Michael Q. Zhang

According to our database1, Michael Q. Zhang authored at least 55 papers between 1993 and 2018.

Collaborative distances:



In proceedings 
PhD thesis 


On csauthors.net:


NONCODEV5: a comprehensive annotation database for long non-coding RNAs.
Nucleic Acids Research, 2018

CGmapTools improves the precision of heterozygous SNV calls and supports allele-specific methylation detection and visualization in bisulfite-sequencing data.
Bioinformatics, 2018

MTGIpick allows robust identification of genomic islands from a single genome.
Briefings in Bioinformatics, 2018

DE MERVLs are Enriched Around Two-Cell-Specific Genes During Zygotic Genome Activation in Mouse.
Proceedings of the IEEE International Conference on Systems, Man, and Cybernetics, 2018

Web3DMol: interactive protein structure visualization based on WebGL.
Nucleic Acids Research, 2017

DIRECTION: a machine learning framework for predicting and characterizing DNA methylation and hydroxymethylation in mammalian genomes.
Bioinformatics, 2017

NONCODE 2016: an informative and valuable data source of long non-coding RNAs.
Nucleic Acids Research, 2016

Integrative analysis of 111 reference human epigenomes Open.
, , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , ,
Nature, 2015

ChIP-Array 2: integrating multiple omics data to construct gene regulatory networks.
Nucleic Acids Research, 2015

MICC: an R package for identifying chromatin interactions from ChIA-PET data.
Bioinformatics, 2015

Computational Identification of Active Enhancers in Model Organisms.
Genomics, Proteomics & Bioinformatics, 2013

Genome-Wide Localization of Protein-DNA Binding and Histone Modification by a Bayesian Change-Point Method with ChIP-seq Data.
PLoS Computational Biology, 2012

Prioritizing Disease Genes and Understanding Disease Pathways.
IJKDB, 2012

Computational Modeling of Mammalian Promoters - (Invited Keynote Talk).
Proceedings of the Bioinformatics Research and Applications - 8th International Symposium, 2012

ChIP-Array: combinatory analysis of ChIP-seq/chip and microarray gene expression data to discover direct/indirect targets of a transcription factor.
Nucleic Acids Research, 2011

Novel Markov model of induced pluripotency predicts gene expression changes in reprogramming.
BMC Systems Biology, 2011

Histone modification profiles are predictive for tissue/cell-type specific expression of both protein-coding and microRNA genes.
BMC Bioinformatics, 2011

Correlated evolution of transcription factors and their binding sites.
Bioinformatics, 2011

SpliceTrap: a method to quantify alternative splicing under single cellular conditions.
Bioinformatics, 2011

A method for finding novel associations between genome-wide copy number and dna methylation patterns.
Proceedings of the 2011 IEEE International Workshop on Genomic Signal Processing and Statistics, 2011

Computational Promoter Prediction in a Vertebrate Genome.
Proceedings of the Handbook of Statistical Bioinformatics., 2011

SFSSClass: an integrated approach for miRNA based tumor classification.
BMC Bioinformatics, 2010

Challenges in Understanding Genome-Wide DNA Methylation.
J. Comput. Sci. Technol., 2009

The Seventh Asia Pacific Bioinformatics Conference (APBC2009).
BMC Bioinformatics, 2009

Gene set-based module discovery in the breast cancer transcriptome.
BMC Bioinformatics, 2009

Updates to the RMAP short-read mapping software.
Bioinformatics, 2009

Identification of Synaptic Targets of Drosophila Pumilio.
PLoS Computational Biology, 2008

Using quality scores and longer reads improves accuracy of Solexa read mapping.
BMC Bioinformatics, 2008

Integrative bioinformatics analysis of transcriptional regulatory programs in breast cancer cells.
BMC Bioinformatics, 2008

Identification of phylogenetically conserved microRNA cis-regulatory elements across 12 Drosophila species.
Bioinformatics, 2008

ZOOM! Zillions of oligos mapped.
Bioinformatics, 2008

Multiobjective fuzzy biclustering in microarray data: Method and a new performance measure.
Proceedings of the IEEE Congress on Evolutionary Computation, 2008

Neighbor number, valley seeking and clustering.
Pattern Recognition Letters, 2007

TRED: a transcriptional regulatory element database, new entries and other development.
Nucleic Acids Research, 2007

Computational analyses of eukaryotic promoters.
BMC Bioinformatics, 2007

Statistical significance of cis-regulatory modules.
BMC Bioinformatics, 2007

Computing exact P-values for DNA motifs.
Bioinformatics, 2007

Computational prediction of novel components of lung transcriptional networks.
Bioinformatics, 2007

OSCAR: One-class SVM for accurate recognition of cis-elements.
Bioinformatics, 2007

Profiling alternatively spliced mRNA isoforms for prostate cancer classification.
BMC Bioinformatics, 2006

Predicting methylation status of CpG islands in the human brain.
Bioinformatics, 2006

Analysis and visualization of DNA spectrograms: open possibilities for the genome research.
Proceedings of the 14th ACM International Conference on Multimedia, 2006

TRED: a Transcriptional Regulatory Element Database and a platform for in silico gene regulation studies.
Nucleic Acids Research, 2005

DWE: Discriminating Word Enumerator.
Bioinformatics, 2005

Similarity of position frequency matrices for transcription factor binding sites.
Bioinformatics, 2005

Computational Molecular Biology of Genome Expression and Regulation.
Proceedings of the Pattern Recognition and Machine Intelligence, 2005

Mining ChIP-chip data for transcription factor and cofactor binding sites.
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

Genome-wide prediction and analysis of function-specific transcription factor binding sites.
In Silico Biology, 2004

ESEfinder: a web resource to identify exonic splicing enhancers.
Nucleic Acids Research, 2003

Promoter Extraction from GenBank (PEG): automatic extraction of eukaryotic promoter sequences in large sets of genes.
Bioinformatics, 2001

Identifying the 3'-terminal exon in human DNA.
Bioinformatics, 2001

Discriminant Analysis and Its Application in DNA Sequence Motif Recognition.
Briefings in Bioinformatics, 2000

Promoter Analysis of Co-regulated Genes in the Yeast Genome.
Computers & Chemistry, 1999

SCPD: a promoter database of the yeast Saccharomyces cerevisiae.
Bioinformatics, 1999

A weight array method for splicing signal analysis.
Computer Applications in the Biosciences, 1993