List of works - Yi-Ping Phoebe Chen

A blockchain-based application for genomic access and variant discovery using smart contracts and homomorphic encryption

scientific article published in 2022

A catalogue of novel bovine long noncoding RNA across 18 tissues

scientific article

A comprehensive study of RNA secondary structure alignment algorithms

scientific article published on 16 March 2016

A computationally efficient algorithm for genomic prediction using a Bayesian model

scientific article published on 30 April 2015

A hybrid expectation maximisation and MCMC sampling algorithm to implement Bayesian mixture model based genomic prediction and QTL mapping

scientific article

A pHMM-ANN based discriminative approach to promoter identification in prokaryote genomic contexts

scientific article published on 14 December 2006

A steered molecular dynamics mediated hit discovery for histone deacetylases.

scientific article

Accelerated aging-related transcriptome changes in the female prefrontal cortex

scientific article (publication date: October 2012)

An evaluation of contemporary hidden Markov model genefinders with a predicted exon taxonomy

scientific article published on 14 December 2006

Analysis on relationship between extreme pathways and correlated reaction sets

scientific article

Application of a Bayesian non-linear model hybrid scheme to sequence data for genomic prediction and QTL mapping

scientific article published on 15 August 2017

Autogenic Language Embedding for Coherent Point Tracking

scientific article published on 26 October 2024

Bacterial genomic G+C composition-eliciting environmental adaptation

scientific article published on 09 September 2009

Bioinformatics in protein kinases regulatory network and drug discovery

scientific article published on 02 February 2015

CIDB: Chlamydia Interactive Database for cross-querying genomics, transcriptomics and proteomics data

scientific article

Changes in snoRNA and snRNA Abundance in the Human, Chimpanzee, Macaque, and Mouse Brain

scientific article published on 28 February 2016

Comparative study of computational methods to detect the correlated reaction sets in biochemical networks

scientific article published on 7 January 2010

Compensatory ability to null mutation in metabolic networks

scientific article published on 01 June 2009

Computational developments in microRNA-regulated protein-protein interactions

scientific article

Computational methods for protein interaction and structural prediction

scientific article published on 01 December 2012

Conformational features of topologically classified RNA secondary structures

scientific article

Determining common insertion sites based on retroviral insertion distribution across tumors

scientific article published on 12 March 2014

Dynamic user-centric access control for detection of ransomware attacks

scientific article published in 2021

Effectively identifying compound-protein interactions by learning from positive and unlabeled examples.

scientific article published on 18 May 2016

Efficient conversion of RNA pseudoknots to knot-free structures using a graphical model

scientific article published on 2 December 2014

Energy based pharmacophore mapping of HDAC inhibitors against class I HDAC enzymes

scientific article

Ensemble Fuzzy Feature Selection Based on Relevancy, Redundancy, and Dependency Criteria

scientific article published on 09 July 2020

Evolutionary and ontogenetic changes in RNA editing in human, chimpanzee, and macaque brains

scientific article published on 23 October 2013

Exploiting multi-layered information to iteratively predict protein functions

scientific article published on 03 March 2012

Exploring cross-species-related miRNAs based on sequence and secondary structure

scientific article published in March 2010

Exploring inhibitor release pathways in histone deacetylases using random acceleration molecular dynamics simulations

scientific article

Exploring the ncRNA-ncRNA patterns based on bridging rules

scientific article

Finding edging genes from microarray data

scientific article

Finding rule groups to classify high dimensional gene expression datasets

scientific article published on 14 August 2008

Function Annotation for Pseudoknot Using Structure Similarity ⬇️

scientific article published on November 1, 2011

GI-POP: a combinational annotation and genomic island prediction pipeline for ongoing microbial genome projects

scientific article published on 12 January 2013

Generative AI in Multimedia: Challenges and Opportunities for Academic and Industrial Impact

scientific article published on 26 October 2024

Genetic variation of the hemagglutinin of avian influenza virus H9N2.

scientific article published in May 2011

Guest Editorial for the 14th Asia Pacific Bioinformatics Conference (APBC2016).

scientific article published on 13 April 2016

Guest Editorial: Application and development of bioinformatics

scientific article published on 01 September 2012

Guest editorial: Advanced algorithms of bioinformatics

scientific article

Identification of protein complexes by integrating multiple alignment of protein interaction networks

scientific article published on 27 January 2017

Identification of well-differentiated gene expressions between Han Chinese and Japanese using genome-wide microarray data analysis

scientific article

Identifying co-regulating microRNA groups

scientific article published on February 2010

Inferring minimal feasible metabolic networks of Escherichia coli.

scientific article published on 27 May 2009

Information Integration in Molecular Bioscience

Insights into bacterial genome composition through variable target GC content profiling

scientific article published in January 2010

Interval-based distance function for identifying RNA structure candidates

scientific article published on 5 November 2010

LGCDA: Predicting CircRNA-Disease Association Based on Fusion of Local and Global Features

scientific article published on 12 April 2024

Large-scale frequent stem pattern mining in RNA families

article

Ligand release mechanisms and channels in histone deacetylases.

scientific article published on 27 July 2013

Metabolic classification of microbial genomes using functional probes

scientific article

Microarray data classification using automatic SVM kernel selection.

scientific article

Mining Protein Kinases Regulation Using Graphical Models ⬇️

scientific article published on February 24, 2011

Mining characteristic relations bind to RNA secondary structures

scientific article published on 25 September 2009

Mining frequent patterns for AMP-activated protein kinase regulation on skeletal muscle

scientific article

Modelling and enhanced molecular dynamics to steer structure-based drug discovery.

scientific article

Mortality Prediction of Patients With Cardiovascular Disease Using Medical Claims Data Under Artificial Intelligence Architectures: Validation Study

scientific article published on 01 April 2021

New Insights Into Drug Repurposing for COVID-19 Using Deep Learning

scientific article published on 27 October 2021

Optimized Configuration of Exponential Smoothing and Extreme Learning Machine for Traffic Flow Forecasting

scientific article published in 2019

Optimized Structure of the Traffic Flow Forecasting Model With a Deep Learning Approach

scientific article published on 20 July 2016

POEM, A 3-dimensional exon taxonomy and patterns in untranslated exons

scientific article

Pairwise RNA secondary structure alignment with conserved stem pattern

scientific article

Partial automation of database processing of simulation outputs from L-systems models of plant morphogenesis

scientific article

Pattern Matching for Motifs

Potential therapeutic targets and the role of technology in developing novel antileishmanial drugs

scientific article published on 29 April 2015

Predicting miRNA-mediated gene silencing mode based on miRNA-target duplex features

scientific article

Prediction of pre-miRNA with multiple stem-loops using pruning algorithm

scientific article published on 15 March 2013

Probing the structure of Leishmania major DHFR TS and structure based virtual screening of peptide library for the identification of anti-leishmanial leads

scientific article

Quantum polarized ligand docking investigation to understand the significance of protonation states in histone deacetylase inhibitors

scientific article published on 14 May 2013

Ransomware Mitigation in the Modern Era: A Comprehensive Review, Research Challenges, and Future Directions

scientific article published on 08 October 2021

Recent advances in sequence assembly: principles and applications

scientific article published on 26 April 2017

Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle

scientific article

Research on folding diversity in statistical learning methods for RNA secondary structure prediction.

scientific article published on 22 May 2018

Semantic and layered protein function prediction from PPI networks

scientific article published on 17 August 2010

Semantically predicting protein functions based on protein functional connectivity

scientific article published on 29 January 2013

Significant cancer prevention factor extraction: an association rule discovery approach.

scientific article published on 03 October 2009

Structure-based drug design to augment hit discovery

scientific article published on 22 July 2011

Subdividing globally important zones based on data distribution across multiple genome fragments

scientific article

The Tenth Asia Pacific Bioinformatics Conference (APBC 2012) ⬇️

scientific article published on January 17, 2012

Using bioinformatics techniques for gene identification in drug discovery and development

scientific article published on July 2008

Variance explained by whole genome sequence variants in coding and regulatory genome annotations for six dairy traits

scientific article published on 5 April 2018

Widespread splicing changes in human brain development and aging

scientific article published on January 2013

k-Partite cliques of protein interactions: A novel subgraph topology for functional coherence analysis on PPI networks

scientific article published on 19 September 2013

List of works by Yi-Ping Phoebe Chen

A blockchain-based application for genomic access and variant discovery using smart contracts and homomorphic encryption

A catalogue of novel bovine long noncoding RNA across 18 tissues

A comprehensive study of RNA secondary structure alignment algorithms

A computationally efficient algorithm for genomic prediction using a Bayesian model

A hybrid expectation maximisation and MCMC sampling algorithm to implement Bayesian mixture model based genomic prediction and QTL mapping

A pHMM-ANN based discriminative approach to promoter identification in prokaryote genomic contexts

A steered molecular dynamics mediated hit discovery for histone deacetylases.

Accelerated aging-related transcriptome changes in the female prefrontal cortex

An evaluation of contemporary hidden Markov model genefinders with a predicted exon taxonomy

Analysis on relationship between extreme pathways and correlated reaction sets

Application of a Bayesian non-linear model hybrid scheme to sequence data for genomic prediction and QTL mapping

Autogenic Language Embedding for Coherent Point Tracking

Bacterial genomic G+C composition-eliciting environmental adaptation

Bioinformatics in protein kinases regulatory network and drug discovery

CIDB: Chlamydia Interactive Database for cross-querying genomics, transcriptomics and proteomics data

Changes in snoRNA and snRNA Abundance in the Human, Chimpanzee, Macaque, and Mouse Brain

Comparative study of computational methods to detect the correlated reaction sets in biochemical networks

Compensatory ability to null mutation in metabolic networks

Computational developments in microRNA-regulated protein-protein interactions

Computational methods for protein interaction and structural prediction

Conformational features of topologically classified RNA secondary structures

Determining common insertion sites based on retroviral insertion distribution across tumors

Dynamic user-centric access control for detection of ransomware attacks

Effectively identifying compound-protein interactions by learning from positive and unlabeled examples.

Efficient conversion of RNA pseudoknots to knot-free structures using a graphical model

Energy based pharmacophore mapping of HDAC inhibitors against class I HDAC enzymes

Ensemble Fuzzy Feature Selection Based on Relevancy, Redundancy, and Dependency Criteria

Evolutionary and ontogenetic changes in RNA editing in human, chimpanzee, and macaque brains

Exploiting multi-layered information to iteratively predict protein functions

Exploring cross-species-related miRNAs based on sequence and secondary structure

Exploring inhibitor release pathways in histone deacetylases using random acceleration molecular dynamics simulations

Exploring the ncRNA-ncRNA patterns based on bridging rules

Finding edging genes from microarray data

Finding rule groups to classify high dimensional gene expression datasets

Function Annotation for Pseudoknot Using Structure Similarity ⬇️

GI-POP: a combinational annotation and genomic island prediction pipeline for ongoing microbial genome projects

Generative AI in Multimedia: Challenges and Opportunities for Academic and Industrial Impact

Genetic variation of the hemagglutinin of avian influenza virus H9N2.

Guest Editorial for the 14th Asia Pacific Bioinformatics Conference (APBC2016).

Guest Editorial: Application and development of bioinformatics

Guest editorial: Advanced algorithms of bioinformatics

Identification of protein complexes by integrating multiple alignment of protein interaction networks

Identification of well-differentiated gene expressions between Han Chinese and Japanese using genome-wide microarray data analysis

Identifying co-regulating microRNA groups

Inferring minimal feasible metabolic networks of Escherichia coli.

Information Integration in Molecular Bioscience

Insights into bacterial genome composition through variable target GC content profiling

Interval-based distance function for identifying RNA structure candidates

LGCDA: Predicting CircRNA-Disease Association Based on Fusion of Local and Global Features

Large-scale frequent stem pattern mining in RNA families

Ligand release mechanisms and channels in histone deacetylases.

Metabolic classification of microbial genomes using functional probes

Microarray data classification using automatic SVM kernel selection.

Mining Protein Kinases Regulation Using Graphical Models ⬇️

Mining characteristic relations bind to RNA secondary structures

Mining frequent patterns for AMP-activated protein kinase regulation on skeletal muscle

Modelling and enhanced molecular dynamics to steer structure-based drug discovery.

Mortality Prediction of Patients With Cardiovascular Disease Using Medical Claims Data Under Artificial Intelligence Architectures: Validation Study

New Insights Into Drug Repurposing for COVID-19 Using Deep Learning

Optimized Configuration of Exponential Smoothing and Extreme Learning Machine for Traffic Flow Forecasting

Optimized Structure of the Traffic Flow Forecasting Model With a Deep Learning Approach

POEM, A 3-dimensional exon taxonomy and patterns in untranslated exons

Pairwise RNA secondary structure alignment with conserved stem pattern

Partial automation of database processing of simulation outputs from L-systems models of plant morphogenesis

Pattern Matching for Motifs

Potential therapeutic targets and the role of technology in developing novel antileishmanial drugs

Predicting miRNA-mediated gene silencing mode based on miRNA-target duplex features

Prediction of pre-miRNA with multiple stem-loops using pruning algorithm

Probing the structure of Leishmania major DHFR TS and structure based virtual screening of peptide library for the identification of anti-leishmanial leads

Quantum polarized ligand docking investigation to understand the significance of protonation states in histone deacetylase inhibitors

Ransomware Mitigation in the Modern Era: A Comprehensive Review, Research Challenges, and Future Directions

Recent advances in sequence assembly: principles and applications

Regulatory and coding genome regions are enriched for trait associated variants in dairy and beef cattle

Research on folding diversity in statistical learning methods for RNA secondary structure prediction.

Semantic and layered protein function prediction from PPI networks

Semantically predicting protein functions based on protein functional connectivity

Significant cancer prevention factor extraction: an association rule discovery approach.

Structure-based drug design to augment hit discovery

Subdividing globally important zones based on data distribution across multiple genome fragments