Zhaolei Zhang

发表

Pseudogene.org: a comprehensive database and comparison platform for pseudogene annotation

Mark Gerstein, John E. Karro, Yangpan Yan, 2006, Nucleic Acids Res..

Gene Expression Variability within and between Human Populations and Implications toward Disease Susceptibility

Yu Liu, Zhaolei Zhang, Jingjing Li, 2010, PLoS Comput. Biol..

Small RNAs Originated from Pseudogenes: cis- or trans-Acting?

Mark Gerstein, Deyou Zheng, Zhaolei Zhang, 2009, PLoS Comput. Biol..

Mirsynergy: detecting synergistic miRNA regulatory modules by overlapping neighbourhood expansion

Cheng Liang, Zhaolei Zhang, Yue Li, 2014, Bioinform..

MAID : An effect size based model for microarray data integration across laboratories and platforms

Zhaolei Zhang, Limin Chen, Aled M. Edwards, 2008, BMC Bioinformatics.

A Deep Non-linear Feature Mapping for Large-Margin kNN Classification

Zhaolei Zhang, Martin Renqiang Min, Anthony J. Bonner, 2009, 2009 Ninth IEEE International Conference on Data Mining.

Accounting for Structural Properties and Nucleotide Co-variations in the Quantitative Prediction of Binding Affinities of Protein-DNA Interactions

Zhaolei Zhang, Sumedha Gunewardena, Zhaolei Zhang, 2005, Pacific Symposium on Biocomputing.

Large-Margin kNN Classification Using a Deep Encoder Network pdf

Zhaolei Zhang, Martin Renqiang Min, Anthony J. Bonner, 2009, ArXiv.

Tiger Tally: Cross-Domain Scheme for Different Authentication Mechanism

Zhaolei Zhang, Yuxiang Chen, Guishan Dong, 2019, ICA3PP.

A novel motif-discovery algorithm to identify co-regulatory motifs in large transcription factor and microRNA co-regulatory networks in human

Cheng Liang, Zhaolei Zhang, Yue Li, 2015, Bioinform..

SignalSpider: probabilistic pattern discovery on multiple normalized ChIP-Seq signal profiles

Zhaolei Zhang, Yue Li, Chengbin Peng, 2015, Bioinform..

Characterization and evolutionary analysis of protein-protein interaction networks.

Zhaolei Zhang, Andrew Emili, Gabriel Musso, 2012, Methods in molecular biology.

Alternative Pathway Approach for Automating Analysis and Validation of Cell Perturbation Networks and Design of Perturbation Experiments

Zhaolei Zhang, Yunchen Gong, Zhaolei Zhang, 2007, Annals of the New York Academy of Sciences.

基于区块链的身份管理认证研究 (Research on Identity Management Authentication Based on Blockchain)

Jian Bai, Zhaolei Zhang, Guishan Dong, 2018, 计算机科学.

PseudoPipe: an automated pseudogene identification pipeline

Mark Gerstein, John E. Karro, Deyou Zheng, 2006, Bioinform..

Deep Autoencoders for Dimensionality Reduction of High-Content Screening Data pdf

Zhaolei Zhang, Lee Zamparo, Zhaolei Zhang, 2015, ArXiv.

Global Robustness and Identifiability of Random, Scale‐Free, and Small‐World Networks

Zhaolei Zhang, Yunchen Gong, 2009, Annals of the New York Academy of Sciences.

An Open Identity Authentication Scheme Based on Blockchain

Zhaolei Zhang, Yuxiang Chen, Guishan Dong, 2019, ICA3PP.

Modifying kernels using label information improves SVM classification performance

Zhaolei Zhang, Martin Renqiang Min, Anthony J. Bonner, 2007, Sixth International Conference on Machine Learning and Applications (ICMLA 2007).

Deep Supervised t-Distributed Embedding

Zhaolei Zhang, Martin Renqiang Min, Laurens van der Maaten, 2010, ICML.

Evolutionary multimodal optimization using the principle of locality

Zhaolei Zhang, Chengbin Peng, Ka-Chun Wong, 2012, Inf. Sci..

A hybrid model for robust detection of transcription factor binding sites

Zhaolei Zhang, Sumedha Gunewardena, 2008, Bioinform..

Gene expression variations are predictive for stochastic noise

Zhaolei Zhang, Dong Dong, Naiyang Deng, 2011, Nucleic Acids Res..

PhenoM: a database of morphological phenotypes caused by mutation of essential genes in Saccharomyces cerevisiae

Zhaolei Zhang, Jingjing Li, Martin Renqiang Min, 2011, Nucleic Acids Res..

Learned Random-Walk Kernels and Empirical-Map Kernels for Protein Sequence Classification

Zhaolei Zhang, Jingjing Li, Martin Renqiang Min, 2009, J. Comput. Biol..

Bioinformatic approach to identify chaperone pathway relationship from large-scale interaction networks.

Zhaolei Zhang, Yunchen Gong, Walid A Houry, 2011, Methods in molecular biology.

CRISPR‐Net: A Recurrent Convolutional Network Quantifies CRISPR Off‐Target Activities with Mismatches and Indels

Zhaolei Zhang, Shixiong Zhang, Jiecong Lin, 2020, Advanced Science.

MiCroKit 3.0: an integrated database of midbody, centrosome and kinetochore

Yu Xue, Zhaolei Zhang, Zexian Liu, 2009, Nucleic Acids Res..

Learning Random-Walk Kernels for Protein Remote Homology Identification and Motif Discovery

Zhaolei Zhang, Martin Renqiang Min, Anthony J. Bonner, 2009, SDM.

A probabilistic approach to explore human miRNA targetome by integrating miRNA-overexpression data and sequence information

Zhaolei Zhang, Yue Li, Ka-Chun Wong, 2014, Bioinform..

DAnCER: Disease-Annotated Chromatin Epigenetics Resource

Andrei L. Turinsky, Zhaolei Zhang, Shoshana J. Wodak, 2010, Nucleic Acids Res..

Modifying kernels using label information improves SVM classification performance

Zhaolei Zhang, Anthony J. Bonner, Renqiang Min, 2007, ICMLA 2007.

Dimension Reduction on Open Data Using Variational Autoencoder

Zhaolei Zhang, Hyunmin Lee, Zhen Hao Wu, 2018, 2018 IEEE International Conference on Data Mining Workshops (ICDMW).

A Probabilistic Framework to Improve microRNA Target Prediction by Incorporating Proteomics Data

Zhaolei Zhang, Jingjing Li, Martin Renqiang Min, 2009, J. Bioinform. Comput. Biol..

Enhancing the Prediction of Transcription Factor Binding Sites by Incorporating Structural Properties and Nucleotide Covariations

Zhaolei Zhang, Peter Jeavons, Sumedha Gunewardena, 2006, J. Comput. Biol..

Firmware code instrumentation technology for internet of things-based services

Tao Qi, Zhaolei Zhang, Peng Sun, 2020 .

Filtering and interpreting large-scale experimental protein-protein interaction data.

Zhaolei Zhang, Andrew Emili, Gabriel Musso, 2011, Methods in molecular biology.

CellFrame: A Data Structure for Abstraction of Cell Biology Experiments and Construction of Perturbation Networks

Zhaolei Zhang, Yunchen Gong, Zhaolei Zhang, 2007, Annals of the New York Academy of Sciences.

A Survey on Applications of Artificial Intelligence in Fighting Against COVID-19 pdf

Philip S. Yu, Jianguo Chen, Zhaolei Zhang, 2020, ACM Comput. Surv..

Regression Analysis of Combined Gene Expression Regulation in Acute Myeloid Leukemia

Zhaolei Zhang, Yue Li, Minggao Liang, 2014, PLoS Comput. Biol..

SNPdryad: predicting deleterious non-synonymous human SNPs using only orthologous protein sequences

Zhaolei Zhang, Ka-Chun Wong, Ka-chun Wong, 2014, Bioinform..

Differential effects of chromatin regulators and transcription factors on gene regulation: a nucleosomal perspective

Zhaolei Zhang, Dong Dong, Xiaojian Shao, 2011, Bioinform..

miRNA regulatory variation in human evolution.

Zhaolei Zhang, Zhaolei Zhang, Jingjing Li, 2013, Trends in genetics : TIG.

Inferring probabilistic miRNA–mRNA interaction signatures in cancers: a role-switch approach

Cheng Liang, Zhaolei Zhang, Ka-Chun Wong, 2014, Nucleic acids research.

human Argonaute proteins Identifying mRNA sequence elements for target recognition by Material

Zhaolei Zhang, TaeHyung Kim, Timothy R. Hughes, 2014 .

Reconstructing genetic networks in yeast

Mark Gerstein, Zhaolei Zhang, M. Gerstein, 2003, Nature Biotechnology.

Analysis of membrane protein complexes using the split-ubiquitin membrane yeast two-hybrid (MYTH) system.

Zhaolei Zhang, Daniel Auerbach, Victoria Wong, 2009, Methods in molecular biology.

Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes.

Mark Gerstein, Zhaolei Zhang, M. Gerstein, 2003, Nucleic acids research.

Enrichment analysis of Alu elements with different spatial chromatin proximity in the human genome

Zhaolei Zhang, Peng Nan, Zhuoya Gu, 2016, Protein & Cell.

Potential microRNA-mediated oncogenic intercellular communication revealed by pan-cancer analysis

Zhaolei Zhang, Zhaolei Zhang, Yue Li, 2014, Scientific Reports.

The Cellular Robustness by Genetic Redundancy in Budding Yeast

Zhaolei Zhang, Zineng Yuan, Zhaolei Zhang, 2010, PLoS genetics.

Expanding the Landscape of Chromatin Modification (CM)-Related Functional Domains and Genes in Human

Andrei L. Turinsky, Zhaolei Zhang, Shoshana J. Wodak, 2010, PloS one.

Evidence for Positive Selection on a Number of MicroRNA Regulatory Interactions during Recent Human Evolution

Zhaolei Zhang, Jeffrey L. Wrana, Xiaofeng Xin, 2012, PLoS genetics.

An atlas of chaperone–protein interactions in Saccharomyces cerevisiae: implications to protein folding pathways in the cell

Zhaolei Zhang, Andrew Emili, Jack Greenblatt, 2009, Molecular systems biology.

The extensive and condition-dependent nature of epistasis among whole-genome duplicates in yeast.

Zhaolei Zhang, Michael Costanzo, Corey Nislow, 2008, Genome research.

Power-law behavior applies to a wide variety of genomic properties

Mark Gerstein, Zhaolei Zhang, Nicholas M Luscombe, 2002 .

New Tricks for “Old” Domains: How Novel Architectures and Promiscuous Hubs Contributed to the Organization and Evolution of the ECM

Zhaolei Zhang, Ka-Chun Wong, John Parkinson, 2014, Genome biology and evolution.

Exploiting the determinants of stochastic gene expression in Saccharomyces cerevisiae for genome-wide prediction of expression noise

Zhaolei Zhang, Xiaofeng Xin, Renqiang Min, 2010, Proceedings of the National Academy of Sciences.

The evolutionary landscape of the chromatin modification machinery reveals lineage specific gains, expansions, and losses

Andrei L. Turinsky, Zhaolei Zhang, John Parkinson, 2010, Proteins.

Pseudogene Evolution in the Human Genome

Zhaolei Zhang, Deyou Zheng, D. Zheng, 2014 .

Integrated pseudogene annotation for human chromosome 22: evidence for transcription.

Mark Gerstein, Zhaolei Zhang, Deyou Zheng, 2005, Journal of molecular biology.

The impact of horizontal gene transfer in shaping operons and protein interaction networks – direct evidence of preferential attachment

Zhaolei Zhang, Wagied Davids, Zhaolei Zhang, 2008, BMC Evolutionary Biology.

Computational learning on specificity-determining residue-nucleotide interactions

Zhaolei Zhang, Chengbin Peng, Ka-Chun Wong, 2015, Nucleic acids research.

Millions of years of evolution preserved: a comprehensive catalog of the processed pseudogenes in the human genome.

Mark Gerstein, Zhaolei Zhang, M. Gerstein, 2003, Genome research.

Computational Biology in microRNA

Zhaolei Zhang, Zhaolei Zhang, Yue Li, 2015, Wiley interdisciplinary reviews. RNA.

DNA motif elucidation using belief propagation

Zhaolei Zhang, Chengbin Peng, Ka-Chun Wong, 2013, Nucleic acids research.

Identification of pseudogenes in the Drosophila melanogaster genome.

Mark Gerstein, Zhaolei Zhang, Paul Bertone, 2003, Nucleic acids research.

Comprehensive analysis of amino acid and nucleotide composition in eukaryotic genomes, comparing genes and pseudogenes.

Mark Gerstein, Zhaolei Zhang, Nathaniel Echols, 2002, Nucleic acids research.

Experimental and computational procedures for the assessment of protein complexes on a genome-wide scale.

Zhaolei Zhang, Andrew Emili, A. Emili, 2007, Chemical reviews.

Alternative signaling pathways: When, where and why?

Zhaolei Zhang, Yunchen Gong, Zhaolei Zhang, 2005, FEBS letters.

Unsupervised Learning in Genome Informatics

Zhaolei Zhang, Ka-Chun Wong, Ka-chun Wong, 2015, 1508.00459.

Comparative analysis of genome tiling array data reveals many novel primate-specific functional RNAs in human

Mark Gerstein, Zhaolei Zhang, Andy Wing Chun Pang, 2007, BMC Evolutionary Biology.