Fengzhu Sun

According to our database1, Fengzhu Sun authored at least 65 papers between 1995 and 2019.

Collaborative distances:
  • Dijkstra number2 of four.
  • Erdős number3 of four.

Timeline

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PhD thesis 
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Links

On csauthors.net:

Bibliography

2019
SolidBin: improving metagenome binning with semi-supervised normalized cut.
Bioinformatics, 2019

A new statistic for efficient detection of repetitive sequences.
Bioinformatics, 2019

2018
GOLabeler: improving sequence-based large-scale protein function prediction by learning to rank.
Bioinformatics, 2018

2017
CAFE: aCcelerated Alignment-FrEe sequence analysis.
Nucleic Acids Research, 2017

Prediction of virus-host infectious association by supervised learning methods.
BMC Bioinformatics, 2017

Improving contig binning of metagenomic data using (d2S) oligonucleotide frequency dissimilarity.
BMC Bioinformatics, 2017

COCACOLA: binning metagenomic contigs using sequence COmposition, read CoverAge, CO-alignment and paired-end read LinkAge.
Bioinformatics, 2017

Sparse generalized linear model with L 0 approximation for feature selection and prediction with big omics data.
BioData Mining, 2017

2016
Inference of domain-disease associations from domain-protein, protein-disease and disease-disease relationships.
BMC Systems Biology, 2016

Inference of Markovian properties of molecular sequences from NGS data and applications to comparative genomics.
Bioinformatics, 2016

2015
Finding Genetic Overlaps Among Diseases Based on Ranked Gene Lists.
Journal of Computational Biology, 2015

Statistical significance approximation in local trend analysis of high-throughput time-series data using the theory of Markov chains.
BMC Bioinformatics, 2015

Network tuned multiple rank aggregation and applications to gene ranking.
BMC Bioinformatics, 2015

Multilevel regularized regression for simultaneous taxa selection and network construction with metagenomic count data.
Bioinformatics, 2015

2014
DiseaseConnect: a comprehensive web server for mechanism-based disease-disease connections.
Nucleic Acids Research, 2014

Alignment-free protein interaction network comparison.
Bioinformatics, 2014

New developments of alignment-free sequence comparison: measures, statistics and next-generation sequencing.
Briefings in Bioinformatics, 2014

Integrative approaches for predicting protein function and prioritizing genes for complex phenotypes using protein interaction networks.
Briefings in Bioinformatics, 2014

2013
Preface: Research in Computational Molecular Biology (RECOMB 2013).
Journal of Computational Biology, 2013

Alignment-Free Sequence Comparison Based on Next-Generation Sequencing Reads.
Journal of Computational Biology, 2013

A unified approach for allele frequency estimation, SNP detection and association studies based on pooled sequencing data using EM algorithms.
BMC Genomics, 2013

Efficient statistical significance approximation for local similarity analysis of high-throughput time series data.
Bioinformatics, 2013

Multiple alignment-free sequence comparison.
Bioinformatics, 2013

2012
CEDER: Accurate Detection of Differentially Expressed Genes by Combining Significance of Exons Using RNA-Seq.
IEEE/ACM Trans. Comput. Biology Bioinform., 2012

Normal and Compound Poisson Approximations for Pattern Occurrences in NGS Reads.
Journal of Computational Biology, 2012

Preface: Special Issue.
Journal of Computational Biology, 2012

Alignment-Free Sequence Comparison Based on Next Generation Sequencing Reads: Extended Abstract.
Proceedings of the Research in Computational Molecular Biology, 2012

2011
Sequence Alignment as Hypothesis Testing.
Journal of Computational Biology, 2011

DomainRBF: a Bayesian regression approach to the prioritization of candidate domains for complex diseases.
BMC Systems Biology, 2011

Extended local similarity analysis (eLSA) of microbial community and other time series data with replicates.
BMC Systems Biology, 2011

Integrating multiple protein-protein interaction networks to prioritize disease genes: a Bayesian regression approach.
BMC Bioinformatics, 2011

Variance adjusted weighted UniFrac: a powerful beta diversity measure for comparing communities based on phylogeny.
BMC Bioinformatics, 2011

Inferring Signaling and Gene Regulatory Network from Genetic and Genomic Information.
Proceedings of the Handbook of Statistical Bioinformatics., 2011

2010
The Power of Detecting Enriched Patterns: An HMM Approach.
Journal of Computational Biology, 2010

Alignment-Free Sequence Comparison (II): Theoretical Power of Comparison Statistics.
Journal of Computational Biology, 2010

2009
Alignment-Free Sequence Comparison (I): Statistics and Power.
Journal of Computational Biology, 2009

Usefulness and limitations of dK random graph models to predict interactions and functional homogeneity in biological networks under a pseudo-likelihood parameter estimation approach.
BMC Bioinformatics, 2009

2008
Compound Poisson Approximation of the Number of Occurrences of a Position Frequency Matrix (PFM) on Both Strands.
Journal of Computational Biology, 2008

The effects of protein interactions, gene essentiality and regulatory regions on expression variation.
BMC Systems Biology, 2008

Testing gene set enrichment for subset of genes: Sub-GSE.
BMC Bioinformatics, 2008

2007
Inferring activity changes of transcription factors by binding association with sorted expression profiles.
BMC Bioinformatics, 2007

CGI: a new approach for prioritizing genes by combining gene expression and protein-protein interaction data.
Bioinformatics, 2007

2006
A model-based approach to selection of tag SNPs.
BMC Bioinformatics, 2006

An integrated approach to the prediction of domain-domain interactions.
BMC Bioinformatics, 2006

Searching for interpretable rules for disease mutations: a simulated annealing bump hunting strategy.
BMC Bioinformatics, 2006

A dynamic programming algorithm for binning microbial community profiles.
Bioinformatics, 2006

Local similarity analysis reveals unique associations among marine bacterioplankton species and environmental factors.
Bioinformatics, 2006

MARD: a new method to detect differential gene expression in treatment-control time courses.
Bioinformatics, 2006

An integrative approach for causal gene identification and gene regulatory pathway inference.
Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2005
HAPLORE: a program for haplotype reconstruction in general pedigrees without recombination.
Bioinformatics, 2005

HapBlock: haplotype block partitioning and tag SNP selection software using a set of dynamic programming algorithms.
Bioinformatics, 2005

2004
Extreme Value Distribution Based Gene Selection Criteria for Discriminant Microarray Data Analysis Using Logistic Regression.
Journal of Computational Biology, 2004

An Integrated Probabilistic Model for Functional Prediction of Proteins.
Journal of Computational Biology, 2004

Mapping gene ontology to proteins based on protein-protein interaction data.
Bioinformatics, 2004

A Comparison of Different Strategies for Computing Confidence Intervals of the Linkage Disequilibrium Measure.
Proceedings of the Biocomputing 2004, 2004

2003
The Mutation Process of Microsatellites During the Polymerase Chain Reaction.
Journal of Computational Biology, 2003

Prediction of Protein Function Using Protein-Protein Interaction Data.
Journal of Computational Biology, 2003

Dynamic programming algorithms for haplotype block partitioning: applications to human chromosome 21 haplotype data.
Proceedings of the Sventh Annual International Conference on Computational Biology, 2003

Assessment of the reliability of protein-protein interactions and protein function prediction.
Proceedings of the 8th Pacific Symposium on Biocomputing, 2003

2002
Dynamic Programming Algorithms for Haplotype Block Partitioning and Tag SNP Selection Using Haplotype Data or Genotype Data.
Proceedings of the Computational Methods for SNPs and Haplotype Inference, 2002

Inferring domain-domain interactions from protein-protein interactions.
Proceedings of the Sixth Annual International Conference on Computational Biology, 2002

2000
Estimation of the Mutation Rate During Error-prone Polymerase Chain Reaction.
Journal of Computational Biology, 2000

1999
Modeling DNA Shuffling.
Journal of Computational Biology, 1999

1997
Pooling Strategies for Establishing Physical Genome Maps Using FISH.
Journal of Computational Biology, 1997

1995
The Polymerase Chain Reaction and Branching Processes.
Journal of Computational Biology, 1995


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