Haixu Tang

According to our database1, Haixu Tang authored at least 62 papers between 2001 and 2019.

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Bibliography

2019
Session Introduction.
Proceedings of the Biocomputing 2019: Proceedings of the Pacific Symposium, 2019

MBeacon: Privacy-Preserving Beacons for DNA Methylation Data.
Proceedings of the 26th Annual Network and Distributed System Security Symposium, 2019

2018
A Secure Alignment Algorithm for Mapping Short Reads to Human Genome.
Journal of Computational Biology, 2018

Computational identification of micro-structural variations and their proteogenomic consequences in cancer.
Bioinformatics, 2018

Constrained De Novo Sequencing of neo-Epitope Peptides Using Tandem Mass Spectrometry.
Proceedings of the Research in Computational Molecular Biology, 2018

Smooth q-Gram, and Its Applications to Detection of Overlaps among Long, Error-Prone Sequencing Reads.
Proceedings of the 27th ACM International Conference on Information and Knowledge Management, 2018

2017
Addressing Beacon re-identification attacks: quantification and mitigation of privacy risks.
JAMIA, 2017

Improving de novo metatranscriptome assembly via machine learning algorithms.
I. J. Computational Biology and Drug Design, 2017

STRScan: targeted profiling of short tandem repeats in whole-genome sequencing data.
BMC Bioinformatics, 2017

ISEScan: automated identification of insertion sequence elements in prokaryotic genomes.
Bioinformatics, 2017

Leaky Cauldron on the Dark Land: Understanding Memory Side-Channel Hazards in SGX.
Proceedings of the 2017 ACM SIGSAC Conference on Computer and Communications Security, CCS 2017, Dallas, TX, USA, October 30, 2017

A Sparse Latent Regression Approach for Integrative Analysis of Glycomic and Glycotranscriptomic Data.
Proceedings of the 8th ACM International Conference on Bioinformatics, 2017

2016
A Graph-Centric Approach for Metagenome-Guided Peptide and Protein Identification in Metaproteomics.
PLoS Computational Biology, 2016

Utilizing de Bruijn graph of metagenome assembly for metatranscriptome analysis.
Bioinformatics, 2016

MGEScan: a Galaxy-based system for identifying retrotransposons in genomes.
Bioinformatics, 2016

On the Privacy Risks of Sharing Clinical Proteomics Data.
Proceedings of the Summit on Clinical Research Informatics, 2016

2015
Choosing blindly but wisely: differentially private solicitation of DNA datasets for disease marker discovery.
JAMIA, 2015

Efficient Genome-Wide, Privacy-Preserving Similar Patient Query based on Private Edit Distance.
Proceedings of the 22nd ACM SIGSAC Conference on Computer and Communications Security, 2015

A maximum-likelihood approach to absolute protein quantification in mass spectrometry.
Proceedings of the 6th ACM Conference on Bioinformatics, 2015

2014
A community assessment of privacy preserving techniques for human genomes.
BMC Med. Inf. & Decision Making, 2014

Detection of Structural Variants Involving Repetitive Regions in the Reference Genome.
Journal of Computational Biology, 2014

Gene finding in metatranscriptomic sequences.
BMC Bioinformatics, 2014

Integration of Clustering and Multidimensional Scaling to Determine Phylogenetic Trees as Spherical Phylograms Visualized in 3 Dimensions.
Proceedings of the 14th IEEE/ACM International Symposium on Cluster, 2014

Identification and characterization of accessory genomes in bacterial species based on genome comparison and metagenomic recruitment.
Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

Quasispecies reconstruction based on vertex coloring algorithms.
Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

2013
Probabilistic Inference of Biochemical Reactions in Microbial Communities from Metagenomic Sequences.
PLoS Computational Biology, 2013

Automated annotation and quantification of glycans using liquid chromatography-mass spectrometry.
Bioinformatics, 2013

Improving phosphopeptide identification in shotgun proteomics by supervised filtering of peptide-spectrum matches.
Proceedings of the ACM Conference on Bioinformatics, 2013

2012
A de Bruijn Graph Approach to the Quantification of Closely-Related Genomes in a Microbial Community.
Journal of Computational Biology, 2012

Detecting structural variants involving repetitive elements: capturing transposition events of IS elements in the genome of Escherichia coli.
BMC Bioinformatics, 2012

RAPSearch2: a fast and memory-efficient protein similarity search tool for next-generation sequencing data.
Bioinformatics, 2012

Large-Scale Privacy-Preserving Mapping of Human Genomic Sequences on Hybrid Clouds.
Proceedings of the 19th Annual Network and Distributed System Security Symposium, 2012

Privacy Protection in Sharing Personal Genome Sequencing Data.
Proceedings of the 2012 IEEE Second International Conference on Healthcare Informatics, 2012

DACIDR: deterministic annealed clustering with interpolative dimension reduction using a large collection of 16S rRNA sequences.
Proceedings of the ACM International Conference on Bioinformatics, 2012

2011
RAPSearch: a Fast Protein Similarity Search Tool for Short Reads.
BMC Bioinformatics, 2011

Enhanced peptide quantification using spectral count clustering and cluster abundance.
BMC Bioinformatics, 2011

Comparing Bacterial Communities Inferred from 16s Rrna Gene Sequencing and Shotgun Metagenomics.
Proceedings of the Biocomputing 2011: Proceedings of the Pacific Symposium, 2011

To Release or Not to Release: Evaluating Information Leaks in Aggregate Human-Genome Data.
Proceedings of the Computer Security - ESORICS 2011, 2011

2009
An Orfome Assembly Approach to Metagenomics Sequences Analysis.
J. Bioinformatics and Computational Biology, 2009

Biomedical Case Studies in Data Intensive Computing.
Proceedings of the Cloud Computing, First International Conference, CloudCom 2009, Beijing, 2009

Privacy-preserving genomic computation through program specialization.
Proceedings of the 2009 ACM Conference on Computer and Communications Security, 2009

Learning your identity and disease from research papers: information leaks in genome wide association study.
Proceedings of the 2009 ACM Conference on Computer and Communications Security, 2009

2008
A machine-learning approach to combined evidence validation of genome assemblies.
Bioinformatics, 2008

Fast and accurate identification of semi-tryptic peptides in shotgun proteomics.
Bioinformatics, 2008

A Bayesian Approach to Protein Inference Problem in Shotgun Proteomics.
Proceedings of the Research in Computational Molecular Biology, 2008

2007
Correcting Base-Assignment Errors in Repeat Regions of Shotgun Assembly.
IEEE/ACM Trans. Comput. Biology Bioinform., 2007

dPattern: transcription factor binding site (TFBS) discovery in human genome using a discriminative pattern analysis.
Bioinformatics, 2007

Advancement in Protein Inference from Shotgun Proteomics Using Peptide Detectability.
Proceedings of the Biocomputing 2007, 2007

Bioinformatics: Mining the Massive Data from High Throughput Genomics Experiments.
Proceedings of the Analysis of Biological Data: A Soft Computing Approach, 2007

2006
An Approximate de Bruijn Graph Approach to Multiple Local Alignment and Motif Discovery in Protein Sequences.
Proceedings of the Data Mining and Bioinformatics, First International Workshop, 2006

A Computational Approach for the Identification of Site-Specific Protein Glycosylations Through Ion-Trap Mass Spectrometry.
Proceedings of the Systems Biology and Computational Proteomics, 2006

A Machine Learning Approach to Predicting Peptide Fragmentation Spectra.
Proceedings of the Biocomputing 2006, 2006

A computational approach toward label-free protein quantification using predicted peptide detectability.
Proceedings of the Proceedings 14th International Conference on Intelligent Systems for Molecular Biology 2006, 2006

2005
Consensus Folding of Unaligned RNA Sequences Revisited.
Proceedings of the Research in Computational Molecular Biology, 2005

Automated interpretation of MS/MS spectra of oligosaccharides.
Proceedings of the Proceedings Thirteenth International Conference on Intelligent Systems for Molecular Biology 2005, 2005

2004
MedBlast: searching articles related to a biological sequence.
Bioinformatics, 2004

Fragment assembly with short reads.
Bioinformatics, 2004

De novo repeat classification and fragment assembly.
Proceedings of the Eighth Annual International Conference on Computational Molecular Biology, 2004

2002
Splicing graphs and EST assembly problem.
Proceedings of the Tenth International Conference on Intelligent Systems for Molecular Biology, 2002

2001
A New Estimator of Significance of Correlation in Time Series Data.
Journal of Computational Biology, 2001

A new approach to fragment assembly in DNA sequencing.
Proceedings of the Fifth Annual International Conference on Computational Biology, 2001

Fragment assembly with double-barreled data.
Proceedings of the Ninth International Conference on Intelligent Systems for Molecular Biology, 2001


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