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Yi-Ping Phoebe Chen

Research Profile

Occupations

Concepts & Ideas

Activities & Behaviors

Physiology

Metabolic Networks and Pathways

Genes & Molecular Sequences

Bacterial Genomes

Living Beings

Chemicals & Drugs

Procedures

Molecular Sequence Annotation

Co-author Network

Publications

TOP 3
Xiaofeng Song; Yi-Ping Phoebe Chen; Ping Han; Huating Wang; Minghao Wang; Hao Sun
Prediction of pre-miRNA with multiple stem-loops using pruning algorithm.
Wei Zhu; Jingyu Hou; Yi-Ping Phoebe Chen
Semantically predicting protein functions based on protein functional connectivity.
Chi-Ching Lee; Wei-Cheng Lo; Ping-Chiang Lyu; Cheng-Yu Ma; Yi-Ping Phoebe Chen; Tzu-Jung Yao; Chuan Yi Tang
GI-POP: a combinational annotation and genomic island prediction pipeline for ongoing microbial genome projects.

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All Publications

2013: Xiaofeng Song; Yi-Ping Phoebe Chen; Ping Han; Huating Wang; Minghao Wang; Hao Sun
Prediction of pre-miRNA with multiple stem-loops using pruning algorithm.
Computers in biology and medicine 2013;43(5):409-16.
2013: Wei Zhu; Jingyu Hou; Yi-Ping Phoebe Chen
Semantically predicting protein functions based on protein functional connectivity.
Computational biology and chemistry 2013;44():9-14.
2013: Chi-Ching Lee; Wei-Cheng Lo; Ping-Chiang Lyu; Cheng-Yu Ma; Yi-Ping Phoebe Chen; Tzu-Jung Yao; Chuan Yi Tang
GI-POP: a combinational annotation and genomic island prediction pipeline for ongoing microbial genome projects.
Gene 2013;518(1):114-23.
2013: Subha Kalyaanamoorthy; Yi-Ping Phoebe Chen
Energy based pharmacophore mapping of HDAC inhibitors against class I HDAC enzymes.
Biochimica et biophysica acta 2013;1834(1):317-28.
2012: Yi-Ping Phoebe Chen
Computational methods for protein interaction and structural prediction.
Biochimica et biophysica acta 2012;1824(12):1416-7.
2012: Yuan Yuan; Jerome Boyd-Kirkup; Yi-Ping Phoebe Chen; Philipp Khaitovich; Mehmet Somel
Accelerated aging-related transcriptome changes in the female prefrontal cortex.
Aging cell 2012;11(5):894-901.
2012: Yi-Ping Phoebe Chen
Guest Editorial: Application and development of bioinformatics.
IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM 2012;9(5):1265.
2012: Rajalakshmi Rajasekaran; Yi-Ping Phoebe Chen
Probing the structure of Leishmania major DHFR TS and structure based virtual screening of peptide library for the identification of anti-leishmanial leads.
Journal of molecular modeling 2012;18(9):4089-100.
2012: Wei Zhu; Jingyu Hou; Yi-Ping Phoebe Chen
Exploiting multi-layered information to iteratively predict protein functions.
Mathematical biosciences 2012;236(2):108-16.
2012: Subha Kalyaanamoorthy; Yi-Ping Phoebe Chen
Exploring inhibitor release pathways in histone deacetylases using random acceleration molecular dynamics simulations.
Journal of chemical information and modeling 2012;52(2):589-603.
2012: Jimmy Ka Ho Chiu; Yi-Ping Phoebe Chen
Conformational features of topologically classified RNA secondary structures.
PloS one 2012;7(7):e39907.
2012: Chi-Ching Lee; Wei-Cheng Lo; Yi-Ping Phoebe Chen; Szu-Ming Lai; Chuan Yi Tang; Ping-Chiang Lyu
Metabolic classification of microbial genomes using functional probes.
BMC genomics 2012;13():157.
2012: Yi-Ping Phoebe Chen; Peer Bork
The Tenth Asia Pacific Bioinformatics Conference (APBC 2012). Introduction.
BMC genomics 2012;13 Suppl 1():I1.
2011: Qingfeng Chen; Yi-Ping Phoebe Chen
Function annotation for pseudoknot using structure similarity.
IEEE/ACM transactions on computational biology and bioinformatics / IEEE, ACM 2011;8(6):1535-44.
2011: Subha Kalyaanamoorthy; Yi-Ping Phoebe Chen
Structure-based drug design to augment hit discovery.
Drug discovery today 2011;16(17-18):831-9.
2011: Qingfeng Chen; Yi-Ping Phoebe Chen
Modeling conserved structure patterns for functional noncoding RNA.
IEEE transactions on bio-medical engineering 2011;58(6):1528-33.
2011: Jesmin Nahar; Kevin S Tickle; A B M Shawkat Ali; Yi-Ping Phoebe Chen
Significant cancer prevention factor extraction: an association rule discovery approach.
Journal of medical systems 2011;35(3):353-67.
2011: Xiao-feng Song; Ping Han; Yi-Ping Phoebe Chen
Genetic variation of the hemagglutinin of avian influenza virus H9N2.
Journal of medical virology 2011;83(5):838-46.
2011: Qingfeng Chen; Yi-Ping Phoebe Chen
Mining protein kinases regulation using graphical models.
IEEE transactions on nanobioscience 2011;10(1):1-8.
2011: Yanping Xi; Yi-Ping Phoebe Chen; Chen Qian; Fei Wang
Comparative study of computational methods to detect the correlated reaction sets in biochemical networks.
Briefings in bioinformatics 2011;12(2):132-50.
2011: Yuan Yuan; Yi-Ping Phoebe Chen; Shengyu Ni; Mehmet Somel; Lin Tang; Martin Vingron; Augix Guohua Xu; Philipp Khaitovich
Development and application of a modified dynamic time warping algorithm (DTW-S) to analyses of primate brain expression time series.
BMC bioinformatics 2011;12():347.
2010: Feng Chen; Yi-Ping Phoebe Chen
Exploring the ncRNA-ncRNA patterns based on bridging rules.
Journal of biomedical informatics 2010;43(4):569-77.
2010: Feng Chen; Yi-Ping Phoebe Chen
Exploring cross-species-related miRNAs based on sequence and secondary structure.
IEEE transactions on bio-medical engineering 2010;57(7):1547-53.
2010: Jiyuan An; Kwok Pui Choi; Christine A Wells; Yi-Ping Phoebe Chen
Identifying co-regulating microRNA groups.
Journal of bioinformatics and computational biology 2010;8(1):99-115.
2010: Scott Mann; Jinyan Li; Yi-Ping Phoebe Chen
Insights into bacterial genome composition through variable target GC content profiling.
Journal of computational biology : a journal of computational molecular cell biology 2010;17(1):79-96.
2010: Qingfeng Chen; Yi-Ping Phoebe Chen
Mining characteristic relations bind to RNA secondary structures.
IEEE transactions on information technology in biomedicine : a publication of the IEEE Engineering in Medicine and Biology Society 2010;14(1):10-5.
2010: Scott Mann; Yi-Ping Phoebe Chen
Bacterial genomic G+C composition-eliciting environmental adaptation.
Genomics 2010;95(1):7-15.
2010: Da Jiang; Shuigeng Zhou; Hui Liu; Yi-Ping Phoebe Chen
Inferring minimal feasible metabolic networks of Escherichia coli.
Applied biochemistry and biotechnology 2010;160(1):222-31.
2009: Da Jiang; Shuigeng Zhou; Yi-Ping Phoebe Chen
Compensatory ability to null mutation in metabolic networks.
Biotechnology and bioengineering 2009;103(2):361-9.
2009: Jiyuan An; Yi-Ping Phoebe Chen
Finding rule groups to classify high dimensional gene expression datasets.
Computational biology and chemistry 2009;33(1):108-13.
2009: Yanping Xi; Yi-Ping Phoebe Chen; Ming Cao; Weirong Wang; Fei Wang
Analysis on relationship between extreme pathways and correlated reaction sets.
BMC bioinformatics 2009;10 Suppl 1():S58.
2008: Yi-Ping Phoebe Chen; Feng Chen
Using bioinformatics techniques for gene identification in drug discovery and development.
Current drug metabolism 2008;9(6):567-73.
2008: Jiyuan An; Yi-Ping Phoebe Chen
Finding edging genes from microarray data.
Journal of biotechnology 2008;135(3):233-40.
2008: Yi-Ping Phoebe Chen; Feng Chen
Identifying targets for drug discovery using bioinformatics.
Expert opinion on therapeutic targets 2008;12(4):383-9.
2008: Keith Knapp; Ashley Chonka; Yi-Ping Phoebe Chen
POEM, A 3-dimensional exon taxonomy and patterns in untranslated exons.
BMC genomics 2008;9():428.
2007: Yan Chen; Peter Timms; Yi-Ping Phoebe Chen
CIDB: Chlamydia Interactive Database for cross-querying genomics, transcriptomics and proteomics data.
Biomolecular engineering 2007;24(6):603-8.
2007: Jesmin Nahar; Shawkat Ali; Yi-Ping Phoebe Chen
Microarray data classification using automatic SVM kernel selection.
DNA and cell biology 2007;26(10):707-12.
2007: Scott Mann; Jinyan Li; Yi-Ping Phoebe Chen
A pHMM-ANN based discriminative approach to promoter identification in prokaryote genomic contexts.
Nucleic acids research 2007;35(2):e12.
2007: Keith Knapp; Yi-Ping Phoebe Chen
An evaluation of contemporary hidden Markov model genefinders with a predicted exon taxonomy.
Nucleic acids research 2007;35(1):317-24.
2006: Qingfeng Chen; Yi-Ping Phoebe Chen
Mining frequent patterns for AMP-activated protein kinase regulation on skeletal muscle.
BMC bioinformatics 2006;7():394.
2005: Alexander Garcia Castro; Yi-Ping Phoebe Chen; Mark A Ragan
Information integration in molecular bioscience.
Applied bioinformatics 2005;4(3):157-73.