lipid biosynthesis and increased innate immunity in uninvolved psoriatic skin

artículo científico publicado en 2009

Glucocorticoid receptor wields chromatin interactions to tune transcription for cytoskeleton stabilization in podocytes

artículo científico publicado en 2021

H2B ubiquitylation promotes RNA Pol II processivity via PAF1 and pTEFb

artículo científico publicado en 2014

HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data

artículo científico publicado en 2010

HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms.

artículo científico publicado en 2004

Haplotype Inference and Its Application in Linkage Disequilibrium Mapping

Haplotype block partitioning and tag SNP selection using genotype data and their applications to association studies

artículo científico publicado en 2004

Heat Shock Protein Beta-1 Modifies Anterior to Posterior Purkinje Cell Vulnerability in a Mouse Model of Niemann-Pick Type C Disease

artículo científico publicado en 2016

HiCNorm: removing biases in Hi-C data via Poisson regression

artículo científico publicado en 2012

Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data

artículo científico publicado en 2009

High throughput screening of co-expressed gene pairs with controlled false discovery rate (FDR) and minimum acceptable strength (MAS).

artículo científico publicado en 2005

Identification of co-regulated genes through Bayesian clustering of predicted regulatory binding sites

artículo científico publicado en 2003

Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome

artículo científico publicado en 2017

Impaired replication elongation in Tetrahymena mutants deficient in histone H3 Lys 27 monomethylation

artículo científico publicado en 2013

Improved classification of mass spectrometry database search results using newer machine learning approaches

artículo científico publicado en 2005

Improving Hierarchical Models Using Historical Data with Applications in High-Throughput Genomics Data Analysis

artículo científico publicado en 2016

Incorporating genotyping uncertainty in haplotype inference for single-nucleotide polymorphisms

artículo científico publicado en 2004

Inferring Spatial Organization of Individual Topologically Associated Domains via Piecewise Helical Model

artículo científico publicado en 2018

Insulator function and topological domain border strength scale with architectural protein occupancy

artículo científico publicado en 2014

Integrated analysis of whole-genome paired-end and mate-pair sequencing data for identifying genomic structural variations in multiple myeloma

artículo científico publicado en 2014

MLL1 and MLL1 fusion proteins have distinct functions in regulating leukemic transcription program

artículo científico publicado en 2016

Model-Based Methods for Transcript Expression-Level Quantification in RNA-Seq

article

MotifOrganizer: a scalable model-based motif clustering tool for mammalian genomes

artículo científico publicado en 2013

Multipoint Metropolis Method with Application to Hybrid Monte Carlo

article

OUP accepted manuscript

artículo científico publicado en 2018

Omicseq: a web-based search engine for exploring omics datasets.

artículo científico publicado en 2017

On the detection and refinement of transcription factor binding sites using ChIP-Seq data

artículo científico publicado en 2010

One Size Doesn't Fit All - RefEditor: Building Personalized Diploid Reference Genome to Improve Read Mapping and Genotype Calling in Next Generation Sequencing Studies

artículo científico publicado en 2015

Operon prediction for sequenced bacterial genomes without experimental information

artículo científico publicado en 2006

Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files.

artículo científico publicado en 2018

PM-Seq: Using Finite Poisson Mixture Models for RNA-Seq Data Analysis and Transcript Expression Level Quantification

scholarly article by Han Wu et al published 21 June 2012 in Statistics in biosciences

Partition-ligation-expectation-maximization algorithm for haplotype inference with single-nucleotide polymorphisms

artículo científico publicado en 2002

Progress toward personalized medicine for glaucoma

artículo científico publicado en 2009

Protein tyrosine phosphatase gene PTPN22 polymorphism in psoriasis: lack of evidence for association

artículo científico publicado en 2005

Query large scale microarray compendium datasets using a model-based bayesian approach with variable selection

artículo científico publicado en 2009

RT States: systematic annotation of the human genome using cell type-specific replication timing programs

Read-mapping using personalized diploid reference genome for RNA sequencing data reduced bias for detecting allele-specific expression

article

Reciprocal occupancy of BCL6 and STAT5 on Growth Hormone target genes: contrasting transcriptional outcomes and promoter-specific roles of p300 and HDAC3.

artículo científico publicado en 2014

SAINT: probabilistic scoring of affinity purification-mass spectrometry data

artículo científico publicado en 2010

Scale Mixture Models with Applications to Bayesian Inference

Sparsely correlated hidden Markov models with application to genome-wide location studies

artículo científico publicado en 2013

Special collection of bioinformatics in the era of precision medicine

Statistical Issues in the Analysis of ChIP-Seq and RNA-Seq Data

artículo científico publicado en 2010

Statistical resynchronization and Bayesian detection of periodically expressed genes

artículo científico publicado en 2004

Structural comparison of metabolic networks in selected single cell organisms

artículo científico publicado en 2005

Super-Enhancer-Associated Transcription Factors Maintain Transcriptional Regulation in Mature Podocytes

artículo científico publicado en 2021

Systems biology and metagenomics: a showcase of Chinese bioinformatics researchers and their work

artículo científico publicado en 2014

TAGSNP SELECTION BASED ON PAIRWISE LD CRITERIA AND POWER ANALYSIS IN ASSOCIATION STUDIES

Targeting MLL1 H3K4 methyltransferase activity in mixed-lineage leukemia

scientific article published on 02 January 2014

Ten-eleven translocation 2 interacts with forkhead box O3 and regulates adult neurogenesis

artículo científico publicado en 2017

The central role of EED in the orchestration of polycomb group complexes.

artículo científico publicado en 2014

The histone acetyltransferase MOF is a key regulator of the embryonic stem cell core transcriptional network

artículo científico publicado en 2012

The single-species metagenome: subtyping Staphylococcus aureus core genome sequences from shotgun metagenomic data

artículo científico publicado en 2016

Therapeutic targeting of BET bromodomain proteins in castration-resistant prostate cancer

artículo científico publicado en 2014

Truncation of mutant huntingtin in knock-in mice demonstrates exon1 huntingtin is a key pathogenic form

artículo científico publicado en 2020

UALCAN: An update to the integrated cancer data analysis platform

artículo científico publicado en 2022

Understanding spatial organizations of chromosomes via statistical analysis of Hi-C data

artículo científico publicado en 2013

Using DIVAN to assess disease/trait-associated single nucleotide variants in genome-wide scale

artículo científico publicado en 2017

Using Poisson mixed-effects model to quantify transcript-level gene expression in RNA-Seq

artículo científico publicado en 2011

Widespread rearrangement of 3D chromatin organization underlies polycomb-mediated stress-induced silencing

artículo científico publicado en 2015

p53-mediated activation of miRNA34 candidate tumor-suppressor genes.

artículo científico publicado en 2007

traseR: an R package for performing trait-associated SNP enrichment analysis in genomic intervals.

artículo científico publicado en 2015

Lista de obras de Zhaohui Steve Qin

A comparison of phasing algorithms for trios and unrelated individuals

A continuum of admixture in the Western Hemisphere revealed by the African Diaspora genome

A double-layered mixture model for the joint analysis of DNA copy number and gene expression data

A genome-wide MeSH-based literature mining system predicts implicit gene-to-gene relationships and networks

A global protein kinase and phosphatase interaction network in yeast.

A new probabilistic rule for drug-dug interaction prediction

A novel statistical method for quantitative comparison of multiple ChIP-seq datasets

A second generation human haplotype map of over 3.1 million SNPs

ATAD3A mediates activation of RAS-independent mitochondrial ERK1/2 signaling, favoring head and neck cancer development ⬇️

Allogeneic T cell responses are regulated by a specific miRNA-mRNA network

An approach of identifying differential nucleosome regions in multiple samples

An efficient comprehensive search algorithm for tagSNP selection using linkage disequilibrium criteria

An empirical bayesian approach for testing gene expression fold change and its application in detecting global dosage effects

An integrated network of androgen receptor, polycomb, and TMPRSS2-ERG gene fusions in prostate cancer progression

Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

Author Correction: Association study in African-admixed populations across the Americas recapitulates asthma risk loci in non-African populations

Author Correction: Truncation of mutant huntingtin in knock-in mice demonstrates exon1 huntingtin is a key pathogenic form

Base-resolution methylation patterns accurately predict transcription factor bindings in vivo

Bayesian haplotype inference for multiple linked single-nucleotide polymorphisms

Bayesian inference of spatial organizations of chromosomes

Bayesian inference with historical data-based informative priors improves detection of differentially expressed genes

C/EBPβ mediates growth hormone-regulated expression of multiple target genes

CRCView: a web server for analyzing and visualizing microarray gene expression data using model-based clustering

CRISPR/Cas9-mediated gene editing ameliorates neurotoxicity in mouse model of Huntington's disease

Characterization of the EZH2-MMSET histone methyltransferase regulatory axis in cancer

Clustering microarray gene expression data using weighted Chinese restaurant process

Comparison of laboratory-based and phylogenetic methods to distinguish between Haemophilus influenzae and H. haemolyticus

Computational and functional analysis of growth hormone (GH)-regulated genes identifies the transcriptional repressor B-cell lymphoma 6 (Bc16) as a participant in GH-regulated transcription

Computationally Tractable Multivariate HMM in Genome-Wide Mapping Studies

Controllable Data Generation by Deep Learning: A Review

Cooperation between Polycomb and androgen receptor during oncogenic transformation

Coordinated regulation of polycomb group complexes through microRNAs in cancer.

DIVAN: accurate identification of non-coding disease-specific risk variants using multi-omics profiles

Deep sequencing reveals distinct patterns of DNA methylation in prostate cancer

Different normalization strategies for microarray gene expression traits affect the heritability estimation

Direct amplification, sequencing and profiling of Chlamydia trachomatis strains in single and mixed infection clinical samples

Drug-drug interaction prediction assessment

Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data

EWS/ETS-Driven Ewing Sarcoma Requires BET Bromodomain Proteins

EgoNet: identification of human disease ego-network modules

Exploring the cooccurrence patterns of multiple sets of genomic intervals

FOXP3 orchestrates H4K16 acetylation and H3K4 trimethylation for activation of multiple genes by recruiting MOF and causing displacement of PLU-1.

Family-based SNP association study on 8q24 in bipolar disorder

GPUmotif: an ultra-fast and energy-efficient motif analysis program using graphics processing units

Gene density, transcription, and insulators contribute to the partition of the Drosophila genome into physical domains

Genome-Wide STAT3 Binding Analysis after Histone Deacetylase Inhibition Reveals Novel Target Genes in Dendritic Cells

Genome-wide detection and characterization of positive selection in human populations

Global gene expression analysis reveals evidence for decreased lipid biosynthesis and increased innate immunity in uninvolved psoriatic skin

Glucocorticoid receptor wields chromatin interactions to tune transcription for cytoskeleton stabilization in podocytes

H2B ubiquitylation promotes RNA Pol II processivity via PAF1 and pTEFb

HPeak: an HMM-based algorithm for defining read-enriched regions in ChIP-Seq data

HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms.

Haplotype Inference and Its Application in Linkage Disequilibrium Mapping

Haplotype block partitioning and tag SNP selection using genotype data and their applications to association studies

Heat Shock Protein Beta-1 Modifies Anterior to Posterior Purkinje Cell Vulnerability in a Mouse Model of Niemann-Pick Type C Disease

HiCNorm: removing biases in Hi-C data via Poisson regression

Hierarchical hidden Markov model with application to joint analysis of ChIP-chip and ChIP-seq data

High throughput screening of co-expressed gene pairs with controlled false discovery rate (FDR) and minimum acceptable strength (MAS).

Identification of co-regulated genes through Bayesian clustering of predicted regulatory binding sites

Identifying tagging SNPs for African specific genetic variation from the African Diaspora Genome

Impaired replication elongation in Tetrahymena mutants deficient in histone H3 Lys 27 monomethylation

Improved classification of mass spectrometry database search results using newer machine learning approaches

Improving Hierarchical Models Using Historical Data with Applications in High-Throughput Genomics Data Analysis

Incorporating genotyping uncertainty in haplotype inference for single-nucleotide polymorphisms

Inferring Spatial Organization of Individual Topologically Associated Domains via Piecewise Helical Model

Insulator function and topological domain border strength scale with architectural protein occupancy

Integrated analysis of whole-genome paired-end and mate-pair sequencing data for identifying genomic structural variations in multiple myeloma

MLL1 and MLL1 fusion proteins have distinct functions in regulating leukemic transcription program

Model-Based Methods for Transcript Expression-Level Quantification in RNA-Seq

MotifOrganizer: a scalable model-based motif clustering tool for mammalian genomes

Multipoint Metropolis Method with Application to Hybrid Monte Carlo

OUP accepted manuscript

Omicseq: a web-based search engine for exploring omics datasets.

On the detection and refinement of transcription factor binding sites using ChIP-Seq data

One Size Doesn't Fit All - RefEditor: Building Personalized Diploid Reference Genome to Improve Read Mapping and Genotype Calling in Next Generation Sequencing Studies

Operon prediction for sequenced bacterial genomes without experimental information

Optimized distributed systems achieve significant performance improvement on sorted merging of massive VCF files.

PM-Seq: Using Finite Poisson Mixture Models for RNA-Seq Data Analysis and Transcript Expression Level Quantification

Partition-ligation-expectation-maximization algorithm for haplotype inference with single-nucleotide polymorphisms